Citrus Sinensis ID: 004362

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------76
Protein Sequence
MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKASK
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHccccHHHHHHHHHHcHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHcccccccHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHcc
Coil and Loop (DISEMBL)
MGRSVLPKHVAAVVKHQKNPLTALEMFNsvkredgfkHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDvddsllegVHIGVMrnygrrgkvQEAVDVFErmdfynceptvlsYNTIMNILVEYGYFSQVHKVYMRMrnkgivpdvYTFVIRIKSFCRTRRPHVALRLLknmpsqgfepnAVAYCTLIAGFYEENHNVEAYELFDEmlgmgispdiATFNKLIHTLCKKGNVRESEKLFNKVLkrgvspnlftfNMFIQGLCRKGAISEAISLLDslgredltpdvvtyntlmcglcknsKVVEAEYYLHKMvneglepdgfsynAVIDGYCKAGMISSADKILNDAifkgfvpdeftYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEmsesgccpdmwtyNIVINGLckmgcvsdannlvndaiskgyipdiftfNTLIDGYCKQLKMEIAIEILNTMwshgvtpdviTYNSLLNGLCKAAKSEDVMETFKTMIEkrcvpniiTYSILGESLCKAHKITEAFNLLEEMEnkgltldtVAFGTLINgfcnsgdldGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMsekgcppdnytyRIMIDSFcktgginsgyclllenidkgfipslstIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEadkrevaspkiVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKASK
Flexible Loop (DISEMBL)
mgrsvlpkhvaavvkhqknpltalemfnsvkredGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIgvmrnygrrgKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLlknmpsqgfEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFeadkrevaspkivvedllkKSHITYYAYELLFDGIRDKKLLKKKASK
Low Complexity Region (SEG)
MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFeemenlllemrmDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDkkllkkkASK
Disordered region (IsUnstruct)
*********VAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRD**********
Disordered Region (DISOPRED)
**RSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKAS*
Disordered Region (DISEMBL)
MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKASK
Disordered Region (DISPRO)
MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLK*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKASK
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	759	2.2.26 [Sep-21-2011]
Q9CA58	763	Putative pentatricopeptid	yes	no	0.997	0.992	0.647	0.0
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.828	0.861	0.316	1e-101
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.864	0.870	0.296	9e-90
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.770	0.952	0.312	1e-85
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.743	0.911	0.311	5e-85
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.732	0.863	0.304	1e-84
Q9SS81	687	Pentatricopeptide repeat-	no	no	0.881	0.973	0.286	2e-84
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.731	0.880	0.316	3e-83
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.729	0.880	0.313	1e-81
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.729	0.892	0.300	1e-81

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

 Score = 1046 bits (2706), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 490/757 (64%), Positives = 615/757 (81%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           MG  +LPKHV AV+K QK+P+ ALEMFNS+++E GFKHTL TY+ +I+KLG++G FE ME
Sbjct: 1   MGPPLLPKHVTAVIKCQKDPMKALEMFNSMRKEVGFKHTLSTYRSVIEKLGYYGKFEAME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
            +L++MR +V + +LEGV++G M+NYGR+GKVQEAV+VFERMDFY+CEPTV SYN IM++
Sbjct: 61  EVLVDMRENVGNHMLEGVYVGAMKNYGRKGKVQEAVNVFERMDFYDCEPTVFSYNAIMSV 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LV+ GYF Q HKVYMRMR++GI PDVY+F IR+KSFC+T RPH ALRLL NM SQG E N
Sbjct: 121 LVDSGYFDQAHKVYMRMRDRGITPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEMN 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
            VAYCT++ GFYEEN   E YELF +ML  G+S  ++TFNKL+  LCKKG+V+E EKL +
Sbjct: 181 VVAYCTVVGGFYEENFKAEGYELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKECEKLLD 240

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           KV+KRGV PNLFT+N+FIQGLC++G +  A+ ++  L  +   PDV+TYN L+ GLCKNS
Sbjct: 241 KVIKRGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNS 300

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
           K  EAE YL KMVNEGLEPD ++YN +I GYCK GM+  A++I+ DA+F GFVPD+FTY 
Sbjct: 301 KFQEAEVYLGKMVNEGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNGFVPDQFTYR 360

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           SLI+GLC +G+ +RA+A++ +AL KG+KP+++LYNTLIKGLS QG+IL+A QL NEMSE 
Sbjct: 361 SLIDGLCHEGETNRALALFNEALGKGIKPNVILYNTLIKGLSNQGMILEAAQLANEMSEK 420

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           G  P++ T+NI++NGLCKMGCVSDA+ LV   ISKGY PDIFTFN LI GY  QLKME A
Sbjct: 421 GLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILIHGYSTQLKMENA 480

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
           +EIL+ M  +GV PDV TYNSLLNGLCK +K EDVMET+KTM+EK C PN+ T++IL ES
Sbjct: 481 LEILDVMLDNGVDPDVYTYNSLLNGLCKTSKFEDVMETYKTMVEKGCAPNLFTFNILLES 540

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
           LC+  K+ EA  LLEEM+NK +  D V FGTLI+GFC +GDLDGAY LFR+ME+ YK+S 
Sbjct: 541 LCRYRKLDEALGLLEEMKNKSVNPDAVTFGTLIDGFCKNGDLDGAYTLFRKMEEAYKVSS 600

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
           +T TYNI+I+AF+EKLN  MAEKLF EM ++   PD YTYR+M+D FCKTG +N GY  L
Sbjct: 601 STPTYNIIIHAFTEKLNVTMAEKLFQEMVDRCLGPDGYTYRLMVDGFCKTGNVNLGYKFL 660

Query: 661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           LE ++ GFIPSL+T+GRVINCLCV+ RV+EA G +H MVQKG+VPE VNTI + DK+EVA
Sbjct: 661 LEMMENGFIPSLTTLGRVINCLCVEDRVYEAAGIIHRMVQKGLVPEAVNTICDVDKKEVA 720

Query: 721 SPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKA 757
           +PK+V+EDLLKKS ITYYAYELLFDG+RDK+L KKK 
Sbjct: 721 APKLVLEDLLKKSCITYYAYELLFDGLRDKRLRKKKG 757

Arabidopsis thaliana (taxid: 3702)

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

 Score =  370 bits (949), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 213/672 (31%), Positives = 360/672 (53%), Gaps = 43/672 (6%)

Query: 5   VLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLL 64
           + P  +  +++   N  T++E+F+    ++G++H+   Y+ +I KLG +G F+ ++ LL+
Sbjct: 76  ITPFQLYKLLELPLNVSTSMELFSWTGSQNGYRHSFDVYQVLIGKLGANGEFKTIDRLLI 135

Query: 65  EMRMDVDDSLLEGVHIGVMRNYGRRG-KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVE 123
           +M+ D      E + I +MR+Y + G   Q    + E  + Y+CEPT  SYN ++ ILV 
Sbjct: 136 QMK-DEGIVFKESLFISIMRDYDKAGFPGQTTRLMLEMRNVYSCEPTFKSYNVVLEILVS 194

Query: 124 YGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVA 183
                    V+  M ++ I P ++TF + +K+FC       AL LL++M   G  PN+V 
Sbjct: 195 GNCHKVAANVFYDMLSRKIPPTLFTFGVVMKAFCAVNEIDSALSLLRDMTKHGCVPNSVI 254

Query: 184 YCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVL 243
           Y TLI    + N   EA +L +EM  MG  PD  TFN +I  LCK   + E+ K+ N++L
Sbjct: 255 YQTLIHSLSKCNRVNEALQLLEEMFLMGCVPDAETFNDVILGLCKFDRINEAAKMVNRML 314

Query: 244 KRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVV 303
            RG +P+  T+   + GLC+ G +  A  L   + +    P++V +NTL+ G   + ++ 
Sbjct: 315 IRGFAPDDITYGYLMNGLCKIGRVDAAKDLFYRIPK----PEIVIFNTLIHGFVTHGRLD 370

Query: 304 EAEYYLHKMVNE-GLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSL 362
           +A+  L  MV   G+ PD  +YN++I GY K G++  A ++L+D   KG  P+ ++Y  L
Sbjct: 371 DAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYTIL 430

Query: 363 INGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGC 422
           ++G C+ G +D A  V  +    GLKP+ V +N LI    ++  I +A+++  EM   GC
Sbjct: 431 VDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIFREMPRKGC 490

Query: 423 CPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIE 482
            PD++T+N +I+GLC++  +  A  L+ D IS+G + +  T+NTLI+ + ++ +++ A +
Sbjct: 491 KPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINAFLRRGEIKEARK 550

Query: 483 ILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLC 542
           ++N M   G   D ITYNSL+ GLC+A + +     F+ M+     P+ I+ +IL   LC
Sbjct: 551 LVNEMVFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPSNISCNILINGLC 610

Query: 543 KAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTT 602
           ++  + EA    +EM  +G T D V F +LING C +G ++    +FR+++ +       
Sbjct: 611 RSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIEDGLTMFRKLQAE------- 663

Query: 603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLE 662
                                        G PPD  T+  ++   CK G +     LL E
Sbjct: 664 -----------------------------GIPPDTVTFNTLMSWLCKGGFVYDACLLLDE 694

Query: 663 NIDKGFIPSLST 674
            I+ GF+P+  T
Sbjct: 695 GIEDGFVPNHRT 706

Arabidopsis thaliana (taxid: 3702)

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

 Score =  332 bits (850), Expect = 9e-90,   Method: Compositional matrix adjust.
 Identities = 207/697 (29%), Positives = 344/697 (49%), Gaps = 41/697 (5%)

Query: 14  VKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDS 73
           ++ Q +   AL +FN   ++  F      Y+ ++ +LG  G+F++M+ +L +M+    + 
Sbjct: 57  LRSQPDDSAALRLFNLASKKPNFSPEPALYEEILLRLGRSGSFDDMKKILEDMKSSRCE- 115

Query: 74  LLEGVHIGVMRNYGRRGKVQEAVDVFERM-DFYNCEPTVLSYNTIMNILVEYGYFSQVHK 132
           +     + ++ +Y +     E + V + M D +  +P    YN ++N+LV+      V  
Sbjct: 116 MGTSTFLILIESYAQFELQDEILSVVDWMIDEFGLKPDTHFYNRMLNLLVDGNSLKLVEI 175

Query: 133 VYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFY 192
            + +M   GI PDV TF + IK+ CR  +   A+ +L++MPS G  P+   + T++ G+ 
Sbjct: 176 SHAKMSVWGIKPDVSTFNVLIKALCRAHQLRPAILMLEDMPSYGLVPDEKTFTTVMQGYI 235

Query: 193 EENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKR-GVSPNL 251
           EE     A  + ++M+  G S    + N ++H  CK+G V ++     ++  + G  P+ 
Sbjct: 236 EEGDLDGALRIREQMVEFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEMSNQDGFFPDQ 295

Query: 252 FTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHK 311
           +TFN  + GLC+ G +  AI ++D + +E   PDV TYN+++ GLCK  +V EA   L +
Sbjct: 296 YTFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEAVEVLDQ 355

Query: 312 MVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGD 371
           M+     P+  +YN +I   CK   +  A ++      KG +PD  T+ SLI GLC   +
Sbjct: 356 MITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQGLCLTRN 415

Query: 372 VDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNI 431
              AM ++ +   KG +P    YN LI  L  +G + +AL ++ +M  SGC   + TYN 
Sbjct: 416 HRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNT 475

Query: 432 VINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHG 491
           +I+G CK     +A  + ++    G   +  T+NTLIDG CK  ++E A ++++ M   G
Sbjct: 476 LIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEG 535

Query: 492 VTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAF 551
             PD  TYNSLL   C+    +   +  + M    C P+I+TY  L   LCKA ++  A 
Sbjct: 536 QKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAGRVEVAS 595

Query: 552 NLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA 611
            LL  ++ KG+ L   A+  +I G            LFR+ +       TT   N     
Sbjct: 596 KLLRSIQMKGINLTPHAYNPVIQG------------LFRKRK-------TTEAIN----- 631

Query: 612 FSEKLNFYMAEKLFYEMSEKG-CPPDNYTYRIMIDSFCKTGG-INSGYCLLLENIDKGFI 669
                       LF EM E+   PPD  +YRI+    C  GG I      L+E ++KGF+
Sbjct: 632 ------------LFREMLEQNEAPPDAVSYRIVFRGLCNGGGPIREAVDFLVELLEKGFV 679

Query: 670 PSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE 706
           P  S++  +   L         V  V++++QK    E
Sbjct: 680 PEFSSLYMLAEGLLTLSMEETLVKLVNMVMQKARFSE 716

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN5|PPR98_ARATH Pentatricopeptide repeat-containing protein At1g63080, mitochondrial OS=Arabidopsis thaliana GN=At1g63080 PE=2 SV=1

 Score =  318 bits (814), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 187/598 (31%), Positives = 314/598 (52%), Gaps = 13/598 (2%)

Query: 76  EGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYM 135
           +G    + RN     K+ EAVD+F  M      P+++ ++ +++ + +   F  V     
Sbjct: 30  DGYREKLSRNALLHLKLDEAVDLFGEMVKSRPFPSIVEFSKLLSAIAKMKKFDLVISFGE 89

Query: 136 RMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEEN 195
           +M   G+  ++YT+ I I   CR  +   AL +L  M   G+ P+ V   +L+ GF   N
Sbjct: 90  KMEILGVSHNLYTYNIMINCLCRRSQLSFALAILGKMMKLGYGPSIVTLNSLLNGFCHGN 149

Query: 196 HNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFN 255
              EA  L D+M+ MG  PD  TF  L+H L +     E+  L  +++ +G  P+L T+ 
Sbjct: 150 RISEAVALVDQMVEMGYQPDTVTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTYG 209

Query: 256 MFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNE 315
             I GLC++G    A++LL+ + +  +  DVV Y+T++  LCK   V +A     +M N+
Sbjct: 210 AVINGLCKRGEPDLALNLLNKMEKGKIEADVVIYSTVIDSLCKYRHVDDALNLFTEMDNK 269

Query: 316 GLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRA 375
           G+ PD F+Y+++I   C  G  S A ++L+D + +   P+  T+ SLI+   ++G +  A
Sbjct: 270 GIRPDVFTYSSLISCLCNYGRWSDASRLLSDMLERKINPNVVTFNSLIDAFAKEGKLIEA 329

Query: 376 MAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVING 435
             ++ + +++ + P+IV YN+LI G      + +A Q+   M    C PD+ TYN +ING
Sbjct: 330 EKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLING 389

Query: 436 LCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD 495
            CK   V D   L  D   +G + +  T+ TLI G+ +    + A  +   M S GV P+
Sbjct: 390 FCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVHPN 449

Query: 496 VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLE 555
           ++TYN+LL+GLCK  K E  M  F+ + + +  P+I TY+I+ E +CKA K+ + ++L  
Sbjct: 450 IMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGWDLFC 509

Query: 556 EMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK 615
            +  KG+  D +A+ T+I+GFC  G  + AY LF +M++   +   + TYN +I A    
Sbjct: 510 SLSLKGVKPDVIAYNTMISGFCKKGLKEEAYTLFIKMKEDGPLPD-SGTYNTLIRAHLRD 568

Query: 616 LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS 673
            +   + +L  EM       D  TY ++ D       ++ G       +DKGF+  LS
Sbjct: 569 GDKAASAELIKEMRSCRFAGDASTYGLVTDM------LHDG------RLDKGFLEVLS 614

Arabidopsis thaliana (taxid: 3702)

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

 Score =  316 bits (809), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 187/601 (31%), Positives = 299/601 (49%), Gaps = 37/601 (6%)

Query: 91  KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFV 150
           KV +A+D+FE M      PT + +N + + +     +  V      M   GI  D+YT  
Sbjct: 50  KVNDAIDLFESMIQSRPLPTPIDFNRLCSAVARTKQYDLVLGFCKGMELNGIEHDMYTMT 109

Query: 151 IRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGM 210
           I I  +CR ++   A  +L      G+EP                               
Sbjct: 110 IMINCYCRKKKLLFAFSVLGRAWKLGYEP------------------------------- 138

Query: 211 GISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEA 270
               D  TF+ L++  C +G V E+  L +++++    P+L T +  I GLC KG +SEA
Sbjct: 139 ----DTITFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSEA 194

Query: 271 ISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDG 330
           + L+D +      PD VTY  ++  LCK+     A     KM    ++     Y+ VID 
Sbjct: 195 LVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVIDS 254

Query: 331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS 390
            CK G    A  + N+   KG   D  TY SLI GLC DG  D    +  + + + + P 
Sbjct: 255 LCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPD 314

Query: 391 IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVN 450
           +V ++ LI    ++G +L+A +L NEM   G  PD  TYN +I+G CK  C+ +AN + +
Sbjct: 315 VVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFD 374

Query: 451 DAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA 510
             +SKG  PDI T++ LI+ YCK  +++  + +   + S G+ P+ ITYN+L+ G C++ 
Sbjct: 375 LMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSG 434

Query: 511 KSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFG 570
           K     E F+ M+ +   P+++TY IL + LC   ++ +A  + E+M+   +TL    + 
Sbjct: 435 KLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYN 494

Query: 571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE 630
            +I+G CN+  +D A+ LF  + D+  +     TYN+MI    +K +   A+ LF +M E
Sbjct: 495 IIIHGMCNASKVDDAWSLFCSLSDK-GVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKE 553

Query: 631 KGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHE 690
            GC PD++TY I+I +     G+ S   L+ E    GF    STI  VI+ L  D R+ +
Sbjct: 554 DGCTPDDFTYNILIRAHLGGSGLISSVELIEEMKVCGFSADSSTIKMVIDMLS-DRRLDK 612

Query: 691 A 691
           +
Sbjct: 613 S 613

Arabidopsis thaliana (taxid: 3702)

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

 Score =  314 bits (805), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 180/592 (30%), Positives = 302/592 (51%), Gaps = 36/592 (6%)

Query: 91  KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFV 150
           K  +AVD+F  M      PTV+ +N + + + +   +  V  +  +M +KGI   +YT  
Sbjct: 68  KADDAVDLFRDMIQSRPLPTVIDFNRLFSAIAKTKQYELVLALCKQMESKGIAHSIYTLS 127

Query: 151 IRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGM 210
           I I  FCR R+                    ++Y               A+    +++ +
Sbjct: 128 IMINCFCRCRK--------------------LSY---------------AFSTMGKIMKL 152

Query: 211 GISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEA 270
           G  PD   FN L++ LC +  V E+ +L +++++ G  P L T N  + GLC  G +S+A
Sbjct: 153 GYEPDTVIFNTLLNGLCLECRVSEALELVDRMVEMGHKPTLITLNTLVNGLCLNGKVSDA 212

Query: 271 ISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDG 330
           + L+D +      P+ VTY  ++  +CK+ +   A   L KM    ++ D   Y+ +IDG
Sbjct: 213 VVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALAMELLRKMEERNIKLDAVKYSIIIDG 272

Query: 331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS 390
            CK G + +A  + N+   KGF  D  TY +LI G C  G  D    +    +++ + P+
Sbjct: 273 LCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPN 332

Query: 391 IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVN 450
           +V ++ LI    ++G + +A QL+ EM + G  P+  TYN +I+G CK   + +A  +V+
Sbjct: 333 VVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVD 392

Query: 451 DAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA 510
             ISKG  PDI TFN LI+GYCK  +++  +E+   M   GV  + +TYN+L+ G C++ 
Sbjct: 393 LMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSG 452

Query: 511 KSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFG 570
           K E   + F+ M+ +R  P+I++Y IL + LC   ++ +A  +  ++E   + LD   + 
Sbjct: 453 KLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCDNGELEKALEIFGKIEKSKMELDIGIYM 512

Query: 571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE 630
            +I+G CN+  +D A+ LF  +  +  +      YNIMI+    K +   A+ LF +M+E
Sbjct: 513 IIIHGMCNASKVDDAWDLFCSLPLK-GVKLDARAYNIMISELCRKDSLSKADILFRKMTE 571

Query: 631 KGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL 682
           +G  PD  TY I+I +        +   L+ E    GF   +ST+  VIN L
Sbjct: 572 EGHAPDELTYNILIRAHLGDDDATTAAELIEEMKSSGFPADVSTVKMVINML 623

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS81|PP221_ARATH Pentatricopeptide repeat-containing protein At3g09060 OS=Arabidopsis thaliana GN=At3g09060 PE=2 SV=1

 Score =  313 bits (803), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 193/674 (28%), Positives = 338/674 (50%), Gaps = 5/674 (0%)

Query: 3   RSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENL 62
           +S+ PKHV  ++K +KNP  A  +F+S  R  G+ H+ + Y +++ +L        +  +
Sbjct: 6   KSLSPKHVLKLLKSEKNPRAAFALFDSATRHPGYAHSAVVYHHILRRLSETRMVNHVSRI 65

Query: 63  LLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERM-DFYNCEPTVLSYNTIMNIL 121
           + E+    +    E V + V++ YG+     +A+DVF+RM + + CEP + SYNT++N  
Sbjct: 66  V-ELIRSQECKCDEDVALSVIKTYGKNSMPDQALDVFKRMREIFGCEPAIRSYNTLLNAF 124

Query: 122 VEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNA 181
           VE   + +V  ++      G+ P++ T+ + IK  C+ +    A   L  M  +GF+P+ 
Sbjct: 125 VEAKQWVKVESLFAYFETAGVAPNLQTYNVLIKMSCKKKEFEKARGFLDWMWKEGFKPDV 184

Query: 182 VAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNK 241
            +Y T+I    +     +A ELFDEM   G++PD+  +N LI    K+ + + + +L+++
Sbjct: 185 FSYSTVINDLAKAGKLDDALELFDEMSERGVAPDVTCYNILIDGFLKEKDHKTAMELWDR 244

Query: 242 VLK-RGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           +L+   V PN+ T N+ I GL + G + + + + + + + +   D+ TY++L+ GLC   
Sbjct: 245 LLEDSSVYPNVKTHNIMISGLSKCGRVDDCLKIWERMKQNEREKDLYTYSSLIHGLCDAG 304

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
            V +AE   +++       D  +YN ++ G+C+ G I  + ++      K  V +  +Y 
Sbjct: 305 NVDKAESVFNELDERKASIDVVTYNTMLGGFCRCGKIKESLELWRIMEHKNSV-NIVSYN 363

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
            LI GL ++G +D A  ++     KG       Y   I GL   G + +AL +M E+  S
Sbjct: 364 ILIKGLLENGKIDEATMIWRLMPAKGYAADKTTYGIFIHGLCVNGYVNKALGVMQEVESS 423

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           G   D++ Y  +I+ LCK   + +A+NLV +    G   +    N LI G  +  ++  A
Sbjct: 424 GGHLDVYAYASIIDCLCKKKRLEEASNLVKEMSKHGVELNSHVCNALIGGLIRDSRLGEA 483

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
              L  M  +G  P V++YN L+ GLCKA K  +     K M+E    P++ TYSIL   
Sbjct: 484 SFFLREMGKNGCRPTVVSYNILICGLCKAGKFGEASAFVKEMLENGWKPDLKTYSILLCG 543

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
           LC+  KI  A  L  +    GL  D +    LI+G C+ G LD A  +   ME +   + 
Sbjct: 544 LCRDRKIDLALELWHQFLQSGLETDVMMHNILIHGLCSVGKLDDAMTVMANMEHR-NCTA 602

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
              TYN ++  F +  +   A  ++  M + G  PD  +Y  ++   C   G++      
Sbjct: 603 NLVTYNTLMEGFFKVGDSNRATVIWGYMYKMGLQPDIISYNTIMKGLCMCRGVSYAMEFF 662

Query: 661 LENIDKGFIPSLST 674
            +  + G  P++ T
Sbjct: 663 DDARNHGIFPTVYT 676

Arabidopsis thaliana (taxid: 3702)

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

 Score =  310 bits (793), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 176/556 (31%), Positives = 296/556 (53%), Gaps = 1/556 (0%)

Query: 84  RNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIV 143
           RN     K+ +AV +F  M      P+++ ++ +++ + +   F  V  +  +M+N GI 
Sbjct: 54  RNGLSELKLDDAVALFGEMVKSRPFPSIIEFSKLLSAIAKMNKFDVVISLGEQMQNLGIP 113

Query: 144 PDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYEL 203
            + YT+ I I  FCR  +  +AL +L  M   G+EPN V   +L+ G+       EA  L
Sbjct: 114 HNHYTYSILINCFCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAVAL 173

Query: 204 FDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCR 263
            D+M   G  P+  TFN LIH L       E+  L ++++ +G  P+L T+ + + GLC+
Sbjct: 174 VDQMFVTGYQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCK 233

Query: 264 KGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFS 323
           +G    A +LL+ + +  L P V+ YNT++ GLCK   + +A     +M  +G+ P+  +
Sbjct: 234 RGDTDLAFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVT 293

Query: 324 YNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKAL 383
           Y+++I   C  G  S A ++L+D I +   PD FT+ +LI+   ++G +  A  +Y + +
Sbjct: 294 YSSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMV 353

Query: 384 EKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVS 443
           ++ + PSIV Y++LI G      + +A Q+   M    C PD+ TYN +I G CK   V 
Sbjct: 354 KRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVE 413

Query: 444 DANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLL 503
           +   +  +   +G + +  T+N LI G  +    ++A EI   M S GV P+++TYN+LL
Sbjct: 414 EGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLL 473

Query: 504 NGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLT 563
           +GLCK  K E  M  F+ +   +  P I TY+I+ E +CKA K+ + ++L   +  KG+ 
Sbjct: 474 DGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVK 533

Query: 564 LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEK 623
            D VA+ T+I+GFC  G  + A  LF+ M++   + + +  YN +I A     +   + +
Sbjct: 534 PDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPN-SGCYNTLIRARLRDGDREASAE 592

Query: 624 LFYEMSEKGCPPDNYT 639
           L  EM   G   D  T
Sbjct: 593 LIKEMRSCGFAGDAST 608

Arabidopsis thaliana (taxid: 3702)

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

 Score =  305 bits (780), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 174/555 (31%), Positives = 296/555 (53%), Gaps = 1/555 (0%)

Query: 91  KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFV 150
           K+ +AVD+F  M      P+++ +N +++ + +   F  V  +  RM+N  I  D+Y++ 
Sbjct: 60  KLDDAVDLFGEMVQSRPLPSIVEFNKLLSAIAKMNKFDLVISLGERMQNLRISYDLYSYN 119

Query: 151 IRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGM 210
           I I  FCR  +  +AL +L  M   G+EP+ V   +L+ G+       EA  L D+M  M
Sbjct: 120 ILINCFCRRSQLPLALAVLGKMMKLGYEPDIVTLSSLLNGYCHGKRISEAVALVDQMFVM 179

Query: 211 GISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEA 270
              P+  TFN LIH L       E+  L ++++ RG  P+LFT+   + GLC++G I  A
Sbjct: 180 EYQPNTVTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLA 239

Query: 271 ISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDG 330
           +SLL  + +  +  DVV Y T++  LC    V +A     +M N+G+ P+  +YN++I  
Sbjct: 240 LSLLKKMEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRC 299

Query: 331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS 390
            C  G  S A ++L+D I +   P+  T+ +LI+   ++G +  A  +Y + +++ + P 
Sbjct: 300 LCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPD 359

Query: 391 IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVN 450
           I  Y++LI G      + +A  +   M    C P++ TYN +I G CK   V +   L  
Sbjct: 360 IFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFR 419

Query: 451 DAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA 510
           +   +G + +  T+NTLI G  +    ++A +I   M S GV PD+ITY+ LL+GLCK  
Sbjct: 420 EMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYG 479

Query: 511 KSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFG 570
           K E  +  F+ + + +  P+I TY+I+ E +CKA K+ + ++L   +  KG+  + + + 
Sbjct: 480 KLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVIIYT 539

Query: 571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE 630
           T+I+GFC  G  + A  LFR M++   + + + TYN +I A     +   + +L  EM  
Sbjct: 540 TMISGFCRKGLKEEADALFREMKEDGTLPN-SGTYNTLIRARLRDGDKAASAELIKEMRS 598

Query: 631 KGCPPDNYTYRIMID 645
            G   D  T  ++I+
Sbjct: 599 CGFVGDASTISMVIN 613

Arabidopsis thaliana (taxid: 3702)

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

 Score =  304 bits (779), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 167/555 (30%), Positives = 290/555 (52%), Gaps = 1/555 (0%)

Query: 91  KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFV 150
           K  +AVD+F+ M      P ++ ++ + +++     +  V  +  +M  KGI  ++YT  
Sbjct: 52  KEDDAVDLFQEMTRSRPRPRLIDFSRLFSVVARTKQYDLVLDLCKQMELKGIAHNLYTLS 111

Query: 151 IRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGM 210
           I I   CR R+  +A   +  +   G+EP+ V + TLI G   E    EA EL D M+ M
Sbjct: 112 IMINCCCRCRKLSLAFSAMGKIIKLGYEPDTVTFSTLINGLCLEGRVSEALELVDRMVEM 171

Query: 211 GISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEA 270
           G  P + T N L++ LC  G V ++  L +++++ G  PN  T+   ++ +C+ G  + A
Sbjct: 172 GHKPTLITLNALVNGLCLNGKVSDAVLLIDRMVETGFQPNEVTYGPVLKVMCKSGQTALA 231

Query: 271 ISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDG 330
           + LL  +    +  D V Y+ ++ GLCK+  +  A    ++M  +G + D   Y  +I G
Sbjct: 232 MELLRKMEERKIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIRG 291

Query: 331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS 390
           +C AG      K+L D I +   PD   + +LI+   ++G +  A  ++ + +++G+ P 
Sbjct: 292 FCYAGRWDDGAKLLRDMIKRKITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISPD 351

Query: 391 IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVN 450
            V Y +LI G  ++  + +A  +++ M   GC P++ T+NI+ING CK   + D   L  
Sbjct: 352 TVTYTSLIDGFCKENQLDKANHMLDLMVSKGCGPNIRTFNILINGYCKANLIDDGLELFR 411

Query: 451 DAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA 510
               +G + D  T+NTLI G+C+  K+E+A E+   M S  V PD+++Y  LL+GLC   
Sbjct: 412 KMSLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEMVSRRVRPDIVSYKILLDGLCDNG 471

Query: 511 KSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFG 570
           + E  +E F+ + + +   +I  Y+I+   +C A K+ +A++L   +  KG+  D   + 
Sbjct: 472 EPEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKGVKPDVKTYN 531

Query: 571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE 630
            +I G C  G L  A  LFR+ME+    S    TYNI+I A   + +   + KL  E+  
Sbjct: 532 IMIGGLCKKGSLSEADLLFRKMEEDGH-SPNGCTYNILIRAHLGEGDATKSAKLIEEIKR 590

Query: 631 KGCPPDNYTYRIMID 645
            G   D  T ++++D
Sbjct: 591 CGFSVDASTVKMVVD 605

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	759
225456753	764	PREDICTED: putative pentatricopeptide re	0.994	0.988	0.752	0.0
224113511	761	predicted protein [Populus trichocarpa]	0.996	0.993	0.75	0.0
449524916	877	PREDICTED: LOW QUALITY PROTEIN: putative	0.996	0.862	0.695	0.0
449439615	857	PREDICTED: putative pentatricopeptide re	0.996	0.882	0.693	0.0
255541015	735	pentatricopeptide repeat-containing prot	0.953	0.985	0.681	0.0
356562834	747	PREDICTED: putative pentatricopeptide re	0.961	0.977	0.671	0.0
357477565	932	hypothetical protein MTR_4g108600 [Medic	0.936	0.762	0.679	0.0
297839331	763	pentatricopeptide repeat-containing prot	0.997	0.992	0.652	0.0
15221300	763	pentatricopeptide repeat-containing prot	0.997	0.992	0.647	0.0
414592066	768	TPA: hypothetical protein ZEAMMB73_02173	0.942	0.930	0.534	0.0

>gi|225456753|ref|XP_002268934.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g74580 [Vitis vinifera] gi|297733985|emb|CBI15232.3| unnamed protein product [Vitis vinifera]

 Score = 1210 bits (3131), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 569/756 (75%), Positives = 664/756 (87%), Gaps = 1/756 (0%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           M  ++LPKHVAAVVK+QKNPL ALE+FNSVK+EDGFKHTLLTYK MI+KLGFHG FE ME
Sbjct: 1   MSPALLPKHVAAVVKYQKNPLKALEIFNSVKKEDGFKHTLLTYKGMIEKLGFHGEFEAME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
            +L E RM++D+ LLEGV+IG MRNYGR+GK+QEAVDVFERMDF+NCEP+V SYN IMNI
Sbjct: 61  EVLAETRMNIDNGLLEGVYIGAMRNYGRKGKIQEAVDVFERMDFFNCEPSVQSYNAIMNI 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LVEY YF Q HKVYMRMR+KGIVPDVYTF IR+KSFCRT RPH A RLL NMPSQG E +
Sbjct: 121 LVEYRYFDQAHKVYMRMRDKGIVPDVYTFTIRMKSFCRTSRPHAARRLLNNMPSQGCESS 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
           AVAYCT+I GFYEENH VEA+ELF+EMLG+GI PDI  FNKLIHTLC+KG+V+ESE+L N
Sbjct: 181 AVAYCTVIGGFYEENHRVEAHELFEEMLGLGICPDIMAFNKLIHTLCRKGHVQESERLLN 240

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           KVLKRGVSPNLFT N+FIQG C++  ++EAI LLD +GR  LTPDV+TYNTL+CGLCKN 
Sbjct: 241 KVLKRGVSPNLFTVNIFIQGFCQRAMLNEAIRLLDGVGR-GLTPDVITYNTLICGLCKNF 299

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
           KVVEAE+YL KMVNEG EPDGF+YN++IDGYCK GM+ +AD+IL D  FKGFVPDE TYC
Sbjct: 300 KVVEAEHYLRKMVNEGYEPDGFTYNSIIDGYCKLGMMQNADQILRDGAFKGFVPDESTYC 359

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           SLINGLCQDGD+DRA+ V+ +A+EKGLKP++VL NTL+KGLSQQGLILQAL+LMNEMSE+
Sbjct: 360 SLINGLCQDGDIDRAINVFNEAMEKGLKPNLVLCNTLVKGLSQQGLILQALKLMNEMSEN 419

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           GC PD+WTYN+VINGLCK+GCVSDA+NLV DAI+KG++PD+FTFNTLIDGYCK+LK++ A
Sbjct: 420 GCSPDIWTYNLVINGLCKIGCVSDADNLVIDAIAKGHLPDVFTFNTLIDGYCKKLKLDNA 479

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
           IEI++ MW+HGV+PDVITYNS+LNGLCKA K EDVM TFK M+EK CVPNIITY+IL ES
Sbjct: 480 IEIVDRMWNHGVSPDVITYNSILNGLCKAGKYEDVMGTFKLMMEKGCVPNIITYNILTES 539

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
            CKA K+ EA NL+EEM+NKGLT D V FGTL+ GFC++GDLDGAYQLF+R+++QYK SH
Sbjct: 540 FCKARKVEEALNLIEEMQNKGLTPDVVNFGTLMKGFCDNGDLDGAYQLFKRVDEQYKFSH 599

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
           T ATYNIMINAF+ KLN  MAEKLF +M E G  PD+YTYR+MID FCKTG INSGY  L
Sbjct: 600 TIATYNIMINAFAGKLNMNMAEKLFNKMCENGFSPDSYTYRVMIDGFCKTGNINSGYSFL 659

Query: 661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           L  I+KG IPSL+T GRV+NCLC+  RVHEAVG +HLMV KGIVPEVVNTIFEADK+EVA
Sbjct: 660 LVKIEKGLIPSLTTFGRVLNCLCLKRRVHEAVGIIHLMVHKGIVPEVVNTIFEADKKEVA 719

Query: 721 SPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKK 756
           +PKIVVE+L+KK HITY+AYE+L DGIRDKKL +KK
Sbjct: 720 APKIVVENLMKKGHITYFAYEILHDGIRDKKLSRKK 755

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224113511|ref|XP_002316516.1| predicted protein [Populus trichocarpa] gi|222865556|gb|EEF02687.1| predicted protein [Populus trichocarpa]

 Score = 1207 bits (3122), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 567/756 (75%), Positives = 661/756 (87%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           M  S+LPKHVAAV+K QK+PL ALEMFN VKREDGFKH+LLTYK +I KLGFHGNF  ME
Sbjct: 1   MSASLLPKHVAAVLKQQKDPLKALEMFNKVKREDGFKHSLLTYKCIIQKLGFHGNFVAME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
           N+L E RMD+D+SLLEGV+IG M++YGR+GKVQEAVDVFERMDFYNCEP+VLSYN IMNI
Sbjct: 61  NVLAETRMDIDNSLLEGVYIGAMKSYGRKGKVQEAVDVFERMDFYNCEPSVLSYNAIMNI 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LVE GYF Q HKV++RM+N GIVPDVYTF IRIKSFCRT+RPH ALRLL NM SQG + N
Sbjct: 121 LVESGYFKQAHKVFLRMKNVGIVPDVYTFTIRIKSFCRTKRPHSALRLLNNMVSQGCQLN 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
           AVAYCT++AGFYEEN+ VEAYELF++ML +GI PD++TFNKL+HTLCKKG V+ESE+L N
Sbjct: 181 AVAYCTVVAGFYEENYRVEAYELFNDMLRIGIFPDVSTFNKLLHTLCKKGEVQESERLLN 240

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           KVLK+G+  NLFTFN+FIQGLCRKG +S A+S+LDS+ RE LTPDVVTYNTL+CGLCKNS
Sbjct: 241 KVLKKGMCSNLFTFNIFIQGLCRKGMLSGAMSMLDSVIREGLTPDVVTYNTLICGLCKNS 300

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
            VVEAE YLHK+VN GLEPDGF+YN +IDGYCK GM+ +A+KIL  AI KGFVPDEFTYC
Sbjct: 301 NVVEAEKYLHKLVNGGLEPDGFTYNTLIDGYCKMGMLQNAEKILQGAICKGFVPDEFTYC 360

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           SLINGLCQ+ ++DRA+A++  AL KGLKP+++LYN LIKGL Q+GLILQALQ+MNEMSE+
Sbjct: 361 SLINGLCQNDEIDRALALFNAALGKGLKPTVILYNMLIKGLCQEGLILQALQMMNEMSEN 420

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           GC  D+WTYN+VINGLCKMGCVSDANNL+NDAI+KGY+PD+FTFNTLIDGYCKQLKME  
Sbjct: 421 GCSSDIWTYNLVINGLCKMGCVSDANNLMNDAIAKGYVPDVFTFNTLIDGYCKQLKMETT 480

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
           I+ILN MWSHGVTPDVITYNS+LNGL KA K+ED+METF+TM+EK CVPN ITY+IL ES
Sbjct: 481 IQILNKMWSHGVTPDVITYNSVLNGLSKAVKNEDLMETFETMVEKGCVPNKITYNILTES 540

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
           LCKA K+ EA +L++E+ NKG+T DTV+F T+I+GF N+GDL GAYQLFRRM +QYK+SH
Sbjct: 541 LCKAGKVNEALDLVDEILNKGITPDTVSFATIISGFANNGDLKGAYQLFRRMGEQYKVSH 600

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
           TTATYNIMINAF+EKL+ +M EKLF EM   GC PD YTYR+MID FC TG  +SGY  L
Sbjct: 601 TTATYNIMINAFAEKLDLHMGEKLFLEMGAGGCAPDTYTYRVMIDGFCITGNTDSGYKFL 660

Query: 661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           LE I+KGFIPSL+T GRVINCLCV HRVHEAV  +H MV  GIVPEVVN+I EADK+ VA
Sbjct: 661 LEMIEKGFIPSLTTFGRVINCLCVQHRVHEAVDIIHFMVHNGIVPEVVNSISEADKKVVA 720

Query: 721 SPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKK 756
           +PKIVVEDLLK+S ITYYAYELL+DGIRDKK  K+K
Sbjct: 721 APKIVVEDLLKRSCITYYAYELLYDGIRDKKTQKQK 756

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524916|ref|XP_004169467.1| PREDICTED: LOW QUALITY PROTEIN: putative pentatricopeptide repeat-containing protein At1g74580-like [Cucumis sativus]

 Score = 1118 bits (2892), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 526/756 (69%), Positives = 635/756 (83%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           M R++ PKHVAAV+++Q +PL AL+MFN VK EDGFKHTL TYK MI+KLG HG FE ME
Sbjct: 1   MNRALQPKHVAAVIRYQNDPLNALKMFNQVKTEDGFKHTLETYKCMIEKLGLHGKFEAME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
           ++L EMR +VD  +LEGV+IG+MR+YGR+GKVQEAV+VFERMDFY+CEP+V SYN IMNI
Sbjct: 61  DVLAEMRKNVDSKMLEGVYIGIMRDYGRKGKVQEAVNVFERMDFYDCEPSVQSYNAIMNI 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LVEYGYFSQ HKVYMRM++ GI PDVYT  IR+KSFC T RP  ALRLL NMP QG E N
Sbjct: 121 LVEYGYFSQAHKVYMRMKDIGIYPDVYTHTIRMKSFCITGRPTAALRLLNNMPGQGCEFN 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
           AV+YC +I+GFY+EN  +EAY LFDEML  GI PDI TFNKLIH LCKKGNV+ESEKLF+
Sbjct: 181 AVSYCAVISGFYKENCQIEAYHLFDEMLKQGICPDILTFNKLIHVLCKKGNVQESEKLFS 240

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           KV+KRGV PNLFTFN+FIQGLCRKGAI EA  LL+S+  E LTPDV++YNTL+CG CK+S
Sbjct: 241 KVMKRGVCPNLFTFNIFIQGLCRKGAIDEAARLLESIVSEGLTPDVISYNTLICGFCKHS 300

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
           K+VEAE YLHKMVN G+EP+ F+YN +I+G+CKAGM+ +ADKIL DA+FKGF+PDEFTY 
Sbjct: 301 KLVEAECYLHKMVNSGVEPNEFTYNTIINGFCKAGMMQNADKILRDAMFKGFIPDEFTYS 360

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           SLINGLC DGD++RAMAV+ +A+EKG K SI+LYNTL+KGLS+QGL+LQALQLM +M E 
Sbjct: 361 SLINGLCNDGDMNRAMAVFYEAMEKGFKHSIILYNTLVKGLSKQGLVLQALQLMKDMMEH 420

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           GC PD+WTYN+V+NGLCKMGC+SDAN ++NDAI+KG IPDIFTFNTLIDGYCKQ  M+ A
Sbjct: 421 GCSPDIWTYNLVVNGLCKMGCLSDANGILNDAIAKGCIPDIFTFNTLIDGYCKQRNMDKA 480

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
           IEIL+TM SHG+TPDVITYN+LLNGLCKA K ++V++TFK M+EK C PNIITY+IL ES
Sbjct: 481 IEILDTMLSHGITPDVITYNTLLNGLCKARKLDNVVDTFKAMLEKGCTPNIITYNILIES 540

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
            CK  K++EA  L +EM+ +GLT D V   TLI G C++G+LD AY+LF  +E +YK S+
Sbjct: 541 FCKDRKVSEAMELFKEMKTRGLTPDIVTLCTLICGLCSNGELDKAYELFVTIEKEYKFSY 600

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
           +TA +NIMINAF  KLN  MAEKLF++M    C PDNYTYR+MIDS+CKTG I+  +  L
Sbjct: 601 STAIFNIMINAFCXKLNVSMAEKLFHKMGGSDCAPDNYTYRVMIDSYCKTGNIDLAHTFL 660

Query: 661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           LENI KG +PS +T G+V+NCLCV HR+ EAV  ++LMVQ GIVPE VN+IFEADK+EVA
Sbjct: 661 LENISKGLVPSFTTCGKVLNCLCVTHRLSEAVVIINLMVQNGIVPEEVNSIFEADKKEVA 720

Query: 721 SPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKK 756
           +PKIVVE LLKKSHITYY+YELL+DGIR++KL  KK
Sbjct: 721 APKIVVEYLLKKSHITYYSYELLYDGIRNRKLDNKK 756

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439615|ref|XP_004137581.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g74580-like [Cucumis sativus]

 Score = 1117 bits (2890), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 524/756 (69%), Positives = 637/756 (84%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           M R++ PKHVAAV+++Q +PL AL+MFN VK EDGFKHTL TYK MI+KLG HG FE ME
Sbjct: 1   MNRALQPKHVAAVIRYQNDPLNALKMFNQVKTEDGFKHTLETYKCMIEKLGLHGKFEAME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
           ++L EMR +VD  +LEGV+IG+MR+YGR+GKVQEAV+VFERMDFY+CEP+V SYN IMNI
Sbjct: 61  DVLAEMRKNVDSKMLEGVYIGIMRDYGRKGKVQEAVNVFERMDFYDCEPSVQSYNAIMNI 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LVEYGYFSQ HKVYMRM++ GI PDVYT  IR+KSFC T RP  ALRLL NMP QG E N
Sbjct: 121 LVEYGYFSQAHKVYMRMKDIGIYPDVYTHTIRMKSFCITGRPTAALRLLNNMPGQGCEFN 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
           AV+YC +I+GFY+EN  +EAY LFDEML  GI PDI TFNKLIH LCKKGNV+ESEKLF+
Sbjct: 181 AVSYCAVISGFYKENCQIEAYHLFDEMLKQGICPDILTFNKLIHVLCKKGNVQESEKLFS 240

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           KV+KRGV PNLFTFN+FIQGLCRKGAI EA  LL+S+  E LTPDV++YNTL+CG CK+S
Sbjct: 241 KVMKRGVCPNLFTFNIFIQGLCRKGAIDEAARLLESIVSEGLTPDVISYNTLICGFCKHS 300

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
           K+VEAE YLHKMVN G+EP+ F+YN +I+G+CKAGM+ +ADKIL DA+FKGF+PDEFTY 
Sbjct: 301 KLVEAECYLHKMVNSGVEPNEFTYNTIINGFCKAGMMQNADKILRDAMFKGFIPDEFTYS 360

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           SLINGLC DGD++RAMAV+ +A+EKG K SI+LYNTL+KGLS+QGL+LQALQLM +M E 
Sbjct: 361 SLINGLCNDGDMNRAMAVFYEAMEKGFKHSIILYNTLVKGLSKQGLVLQALQLMKDMMEH 420

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           GC PD+WTYN+V+NGLCKMGC+SDAN ++NDAI+KG IPDIFTFNTLIDGYCKQ  M+ A
Sbjct: 421 GCSPDIWTYNLVVNGLCKMGCLSDANGILNDAIAKGCIPDIFTFNTLIDGYCKQRNMDKA 480

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
           IEIL+TM SHG+TPDVITYN+LLNGLCKA K ++V++TFK M+EK C PNIITY+IL ES
Sbjct: 481 IEILDTMLSHGITPDVITYNTLLNGLCKARKLDNVVDTFKAMLEKGCTPNIITYNILIES 540

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
            CK  K++EA  L +EM+ +GLT D V   TLI G C++G+LD AY+LF  +E +YK S+
Sbjct: 541 FCKDRKVSEAMELFKEMKTRGLTPDIVTLCTLICGLCSNGELDKAYELFVTIEKEYKFSY 600

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
           +TA +NIMINAF EKLN  MAEKLF++M    C PDNYTYR+MIDS+CKTG I+  +  L
Sbjct: 601 STAIFNIMINAFCEKLNVSMAEKLFHKMGGSDCAPDNYTYRVMIDSYCKTGNIDLAHTFL 660

Query: 661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           LENI KG +PS +T G+V+NCLCV HR+ EAV  ++LMVQ GIVPE VN+IFEADK+EVA
Sbjct: 661 LENISKGLVPSFTTCGKVLNCLCVTHRLSEAVVIINLMVQNGIVPEEVNSIFEADKKEVA 720

Query: 721 SPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKK 756
           +PKIVVE LLKKSHITYY+YELL+DGIR++K+++ +
Sbjct: 721 APKIVVEYLLKKSHITYYSYELLYDGIRNRKVVEAR 756

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255541015|ref|XP_002511572.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223550687|gb|EEF52174.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score = 1088 bits (2814), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 522/766 (68%), Positives = 622/766 (81%), Gaps = 42/766 (5%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           M   +LPKHVAAV+K+QK+PL AL +FNSVK+EDGFKHT LTYK MI+KLGFHG F+ ME
Sbjct: 1   MNSILLPKHVAAVLKYQKDPLKALSIFNSVKKEDGFKHTFLTYKRMIEKLGFHGEFDAME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
            +L+EMR++VD+SLLEGV++  MRNYGR+GKVQEAVDVFERMDFYNCEP++ SYN IMNI
Sbjct: 61  RVLMEMRLNVDNSLLEGVYVSAMRNYGRKGKVQEAVDVFERMDFYNCEPSIFSYNAIMNI 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LVEYGYF+Q HKVY+RM+++GI PDV TF IRIKSFCRT+RP  ALRLL NMPSQG E N
Sbjct: 121 LVEYGYFNQAHKVYLRMKHEGIAPDVCTFTIRIKSFCRTKRPLAALRLLNNMPSQGCELN 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
           AV YCT+I+GFYEEN+ VEAYELF                                   N
Sbjct: 181 AVVYCTVISGFYEENYQVEAYELF-----------------------------------N 205

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCK-- 298
           K+L+ G+ P++ TFN  +  LC+KG + E   LL+ + +  + P++ T+N  + GLC+  
Sbjct: 206 KMLRLGIFPHIATFNKLMHILCKKGHLQEGEKLLNKVLKNGVCPNLFTFNIFIQGLCRKG 265

Query: 299 -----NSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFV 353
                NSKVVEAE YLHKMVN+GLEPD F+YN +I GY K G I  A +IL DA FKGFV
Sbjct: 266 VLEGANSKVVEAENYLHKMVNKGLEPDDFTYNTIIYGYSKVGKIQDASRILKDAKFKGFV 325

Query: 354 PDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQL 413
           PDEFTYCSLI G+CQDGD+D A+A++ +AL KGLKPSIVLYNTLIKGLSQQGL+L+ALQL
Sbjct: 326 PDEFTYCSLIIGVCQDGDIDHALALFEEALGKGLKPSIVLYNTLIKGLSQQGLVLKALQL 385

Query: 414 MNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCK 473
           MN+MS+ G  PD+WTYN+VINGLCKMGCVSDANNL+N AI+KGY+PDIFTFNTLIDGYCK
Sbjct: 386 MNDMSKEGMSPDIWTYNLVINGLCKMGCVSDANNLLNAAIAKGYLPDIFTFNTLIDGYCK 445

Query: 474 QLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIIT 533
           +LKM+ AI IL++MWSHGVTPDVITYNS+LNGLCKAAK EDVMETFK ++EK C+PNIIT
Sbjct: 446 RLKMDNAIGILDSMWSHGVTPDVITYNSILNGLCKAAKPEDVMETFKMIMEKGCLPNIIT 505

Query: 534 YSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRME 593
           Y+IL ESLCKA K+TEA +LLEE+ N+GL  D V+FGT+I+GFCN+GDLD AYQLFRRME
Sbjct: 506 YNILIESLCKARKVTEALDLLEEIRNRGLIPDPVSFGTVISGFCNNGDLDEAYQLFRRME 565

Query: 594 DQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGI 653
            QY+I HT ATYNIMINAFSEKL+  MA+KLF+EM +KGC PD+YTYR+MID FCK G +
Sbjct: 566 QQYRICHTVATYNIMINAFSEKLDMDMAQKLFHEMGDKGCDPDSYTYRVMIDGFCKVGNV 625

Query: 654 NSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFE 713
           NSGY  LL+ I+ GF+PSL+T GRVINCLCV HRVHEAVG VHLMV+ G+VPE V TIF+
Sbjct: 626 NSGYDFLLKEIEIGFVPSLTTFGRVINCLCVQHRVHEAVGIVHLMVRTGVVPEAVVTIFD 685

Query: 714 ADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKASK 759
           ADK+ VA+PKI+VEDLLKKSHITYYAYELL+DGIR+KKL K KASK
Sbjct: 686 ADKKAVAAPKIIVEDLLKKSHITYYAYELLYDGIRNKKLQKNKASK 731

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356562834|ref|XP_003549673.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g74580-like [Glycine max]

 Score = 1073 bits (2775), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 508/756 (67%), Positives = 605/756 (80%), Gaps = 26/756 (3%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           M R++LPKHVAAVVK Q +PL ALEMFNS K EDGFKHT  TYK ++ KLG HG FEEME
Sbjct: 1   MSRTLLPKHVAAVVKIQTDPLKALEMFNSAKSEDGFKHTASTYKCIVQKLGHHGEFEEME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
            LL EMR +V+++LLEG +I  M+NYGR+GKVQEAVD FERMDFYNC+P+V S+N IMNI
Sbjct: 61  KLLSEMRENVNNALLEGAYIEAMKNYGRKGKVQEAVDTFERMDFYNCDPSVHSHNAIMNI 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LVE+GY +Q HKVYMRMR++G+  DVYT+ IRIKSFC+T RP+ ALRLL+NMP  G + N
Sbjct: 121 LVEFGYHNQAHKVYMRMRDRGVQSDVYTYTIRIKSFCKTARPYAALRLLRNMPELGCDSN 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
           AVAYCT++AG Y+   +  A ELFDEML   + PD+  FNKL+H LCKKG V ESE+L  
Sbjct: 181 AVAYCTVVAGLYDSGEHDHARELFDEMLARCLCPDVVAFNKLVHVLCKKGLVFESERLLG 240

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           KVLKRGV PNLFTFN+F+QGLCR+GA+  A+                          +NS
Sbjct: 241 KVLKRGVCPNLFTFNIFVQGLCREGALDRAV--------------------------RNS 274

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
           +VVEAE YL KMVN G EPD  +YN++IDGYCK GM+  A+++L DA+FKGF PDEFTYC
Sbjct: 275 RVVEAEEYLRKMVNGGFEPDDLTYNSIIDGYCKKGMVQDANRVLKDAVFKGFKPDEFTYC 334

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           SLING C+DGD DRAMAV+   L KGL+PSIVLYNTLIKGLSQQGLIL ALQLMNEM+E+
Sbjct: 335 SLINGFCKDGDPDRAMAVFKDGLGKGLRPSIVLYNTLIKGLSQQGLILPALQLMNEMAEN 394

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           GC P++WTYN+VINGLCKMGCVSDA++LV+DAI+KG  PDIFT+NTLIDGYCKQLK++ A
Sbjct: 395 GCLPNIWTYNLVINGLCKMGCVSDASHLVDDAIAKGCPPDIFTYNTLIDGYCKQLKLDSA 454

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
            E++N MWS G+TPDVITYN+LLNGLCKA KSE+VME FK M EK C PNIITY+I+ +S
Sbjct: 455 TEMVNRMWSQGMTPDVITYNTLLNGLCKAGKSEEVMEIFKAMEEKGCTPNIITYNIIVDS 514

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
           LCKA K+ EA +LL EM++KGL  D V+FGTL  GFC  GD+DGAYQLFRRME QY + H
Sbjct: 515 LCKAKKVNEAVDLLGEMKSKGLKPDVVSFGTLFTGFCKIGDIDGAYQLFRRMEKQYDVCH 574

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
           TTATYNI+++AFSE+LN  MA KLF  M   GC PDNYTYR++ID FCK G I  GY  L
Sbjct: 575 TTATYNIIVSAFSEQLNMNMAMKLFSVMKNSGCDPDNYTYRVVIDGFCKMGNITQGYKFL 634

Query: 661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           LEN++K FIPSL+T GRV+NCLCV  +VHEAVG +HLM+QKGIVPE VNTIFEADK+ VA
Sbjct: 635 LENMEKRFIPSLTTFGRVLNCLCVKDKVHEAVGIIHLMLQKGIVPETVNTIFEADKKVVA 694

Query: 721 SPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKK 756
           +PKI+VEDLLKK HI YY YELL+DGIRDKK+LKK+
Sbjct: 695 APKILVEDLLKKGHIAYYTYELLYDGIRDKKILKKR 730

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357477565|ref|XP_003609068.1| hypothetical protein MTR_4g108600 [Medicago truncatula] gi|355510123|gb|AES91265.1| hypothetical protein MTR_4g108600 [Medicago truncatula]

 Score = 1053 bits (2722), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 493/726 (67%), Positives = 592/726 (81%), Gaps = 15/726 (2%)

Query: 31  KREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRG 90
           K + GFKHTL TYK M+ KLGFHG F EMENLL EMR ++D++LLEGV++  MR YGR+G
Sbjct: 110 KTKQGFKHTLFTYKSMLQKLGFHGKFNEMENLLSEMRSNLDNTLLEGVYVEAMRFYGRKG 169

Query: 91  KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFV 150
           K+QEAVD FERMD +NC+P+V SYN IMNILVE+GYF+Q HKVYMRM++K +  DVYT+ 
Sbjct: 170 KIQEAVDTFERMDLFNCDPSVYSYNAIMNILVEFGYFNQAHKVYMRMKDKKVESDVYTYT 229

Query: 151 IRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGM 210
           IRIKSFCRT RP+ ALRLL+NMP  G   NAVAYCT++ GFYE   N  A ELFDEML  
Sbjct: 230 IRIKSFCRTGRPYAALRLLRNMPVLGCFSNAVAYCTVVTGFYEFGDNDRARELFDEMLEC 289

Query: 211 GISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEA 270
            + PD+ TFNKL+H LCKKG V ESE+LF+KVLKRGV PNLFTFN+FIQGLC++G++  A
Sbjct: 290 CLCPDVTTFNKLVHALCKKGFVLESERLFDKVLKRGVCPNLFTFNIFIQGLCKEGSLDRA 349

Query: 271 ISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDG 330
           + LL  + RE L PDVVTYNT++CGLC+ S+VVEAE  LHKMVN G EP+ F+YN++IDG
Sbjct: 350 VRLLGCVSREGLRPDVVTYNTVICGLCRKSRVVEAEECLHKMVNGGFEPNDFTYNSIIDG 409

Query: 331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS 390
           YCK GM+  A++IL DA+FKGF PDEFTYCSL+NG CQDGD D+AMAV+   L KGL+PS
Sbjct: 410 YCKKGMVVDANRILKDAVFKGFKPDEFTYCSLVNGFCQDGDPDQAMAVFKDGLGKGLRPS 469

Query: 391 IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVN 450
           I++YNTLIKGL QQGLIL ALQLMNEM+E GC PD+WTYN++INGLCKMGC+SDAN+L+ 
Sbjct: 470 IIVYNTLIKGLCQQGLILPALQLMNEMAEKGCKPDIWTYNLIINGLCKMGCLSDANHLIG 529

Query: 451 DAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA 510
           DAI+KG IPDIFT+NTL+DGYC+QLK++ AIE++N MWS G+TPDVITYN+LLNGLCK A
Sbjct: 530 DAITKGCIPDIFTYNTLVDGYCRQLKLDSAIELVNRMWSQGMTPDVITYNTLLNGLCKTA 589

Query: 511 KSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFG 570
           KSE+VME FK M EK C PNIITY+ + ESLC + K+ EA +LL EM++KGLT D V+FG
Sbjct: 590 KSEEVMEIFKAMTEKGCAPNIITYNTIIESLCNSKKVNEAVDLLGEMKSKGLTPDVVSFG 649

Query: 571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE 630
           TLI GFC  GDLDGAY LFR ME QY +SHTTATYNI+I+AFSE+LN  MA +LF EM +
Sbjct: 650 TLITGFCKVGDLDGAYGLFRGMEKQYDVSHTTATYNIIISAFSEQLNMKMALRLFSEMKK 709

Query: 631 KGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHE 690
            GC PDNYTYR++ID FCKTG +N GY  LLENI+KGFIPSL+T GRV+NCLCV+H+V E
Sbjct: 710 NGCDPDNYTYRVLIDGFCKTGNVNQGYKFLLENIEKGFIPSLTTFGRVLNCLCVEHKVQE 769

Query: 691 AVGFVHLMVQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDK 750
           AVG +HLMVQK IVP+ VNTIFEAD               KK HITY+AYE L+DG+RDK
Sbjct: 770 AVGIIHLMVQKDIVPDTVNTIFEAD---------------KKGHITYHAYEFLYDGVRDK 814

Query: 751 KLLKKK 756
           K+LKKK
Sbjct: 815 KILKKK 820

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297839331|ref|XP_002887547.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297333388|gb|EFH63806.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score = 1047 bits (2707), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 494/757 (65%), Positives = 615/757 (81%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           MG  +LPKHV  V++ QK+P+ ALEMFNS+++EDGFKHTL TY+ +I+KLG +G FE ME
Sbjct: 1   MGPPLLPKHVTTVIRCQKDPMKALEMFNSMRKEDGFKHTLSTYRSIIEKLGLYGKFEAME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
            +L++MR +V + +LEGV++G M+NYGR+GKVQEAV+VFERMDFY+CEPTV SYN IM+I
Sbjct: 61  EVLVDMRQNVGNHMLEGVYVGAMKNYGRKGKVQEAVNVFERMDFYDCEPTVFSYNAIMSI 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LV+ GYF Q HKVYMRMR++GI PDVY+F IR+KSFCRT RPH ALRLL NM SQG E N
Sbjct: 121 LVDSGYFDQAHKVYMRMRDRGITPDVYSFTIRMKSFCRTSRPHAALRLLNNMSSQGCEMN 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
            VAYCT++ GFYEEN   E YELF +ML  G+S  ++TFNKL+H LCKKG+V+E EKL +
Sbjct: 181 VVAYCTVVGGFYEENFKDEGYELFGKMLASGVSLCLSTFNKLLHVLCKKGDVKECEKLLD 240

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           KV+KRGV PNLFT+N FIQGLC+KG +  A+ ++  L  +   PDVVTYN L+ GLCKNS
Sbjct: 241 KVIKRGVLPNLFTYNFFIQGLCQKGELDAAVRMVGRLIDQGPKPDVVTYNYLIYGLCKNS 300

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
           K  EAE YL K+VNEGLEPD F+YN +I GYCK GM+  A++IL +A+F GFVPDEFTY 
Sbjct: 301 KFQEAEVYLGKLVNEGLEPDSFTYNTLIAGYCKGGMVQLAERILVNAVFNGFVPDEFTYR 360

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           SLI+GLC +G+ +RA+A++ +AL KG+KP+++LYNTLIKGLS QGLIL+A QL +EMSE 
Sbjct: 361 SLIDGLCHEGETNRALALFNEALGKGIKPNVILYNTLIKGLSNQGLILEAAQLASEMSEK 420

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           G  P++ T+NI++NGLCKMGCVSDA+ LV   ISKGY PDIFTFN LI GY  QLKME A
Sbjct: 421 GLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILIHGYSTQLKMENA 480

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
           +EIL+ M  +GV PDV TYNSLLNGLCK +K EDVMET+KTM+EK C PN+ T++IL ES
Sbjct: 481 LEILDVMMDNGVDPDVYTYNSLLNGLCKTSKYEDVMETYKTMVEKGCAPNLFTFNILLES 540

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
           LC+ HK+ +A  LLEEM+NK +  D V FGTLI+GFC +GDLDGAY LFR+ME+ Y +S 
Sbjct: 541 LCRYHKLDKALGLLEEMKNKSVNPDAVTFGTLIDGFCKNGDLDGAYTLFRKMEEVYMVSC 600

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
           +T TYNI+I+AF+EKLN  MAEKLF EM ++   PD YTYR+M+D FCKTG ++ GY  L
Sbjct: 601 STPTYNIIIHAFTEKLNVTMAEKLFQEMVDRCLGPDGYTYRLMVDGFCKTGNVDLGYKFL 660

Query: 661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           LE ++ GFIPSL+T+GRVINCLCV+ RV+EA G +H MVQKG+VPE VNTIF+ DK+EVA
Sbjct: 661 LEMMENGFIPSLTTLGRVINCLCVEDRVYEAAGIIHRMVQKGLVPEAVNTIFDHDKKEVA 720

Query: 721 SPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKA 757
           +PK+V+EDLLKKS ITYYAYELLFDG+RDK+L KKK 
Sbjct: 721 APKLVLEDLLKKSCITYYAYELLFDGLRDKRLRKKKG 757

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15221300|ref|NP_177597.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75169839|sp|Q9CA58.1|PP120_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At1g74580 gi|12324819|gb|AAG52381.1|AC011765_33 hypothetical protein; 77097-79388 [Arabidopsis thaliana] gi|332197491|gb|AEE35612.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score = 1046 bits (2706), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 490/757 (64%), Positives = 615/757 (81%)

Query: 1   MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEME 60
           MG  +LPKHV AV+K QK+P+ ALEMFNS+++E GFKHTL TY+ +I+KLG++G FE ME
Sbjct: 1   MGPPLLPKHVTAVIKCQKDPMKALEMFNSMRKEVGFKHTLSTYRSVIEKLGYYGKFEAME 60

Query: 61  NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
            +L++MR +V + +LEGV++G M+NYGR+GKVQEAV+VFERMDFY+CEPTV SYN IM++
Sbjct: 61  EVLVDMRENVGNHMLEGVYVGAMKNYGRKGKVQEAVNVFERMDFYDCEPTVFSYNAIMSV 120

Query: 121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
           LV+ GYF Q HKVYMRMR++GI PDVY+F IR+KSFC+T RPH ALRLL NM SQG E N
Sbjct: 121 LVDSGYFDQAHKVYMRMRDRGITPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEMN 180

Query: 181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
            VAYCT++ GFYEEN   E YELF +ML  G+S  ++TFNKL+  LCKKG+V+E EKL +
Sbjct: 181 VVAYCTVVGGFYEENFKAEGYELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKECEKLLD 240

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
           KV+KRGV PNLFT+N+FIQGLC++G +  A+ ++  L  +   PDV+TYN L+ GLCKNS
Sbjct: 241 KVIKRGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNS 300

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
           K  EAE YL KMVNEGLEPD ++YN +I GYCK GM+  A++I+ DA+F GFVPD+FTY 
Sbjct: 301 KFQEAEVYLGKMVNEGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNGFVPDQFTYR 360

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           SLI+GLC +G+ +RA+A++ +AL KG+KP+++LYNTLIKGLS QG+IL+A QL NEMSE 
Sbjct: 361 SLIDGLCHEGETNRALALFNEALGKGIKPNVILYNTLIKGLSNQGMILEAAQLANEMSEK 420

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           G  P++ T+NI++NGLCKMGCVSDA+ LV   ISKGY PDIFTFN LI GY  QLKME A
Sbjct: 421 GLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILIHGYSTQLKMENA 480

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
           +EIL+ M  +GV PDV TYNSLLNGLCK +K EDVMET+KTM+EK C PN+ T++IL ES
Sbjct: 481 LEILDVMLDNGVDPDVYTYNSLLNGLCKTSKFEDVMETYKTMVEKGCAPNLFTFNILLES 540

Query: 541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
           LC+  K+ EA  LLEEM+NK +  D V FGTLI+GFC +GDLDGAY LFR+ME+ YK+S 
Sbjct: 541 LCRYRKLDEALGLLEEMKNKSVNPDAVTFGTLIDGFCKNGDLDGAYTLFRKMEEAYKVSS 600

Query: 601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
           +T TYNI+I+AF+EKLN  MAEKLF EM ++   PD YTYR+M+D FCKTG +N GY  L
Sbjct: 601 STPTYNIIIHAFTEKLNVTMAEKLFQEMVDRCLGPDGYTYRLMVDGFCKTGNVNLGYKFL 660

Query: 661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           LE ++ GFIPSL+T+GRVINCLCV+ RV+EA G +H MVQKG+VPE VNTI + DK+EVA
Sbjct: 661 LEMMENGFIPSLTTLGRVINCLCVEDRVYEAAGIIHRMVQKGLVPEAVNTICDVDKKEVA 720

Query: 721 SPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKKKA 757
           +PK+V+EDLLKKS ITYYAYELLFDG+RDK+L KKK 
Sbjct: 721 APKLVLEDLLKKSCITYYAYELLFDGLRDKRLRKKKG 757

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414592066|tpg|DAA42637.1| TPA: hypothetical protein ZEAMMB73_021738 [Zea mays]

 Score =  828 bits (2139), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 383/717 (53%), Positives = 523/717 (72%), Gaps = 2/717 (0%)

Query: 39  TLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDV 98
           T+  Y+ +I +L   G  ++++  L   R  +    L+ +++  ++ Y R G+++ AVD 
Sbjct: 34  TIPAYRALIRELVSAGRLDDVDAALASARSHLAPDSLQPLYVASIQAYARAGRLRAAVDA 93

Query: 99  FERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCR 158
           FERMD + C P   +YN IM+ LV   Y  Q HKVY+RM   G+ PD  T  +R+KSFC 
Sbjct: 94  FERMDLFACPPAAPAYNAIMDALVNAAYHDQAHKVYVRMLAAGVAPDARTHTVRLKSFCL 153

Query: 159 TRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIAT 218
           T RPHVALRLL+++  +G +    AYCT++ G Y   H   A  LFDEMLG  + PD+AT
Sbjct: 154 TGRPHVALRLLRSLSERGCDAKPAAYCTVVRGLYAHGHGYNARHLFDEMLGRDVFPDVAT 213

Query: 219 FNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLG 278
           FN ++H LC+KG+V ES  L  KVLKRG+S N FT N++I+GLC  G + EA++L++ +G
Sbjct: 214 FNNVLHALCQKGDVMESGALLAKVLKRGMSANKFTCNIWIRGLCEDGRLEEAVALVERMG 273

Query: 279 REDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMIS 338
              + PDVVTYNTLM GLCK+SKV EA  YL +M+N+G  PD F+YN +IDGYCK+GM+ 
Sbjct: 274 AY-VAPDVVTYNTLMRGLCKDSKVQEAAQYLGRMMNQGCIPDDFTYNTIIDGYCKSGMLQ 332

Query: 339 SADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLI 398
            A ++L DA+FKGFVPD  TYCSLINGLC +GD++RA+ ++ +A  K LKP +V+YN+L+
Sbjct: 333 EATELLKDAVFKGFVPDRVTYCSLINGLCAEGDIERALELFNEAQAKDLKPDLVVYNSLV 392

Query: 399 KGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYI 458
           KGL +QGLIL ALQ+MNEM E GC PD+WTYNI+INGLCKMG +SDA  ++NDAI KGY+
Sbjct: 393 KGLCRQGLILHALQVMNEMVEEGCHPDIWTYNIIINGLCKMGNISDAAVVMNDAIVKGYL 452

Query: 459 PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMET 518
           PD+FTFNTLIDGYCK+LK++ A++++  MW++G+ PDVITYNS+LNGLCKA K+++V ET
Sbjct: 453 PDVFTFNTLIDGYCKRLKLDSALQLVERMWTYGIAPDVITYNSVLNGLCKAGKAKEVNET 512

Query: 519 FKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN 578
           F+ MI K C PN ITY+IL E+ CK +++ EA  ++  M   GL  D V+F TLI+GFC 
Sbjct: 513 FEEMILKGCRPNAITYNILIENFCKINQLEEASGVIVRMCQDGLVPDAVSFNTLIHGFCR 572

Query: 579 SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNY 638
           +GDLDGAY LF+++ D+   S T  T+NI+I A+S KLN  MAEK+F EM  KG  PD Y
Sbjct: 573 NGDLDGAYLLFQKL-DEKGYSATADTFNILIGAYSSKLNMQMAEKIFGEMISKGYKPDLY 631

Query: 639 TYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLM 698
           TYRI++D  CK   ++  Y  L E I KGF+PS++T GR++N L ++HRV EAV  +H+M
Sbjct: 632 TYRILVDGLCKAANVDRAYAHLAEMISKGFVPSMATFGRMLNLLAMNHRVSEAVAIIHIM 691

Query: 699 VQKGIVPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKK 755
           V+ G+VPEVV+TI   DK+E+A+PKI+VE+L+KK HI+Y AYE+L +G+RD KL +K
Sbjct: 692 VRMGVVPEVVDTILSTDKKEIAAPKILVEELMKKGHISYRAYEVLHEGVRDNKLTRK 748

Source: Zea mays

Species: Zea mays

Genus: Zea

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	759
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.986	0.981	0.639	1.5e-271
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.835	0.868	0.320	1.7e-91
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.769	0.951	0.312	2.5e-81
TAIR|locus:2095309	687	AT3G09060 "AT3G09060" [Arabido	0.881	0.973	0.284	8.5e-81
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.752	0.886	0.306	6e-80
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.700	0.859	0.322	1.2e-79
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.815	0.820	0.297	1.2e-79
TAIR|locus:2168078	907	AT5G59900 "AT5G59900" [Arabido	0.803	0.672	0.298	3.2e-79
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.749	0.903	0.308	3.3e-79
TAIR|locus:2155730	915	AT5G65560 "AT5G65560" [Arabido	0.831	0.689	0.273	5.2e-79

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

 Score = 2611 (924.2 bits), Expect = 1.5e-271, P = 1.5e-271
 Identities = 479/749 (63%), Positives = 600/749 (80%)

Query:     1 MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFXXXX 60
             MG  +LPKHV AV+K QK+P+ ALEMFNS+++E GFKHTL TY+ +I+KLG++G F    
Sbjct:     1 MGPPLLPKHVTAVIKCQKDPMKALEMFNSMRKEVGFKHTLSTYRSVIEKLGYYGKFEAME 60

Query:    61 XXXXXXXXDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
                     +V + +LEGV++G M+NYGR+GKVQEAV+VFERMDFY+CEPTV SYN IM++
Sbjct:    61 EVLVDMRENVGNHMLEGVYVGAMKNYGRKGKVQEAVNVFERMDFYDCEPTVFSYNAIMSV 120

Query:   121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
             LV+ GYF Q HKVYMRMR++GI PDVY+F IR+KSFC+T RPH ALRLL NM SQG E N
Sbjct:   121 LVDSGYFDQAHKVYMRMRDRGITPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEMN 180

Query:   181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
              VAYCT++ GFYEEN   E YELF +ML  G+S  ++TFNKL+  LCKKG+V+E EKL +
Sbjct:   181 VVAYCTVVGGFYEENFKAEGYELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKECEKLLD 240

Query:   241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
             KV+KRGV PNLFT+N+FIQGLC++G +  A+ ++  L  +   PDV+TYN L+ GLCKNS
Sbjct:   241 KVIKRGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNS 300

Query:   301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
             K  EAE YL KMVNEGLEPD ++YN +I GYCK GM+  A++I+ DA+F GFVPD+FTY 
Sbjct:   301 KFQEAEVYLGKMVNEGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNGFVPDQFTYR 360

Query:   361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
             SLI+GLC +G+ +RA+A++ +AL KG+KP+++LYNTLIKGLS QG+IL+A QL NEMSE 
Sbjct:   361 SLIDGLCHEGETNRALALFNEALGKGIKPNVILYNTLIKGLSNQGMILEAAQLANEMSEK 420

Query:   421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
             G  P++ T+NI++NGLCKMGCVSDA+ LV   ISKGY PDIFTFN LI GY  QLKME A
Sbjct:   421 GLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILIHGYSTQLKMENA 480

Query:   481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
             +EIL+ M  +GV PDV TYNSLLNGLCK +K EDVMET+KTM+EK C PN+ T++IL ES
Sbjct:   481 LEILDVMLDNGVDPDVYTYNSLLNGLCKTSKFEDVMETYKTMVEKGCAPNLFTFNILLES 540

Query:   541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
             LC+  K+ EA  LLEEM+NK +  D V FGTLI+GFC +GDLDGAY LFR+ME+ YK+S 
Sbjct:   541 LCRYRKLDEALGLLEEMKNKSVNPDAVTFGTLIDGFCKNGDLDGAYTLFRKMEEAYKVSS 600

Query:   601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
             +T TYNI+I+AF+EKLN  MAEKLF EM ++   PD YTYR+M+D FCKTG +N GY  L
Sbjct:   601 STPTYNIIIHAFTEKLNVTMAEKLFQEMVDRCLGPDGYTYRLMVDGFCKTGNVNLGYKFL 660

Query:   661 LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
             LE ++ GFIPSL+T+GRVINCLCV+ RV+EA G +H MVQKG+VPE VNTI + DK+EVA
Sbjct:   661 LEMMENGFIPSLTTLGRVINCLCVEDRVYEAAGIIHRMVQKGLVPEAVNTICDVDKKEVA 720

Query:   721 SPKIVVEDLLKKSHITYYAYELLFDGIRD 749
             +PK+V+EDLLKKS ITYYAYELLFDG+RD
Sbjct:   721 APKLVLEDLLKKSCITYYAYELLFDGLRD 749

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 912 (326.1 bits), Expect = 1.7e-91, P = 1.7e-91
 Identities = 207/646 (32%), Positives = 355/646 (54%)

Query:     5 VLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFXXXXXXXX 64
             + P  +  +++   N  T++E+F+    ++G++H+   Y+ +I KLG +G F        
Sbjct:    76 ITPFQLYKLLELPLNVSTSMELFSWTGSQNGYRHSFDVYQVLIGKLGANGEFKTIDRLLI 135

Query:    65 XXXXDVDDSLL--EGVHIGVMRNYGRRGKVQEAVDVF-ERMDFYNCEPTVLSYNTIMNIL 121
                   D+ ++  E + I +MR+Y + G   +   +  E  + Y+CEPT  SYN ++ IL
Sbjct:   136 QMK---DEGIVFKESLFISIMRDYDKAGFPGQTTRLMLEMRNVYSCEPTFKSYNVVLEIL 192

Query:   122 VEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNA 181
             V          V+  M ++ I P ++TF + +K+FC       AL LL++M   G  PN+
Sbjct:   193 VSGNCHKVAANVFYDMLSRKIPPTLFTFGVVMKAFCAVNEIDSALSLLRDMTKHGCVPNS 252

Query:   182 VAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNK 241
             V Y TLI    + N   EA +L +EM  MG  PD  TFN +I  LCK   + E+ K+ N+
Sbjct:   253 VIYQTLIHSLSKCNRVNEALQLLEEMFLMGCVPDAETFNDVILGLCKFDRINEAAKMVNR 312

Query:   242 VLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSK 301
             +L RG +P+  T+   + GLC+ G +  A  L   + +    P++V +NTL+ G   + +
Sbjct:   313 MLIRGFAPDDITYGYLMNGLCKIGRVDAAKDLFYRIPK----PEIVIFNTLIHGFVTHGR 368

Query:   302 VVEAEYYLHKMVNE-GLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
             + +A+  L  MV   G+ PD  +YN++I GY K G++  A ++L+D   KG  P+ ++Y 
Sbjct:   369 LDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYT 428

Query:   361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
              L++G C+ G +D A  V  +    GLKP+ V +N LI    ++  I +A+++  EM   
Sbjct:   429 ILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIFREMPRK 488

Query:   421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
             GC PD++T+N +I+GLC++  +  A  L+ D IS+G + +  T+NTLI+ + ++ +++ A
Sbjct:   489 GCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINAFLRRGEIKEA 548

Query:   481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
              +++N M   G   D ITYNSL+ GLC+A + +     F+ M+     P+ I+ +IL   
Sbjct:   549 RKLVNEMVFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPSNISCNILING 608

Query:   541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
             LC++  + EA    +EM  +G T D V F +LING C +G ++    +FR+++ +  I  
Sbjct:   609 LCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIEDGLTMFRKLQAE-GIPP 667

Query:   601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDS 646
              T T+N +++   +    Y A  L  E  E G  P++ T+ I++ S
Sbjct:   668 DTVTFNTLMSWLCKGGFVYDACLLLDEGIEDGFVPNHRTWSILLQS 713

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015228 AT1G63080 [Arabidopsis thaliana (taxid:3702)]

 Score = 816 (292.3 bits), Expect = 2.5e-81, P = 2.5e-81
 Identities = 183/586 (31%), Positives = 310/586 (52%)

Query:    76 EGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYM 135
             +G    + RN     K+ EAVD+F  M      P+++ ++ +++ + +   F  V     
Sbjct:    30 DGYREKLSRNALLHLKLDEAVDLFGEMVKSRPFPSIVEFSKLLSAIAKMKKFDLVISFGE 89

Query:   136 RMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEEN 195
             +M   G+  ++YT+ I I   CR  +   AL +L  M   G+ P+ V   +L+ GF   N
Sbjct:    90 KMEILGVSHNLYTYNIMINCLCRRSQLSFALAILGKMMKLGYGPSIVTLNSLLNGFCHGN 149

Query:   196 HNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFN 255
                EA  L D+M+ MG  PD  TF  L+H L +     E+  L  +++ +G  P+L T+ 
Sbjct:   150 RISEAVALVDQMVEMGYQPDTVTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTYG 209

Query:   256 MFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNE 315
               I GLC++G    A++LL+ + +  +  DVV Y+T++  LCK   V +A     +M N+
Sbjct:   210 AVINGLCKRGEPDLALNLLNKMEKGKIEADVVIYSTVIDSLCKYRHVDDALNLFTEMDNK 269

Query:   316 GLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRA 375
             G+ PD F+Y+++I   C  G  S A ++L+D + +   P+  T+ SLI+   ++G +  A
Sbjct:   270 GIRPDVFTYSSLISCLCNYGRWSDASRLLSDMLERKINPNVVTFNSLIDAFAKEGKLIEA 329

Query:   376 MAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVING 435
               ++ + +++ + P+IV YN+LI G      + +A Q+   M    C PD+ TYN +ING
Sbjct:   330 EKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLING 389

Query:   436 LCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD 495
              CK   V D   L  D   +G + +  T+ TLI G+ +    + A  +   M S GV P+
Sbjct:   390 FCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVHPN 449

Query:   496 VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLE 555
             ++TYN+LL+GLCK  K E  M  F+ + + +  P+I TY+I+ E +CKA K+ + ++L  
Sbjct:   450 IMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGWDLFC 509

Query:   556 EMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK 615
              +  KG+  D +A+ T+I+GFC  G  + AY LF +M++   +  +  TYN +I A    
Sbjct:   510 SLSLKGVKPDVIAYNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDS-GTYNTLIRAHLRD 568

Query:   616 LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLL 661
              +   + +L  EM       D  TY ++ D     G ++ G+  +L
Sbjct:   569 GDKAASAELIKEMRSCRFAGDASTYGLVTDML-HDGRLDKGFLEVL 613

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2095309 AT3G09060 "AT3G09060" [Arabidopsis thaliana (taxid:3702)]

 Score = 811 (290.5 bits), Expect = 8.5e-81, P = 8.5e-81
 Identities = 192/674 (28%), Positives = 333/674 (49%)

Query:     3 RSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFXXXXXX 62
             +S+ PKHV  ++K +KNP  A  +F+S  R  G+ H+ + Y +++ +L            
Sbjct:     6 KSLSPKHVLKLLKSEKNPRAAFALFDSATRHPGYAHSAVVYHHILRRLS-ETRMVNHVSR 64

Query:    63 XXXXXXDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERM-DFYNCEPTVLSYNTIMNIL 121
                     +    E V + V++ YG+     +A+DVF+RM + + CEP + SYNT++N  
Sbjct:    65 IVELIRSQECKCDEDVALSVIKTYGKNSMPDQALDVFKRMREIFGCEPAIRSYNTLLNAF 124

Query:   122 VEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNA 181
             VE   + +V  ++      G+ P++ T+ + IK  C+ +    A   L  M  +GF+P+ 
Sbjct:   125 VEAKQWVKVESLFAYFETAGVAPNLQTYNVLIKMSCKKKEFEKARGFLDWMWKEGFKPDV 184

Query:   182 VAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNK 241
              +Y T+I    +     +A ELFDEM   G++PD+  +N LI    K+ + + + +L+++
Sbjct:   185 FSYSTVINDLAKAGKLDDALELFDEMSERGVAPDVTCYNILIDGFLKEKDHKTAMELWDR 244

Query:   242 VLK-RGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
             +L+   V PN+ T N+ I GL + G + + + + + + + +   D+ TY++L+ GLC   
Sbjct:   245 LLEDSSVYPNVKTHNIMISGLSKCGRVDDCLKIWERMKQNEREKDLYTYSSLIHGLCDAG 304

Query:   301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
              V +AE   +++       D  +YN ++ G+C+ G I  + ++      K  V +  +Y 
Sbjct:   305 NVDKAESVFNELDERKASIDVVTYNTMLGGFCRCGKIKESLELWRIMEHKNSV-NIVSYN 363

Query:   361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
              LI GL ++G +D A  ++     KG       Y   I GL   G + +AL +M E+  S
Sbjct:   364 ILIKGLLENGKIDEATMIWRLMPAKGYAADKTTYGIFIHGLCVNGYVNKALGVMQEVESS 423

Query:   421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
             G   D++ Y  +I+ LCK   + +A+NLV +    G   +    N LI G  +  ++  A
Sbjct:   424 GGHLDVYAYASIIDCLCKKKRLEEASNLVKEMSKHGVELNSHVCNALIGGLIRDSRLGEA 483

Query:   481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
                L  M  +G  P V++YN L+ GLCKA K  +     K M+E    P++ TYSIL   
Sbjct:   484 SFFLREMGKNGCRPTVVSYNILICGLCKAGKFGEASAFVKEMLENGWKPDLKTYSILLCG 543

Query:   541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
             LC+  KI  A  L  +    GL  D +    LI+G C+ G LD A  +   ME +   + 
Sbjct:   544 LCRDRKIDLALELWHQFLQSGLETDVMMHNILIHGLCSVGKLDDAMTVMANMEHR-NCTA 602

Query:   601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL 660
                TYN ++  F +  +   A  ++  M + G  PD  +Y  ++   C   G++      
Sbjct:   603 NLVTYNTLMEGFFKVGDSNRATVIWGYMYKMGLQPDIISYNTIMKGLCMCRGVSYAMEFF 662

Query:   661 LENIDKGFIPSLST 674
              +  + G  P++ T
Sbjct:   663 DDARNHGIFPTVYT 676

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 803 (287.7 bits), Expect = 6.0e-80, P = 6.0e-80
 Identities = 179/584 (30%), Positives = 307/584 (52%)

Query:    91 KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFV 150
             K  +AVD+F  M      PTV+ +N + + + +   +  V  +  +M +KGI   +YT  
Sbjct:    68 KADDAVDLFRDMIQSRPLPTVIDFNRLFSAIAKTKQYELVLALCKQMESKGIAHSIYTLS 127

Query:   151 IRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGM 210
             I I  FCR R+   A   +  +   G+EP+ V + TL+ G   E    EA EL D M+ M
Sbjct:   128 IMINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEALELVDRMVEM 187

Query:   211 GISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEA 270
             G  P + T N L++ LC  G V ++  L +++++ G  PN  T+   +  +C+ G  + A
Sbjct:   188 GHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALA 247

Query:   271 ISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDG 330
             + LL  +   ++  D V Y+ ++ GLCK+  +  A    ++M  +G + D  +YN +I G
Sbjct:   248 MELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGG 307

Query:   331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS 390
             +C AG      K+L D I +   P+  T+  LI+   ++G +  A  +  + +++G+ P+
Sbjct:   308 FCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPN 367

Query:   391 IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVN 450
              + YN+LI G  ++  + +A+Q+++ M   GC PD+ T+NI+ING CK   + D   L  
Sbjct:   368 TITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELFR 427

Query:   451 DAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA 510
             +   +G I +  T+NTL+ G+C+  K+E+A ++   M S  V PD+++Y  LL+GLC   
Sbjct:   428 EMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCDNG 487

Query:   511 KSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFG 570
             + E  +E F  + + +   +I  Y I+   +C A K+ +A++L   +  KG+ LD  A+ 
Sbjct:   488 ELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFCSLPLKGVKLDARAYN 547

Query:   571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE 630
              +I+  C    L  A  LFR+M ++   +    TYNI+I A     +   A +L  EM  
Sbjct:   548 IMISELCRKDSLSKADILFRKMTEEGH-APDELTYNILIRAHLGDDDATTAAELIEEMKS 606

Query:   631 KGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST 674
              G P D  T +++I+       ++SG       +DK F+  LST
Sbjct:   607 SGFPADVSTVKMVINM------LSSG------ELDKSFLDMLST 638

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 800 (286.7 bits), Expect = 1.2e-79, P = 1.2e-79
 Identities = 172/534 (32%), Positives = 280/534 (52%)

Query:   158 RTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIA 217
             RT++  + L   K M   G E +      +I  +  +   + A+ +      +G  PD  
Sbjct:    82 RTKQYDLVLGFCKGMELNGIEHDMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTI 141

Query:   218 TFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSL 277
             TF+ L++  C +G V E+  L +++++    P+L T +  I GLC KG +SEA+ L+D +
Sbjct:   142 TFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSEALVLIDRM 201

Query:   278 GREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMI 337
                   PD VTY  ++  LCK+     A     KM    ++     Y+ VID  CK G  
Sbjct:   202 VEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSF 261

Query:   338 SSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTL 397
               A  + N+   KG   D  TY SLI GLC DG  D    +  + + + + P +V ++ L
Sbjct:   262 DDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSAL 321

Query:   398 IKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGY 457
             I    ++G +L+A +L NEM   G  PD  TYN +I+G CK  C+ +AN + +  +SKG 
Sbjct:   322 IDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGC 381

Query:   458 IPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVME 517
              PDI T++ LI+ YCK  +++  + +   + S G+ P+ ITYN+L+ G C++ K     E
Sbjct:   382 EPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKE 441

Query:   518 TFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFC 577
              F+ M+ +   P+++TY IL + LC   ++ +A  + E+M+   +TL    +  +I+G C
Sbjct:   442 LFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMC 501

Query:   578 NSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDN 637
             N+  +D A+ LF  + D+  +     TYN+MI    +K +   A+ LF +M E GC PD+
Sbjct:   502 NASKVDDAWSLFCSLSDK-GVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDD 560

Query:   638 YTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEA 691
             +TY I+I +     G+ S   L+ E    GF    STI  VI+ L  D R+ ++
Sbjct:   561 FTYNILIRAHLGGSGLISSVELIEEMKVCGFSADSSTIKMVIDMLS-DRRLDKS 613

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 800 (286.7 bits), Expect = 1.2e-79, P = 1.2e-79
 Identities = 187/629 (29%), Positives = 307/629 (48%)

Query:    14 VKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFXXXXXXXXXXXXDVDDS 73
             ++ Q +   AL +FN   ++  F      Y+ ++ +LG  G+F            D+  S
Sbjct:    57 LRSQPDDSAALRLFNLASKKPNFSPEPALYEEILLRLGRSGSFDDMKKILE----DMKSS 112

Query:    74 LLE---GVHIGVMRNYGRRGKVQEAVDVFERM-DFYNCEPTVLSYNTIMNILVEYGYFSQ 129
               E      + ++ +Y +     E + V + M D +  +P    YN ++N+LV+      
Sbjct:   113 RCEMGTSTFLILIESYAQFELQDEILSVVDWMIDEFGLKPDTHFYNRMLNLLVDGNSLKL 172

Query:   130 VHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIA 189
             V   + +M   GI PDV TF + IK+ CR  +   A+ +L++MPS G  P+   + T++ 
Sbjct:   173 VEISHAKMSVWGIKPDVSTFNVLIKALCRAHQLRPAILMLEDMPSYGLVPDEKTFTTVMQ 232

Query:   190 GFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKR-GVS 248
             G+ EE     A  + ++M+  G S    + N ++H  CK+G V ++     ++  + G  
Sbjct:   233 GYIEEGDLDGALRIREQMVEFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEMSNQDGFF 292

Query:   249 PNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYY 308
             P+ +TFN  + GLC+ G +  AI ++D + +E   PDV TYN+++ GLCK  +V EA   
Sbjct:   293 PDQYTFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEAVEV 352

Query:   309 LHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQ 368
             L +M+     P+  +YN +I   CK   +  A ++      KG +PD  T+ SLI GLC 
Sbjct:   353 LDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQGLCL 412

Query:   369 DGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWT 428
               +   AM ++ +   KG +P    YN LI  L  +G + +AL ++ +M  SGC   + T
Sbjct:   413 TRNHRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVIT 472

Query:   429 YNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMW 488
             YN +I+G CK     +A  + ++    G   +  T+NTLIDG CK  ++E A ++++ M 
Sbjct:   473 YNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMI 532

Query:   489 SHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKIT 548
               G  PD  TYNSLL   C+    +   +  + M    C P+I+TY  L   LCKA ++ 
Sbjct:   533 MEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAGRVE 592

Query:   549 EAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIM 608
              A  LL  ++ KG+ L   A+  +I G         A  LFR M +Q +      +Y I+
Sbjct:   593 VASKLLRSIQMKGINLTPHAYNPVIQGLFRKRKTTEAINLFREMLEQNEAPPDAVSYRIV 652

Query:   609 INAFSEKLN-FYMAEKLFYEMSEKGCPPD 636
                          A     E+ EKG  P+
Sbjct:   653 FRGLCNGGGPIREAVDFLVELLEKGFVPE 681

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

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

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

GO:0048481 "ovule development" evidence=RCA

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

 Score = 775 (277.9 bits), Expect = 3.2e-79, Sum P(2) = 3.2e-79
 Identities = 184/617 (29%), Positives = 315/617 (51%)

Query:    95 AVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIK 154
             A+++F  M      P V  Y  ++  L E    S+  ++   M   G   ++  + + I 
Sbjct:   211 AMELFNDMVSVGIRPDVYIYTGVIRSLCELKDLSRAKEMIAHMEATGCDVNIVPYNVLID 270

Query:   155 SFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISP 214
               C+ ++   A+ + K++  +  +P+ V YCTL+ G  +        E+ DEML +  SP
Sbjct:   271 GLCKKQKVWEAVGIKKDLAGKDLKPDVVTYCTLVYGLCKVQEFEIGLEMMDEMLCLRFSP 330

Query:   215 DIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLL 274
               A  + L+  L K+G + E+  L  +V+  GVSPNLF +N  I  LC+     EA  L 
Sbjct:   331 SEAAVSSLVEGLRKRGKIEEALNLVKRVVDFGVSPNLFVYNALIDSLCKGRKFHEAELLF 390

Query:   275 DSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKA 334
             D +G+  L P+ VTY+ L+   C+  K+  A  +L +MV+ GL+   + YN++I+G+CK 
Sbjct:   391 DRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEMVDTGLKLSVYPYNSLINGHCKF 450

Query:   335 GMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLY 394
             G IS+A+  + + I K   P   TY SL+ G C  G +++A+ +Y +   KG+ PSI  +
Sbjct:   451 GDISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSKGKINKALRLYHEMTGKGIAPSIYTF 510

Query:   395 NTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAIS 454
              TL+ GL + GLI  A++L NEM+E    P+  TYN++I G C+ G +S A   + +   
Sbjct:   511 TTLLSGLFRAGLIRDAVKLFNEMAEWNVKPNRVTYNVMIEGYCEEGDMSKAFEFLKEMTE 570

Query:   455 KGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSED 514
             KG +PD +++  LI G C   +   A   ++ +       + I Y  LL+G C+  K E+
Sbjct:   571 KGIVPDTYSYRPLIHGLCLTGQASEAKVFVDGLHKGNCELNEICYTGLLHGFCREGKLEE 630

Query:   515 VMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAF-NLLEEMENKGLTLDTVAFGTLI 573
              +   + M+++    +++ Y +L +   K HK  + F  LL+EM ++GL  D V + ++I
Sbjct:   631 ALSVCQEMVQRGVDLDLVCYGVLIDGSLK-HKDRKLFFGLLKEMHDRGLKPDDVIYTSMI 689

Query:   574 NGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYM-AEKLFYEMSEKG 632
             +    +GD   A+ ++  M ++  + +   TY  +IN    K  F   AE L  +M    
Sbjct:   690 DAKSKTGDFKEAFGIWDLMINEGCVPNEV-TYTAVINGLC-KAGFVNEAEVLCSKMQPVS 747

Query:   633 CPPDNYTYRIMIDSFCKTGGINSGYCLLLEN-IDKGFIPSLSTIGRVINCLCVDHRVHEA 691
               P+  TY   +D   K G ++    + L N I KG + + +T   +I   C   R+ EA
Sbjct:   748 SVPNQVTYGCFLDILTK-GEVDMQKAVELHNAILKGLLANTATYNMLIRGFCRQGRIEEA 806

Query:   692 VGFVHLMVQKGIVPEVV 708
                +  M+  G+ P+ +
Sbjct:   807 SELITRMIGDGVSPDCI 823

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 796 (285.3 bits), Expect = 3.3e-79, P = 3.3e-79
 Identities = 176/571 (30%), Positives = 303/571 (53%)

Query:    91 KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFV 150
             K+ +AV +F  M      P+++ ++ +++ + +   F  V  +  +M+N GI  + YT+ 
Sbjct:    61 KLDDAVALFGEMVKSRPFPSIIEFSKLLSAIAKMNKFDVVISLGEQMQNLGIPHNHYTYS 120

Query:   151 IRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGM 210
             I I  FCR  +  +AL +L  M   G+EPN V   +L+ G+       EA  L D+M   
Sbjct:   121 ILINCFCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAVALVDQMFVT 180

Query:   211 GISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEA 270
             G  P+  TFN LIH L       E+  L ++++ +G  P+L T+ + + GLC++G    A
Sbjct:   181 GYQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLA 240

Query:   271 ISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDG 330
              +LL+ + +  L P V+ YNT++ GLCK   + +A     +M  +G+ P+  +Y+++I  
Sbjct:   241 FNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLISC 300

Query:   331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS 390
              C  G  S A ++L+D I +   PD FT+ +LI+   ++G +  A  +Y + +++ + PS
Sbjct:   301 LCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPS 360

Query:   391 IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVN 450
             IV Y++LI G      + +A Q+   M    C PD+ TYN +I G CK   V +   +  
Sbjct:   361 IVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFR 420

Query:   451 DAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA 510
             +   +G + +  T+N LI G  +    ++A EI   M S GV P+++TYN+LL+GLCK  
Sbjct:   421 EMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNG 480

Query:   511 KSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFG 570
             K E  M  F+ +   +  P I TY+I+ E +CKA K+ + ++L   +  KG+  D VA+ 
Sbjct:   481 KLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYN 540

Query:   571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE 630
             T+I+GFC  G  + A  LF+ M++   + ++   YN +I A     +   + +L  EM  
Sbjct:   541 TMISGFCRKGSKEEADALFKEMKEDGTLPNS-GCYNTLIRARLRDGDREASAELIKEMRS 599

Query:   631 KGCPPDNYTYRIMIDSFCKTGGINSGYCLLL 661
              G   D  T  + + +    G ++  +  +L
Sbjct:   600 CGFAGDASTIGL-VTNMLHDGRLDKSFLDML 629

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2155730 AT5G65560 "AT5G65560" [Arabidopsis thaliana (taxid:3702)]

 Score = 737 (264.5 bits), Expect = 5.2e-79, Sum P(2) = 5.2e-79
 Identities = 176/644 (27%), Positives = 315/644 (48%)

Query:     1 MGRSVLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFXXXX 60
             M  ++ P HV+++     +P TAL   + + +   +KH++ +Y  ++  L  +  +    
Sbjct:    84 MVSAISPSHVSSLFSLDLDPKTALNFSHWISQNPRYKHSVYSYASLLTLL-INNGYVGVV 142

Query:    61 XXXXXXXXDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI 120
                        DS+ + +++    +  R+    E  ++  ++    C      YNT++N 
Sbjct:   143 FKIRLLMIKSCDSVGDALYV---LDLCRKMNKDERFELKYKL-IIGC------YNTLLNS 192

Query:   121 LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPN 180
             L  +G   ++ +VYM M    + P++YT+   +  +C+      A + +  +   G +P+
Sbjct:   193 LARFGLVDEMKQVYMEMLEDKVCPNIYTYNKMVNGYCKLGNVEEANQYVSKIVEAGLDPD 252

Query:   181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
                Y +LI G+ +      A+++F+EM   G   +   +  LIH LC    + E+  LF 
Sbjct:   253 FFTYTSLIMGYCQRKDLDSAFKVFNEMPLKGCRRNEVAYTHLIHGLCVARRIDEAMDLFV 312

Query:   241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
             K+      P + T+ + I+ LC     SEA++L+  +    + P++ TY  L+  LC   
Sbjct:   313 KMKDDECFPTVRTYTVLIKSLCGSERKSEALNLVKEMEETGIKPNIHTYTVLIDSLCSQC 372

Query:   301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
             K  +A   L +M+ +GL P+  +YNA+I+GYCK GMI  A  ++     +   P+  TY 
Sbjct:   373 KFEKARELLGQMLEKGLMPNVITYNALINGYCKRGMIEDAVDVVELMESRKLSPNTRTYN 432

Query:   361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
              LI G C+  +V +AM V  K LE+ + P +V YN+LI G  + G    A +L++ M++ 
Sbjct:   433 ELIKGYCKS-NVHKAMGVLNKMLERKVLPDVVTYNSLIDGQCRSGNFDSAYRLLSLMNDR 491

Query:   421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
             G  PD WTY  +I+ LCK   V +A +L +    KG  P++  +  LIDGYCK  K++ A
Sbjct:   492 GLVPDQWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVMYTALIDGYCKAGKVDEA 551

Query:   481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES 540
               +L  M S    P+ +T+N+L++GLC   K ++     + M++    P + T +IL   
Sbjct:   552 HLMLEKMLSKNCLPNSLTFNALIHGLCADGKLKEATLLEEKMVKIGLQPTVSTDTILIHR 611

Query:   541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH 600
             L K      A++  ++M + G   D   + T I  +C  G L  A  +  +M +   +S 
Sbjct:   612 LLKDGDFDHAYSRFQQMLSSGTKPDAHTYTTFIQTYCREGRLLDAEDMMAKMREN-GVSP 670

Query:   601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMI 644
                TY+ +I  + +      A  +   M + GC P  +T+  +I
Sbjct:   671 DLFTYSSLIKGYGDLGQTNFAFDVLKRMRDTGCEPSQHTFLSLI 714

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9CA58	PP120_ARATH	No assigned EC number	0.6472	0.9973	0.9921	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	759
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-35
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-30
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-28
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-26
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-19
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-17
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-13
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-12
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-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	6e-04
pfam01535	31	pfam01535, PPR, PPR repeat	6e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-04
pfam01535	31	pfam01535, PPR, PPR repeat	7e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.004
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.004

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

 Score =  143 bits (361), Expect = 4e-35
 Identities = 98/377 (25%), Positives = 169/377 (44%), Gaps = 11/377 (2%)

Query: 220 NKLIHT----LCKK-GNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLL 274
           +K+ H      CKK   V+E+ + F K+++   +P L TFNM +        I  A+ +L
Sbjct: 405 DKIYHAKFFKACKKQRAVKEAFR-FAKLIR---NPTLSTFNMLMSVCASSQDIDGALRVL 460

Query: 275 DSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKA 334
             +    L  D   Y TL+    K+ KV       H+MVN G+E +  ++ A+IDG  +A
Sbjct: 461 RLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARA 520

Query: 335 GMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVY--VKALEKGLKPSIV 392
           G ++ A         K   PD   + +LI+   Q G VDRA  V   +KA    + P  +
Sbjct: 521 GQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHI 580

Query: 393 LYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDA 452
               L+K  +  G + +A ++   + E         Y I +N   + G    A ++ +D 
Sbjct: 581 TVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDM 640

Query: 453 ISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKS 512
             KG  PD   F+ L+D       ++ A EIL      G+    ++Y+SL+     A   
Sbjct: 641 KKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNW 700

Query: 513 EDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTL 572
           +  +E ++ +   +  P + T + L  +LC+ +++ +A  +L EM+  GL  +T+ +  L
Sbjct: 701 KKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL 760

Query: 573 INGFCNSGDLDGAYQLF 589
           +       D D    L 
Sbjct: 761 LVASERKDDADVGLDLL 777

Length = 1060

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

 Score =  126 bits (317), Expect = 9e-30
 Identities = 142/567 (25%), Positives = 243/567 (42%), Gaps = 112/567 (19%)

Query: 88  RRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVY 147
           R G++  A  VF +M     E  + S+N ++    + GYF +   +Y RM   G+ PDVY
Sbjct: 133 RFGELVHAWYVFGKMP----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVY 188

Query: 148 TF--VIR----IKSFCRTRRPHV-----------------------------ALRLLKNM 172
           TF  V+R    I    R R  H                              A  +   M
Sbjct: 189 TFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRM 248

Query: 173 PSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNV 232
           P +    + +++  +I+G++E    +E  ELF  M  + + PD+ T   +I      G+ 
Sbjct: 249 PRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 233 RESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTL 292
           R   ++   V+K G + ++   N  IQ     G+  EA  +   +  +    D V++  +
Sbjct: 305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAM 360

Query: 293 MCGLCKN---SKVVEAEYYLHKMVNEGLEPD----------------------------- 320
           + G  KN    K +E  Y L  M  + + PD                             
Sbjct: 361 ISGYEKNGLPDKALET-YAL--MEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAER 417

Query: 321 -GF-SY----NAVIDGYCKAGMISSADKILNDAIFKGFVPDE--FTYCSLINGLCQDGDV 372
            G  SY    NA+I+ Y K   I   DK L   +F   +P++   ++ S+I GL  +   
Sbjct: 418 KGLISYVVVANALIEMYSKCKCI---DKALE--VFH-NIPEKDVISWTSIIAGLRLNNRC 471

Query: 373 DRAMAVYVKALEKGLKPSIVLYNTLIKGLS---QQGLILQALQLMNEMSESGCCPDMWTY 429
             A+ ++ + +   LKP+ V   TLI  LS   + G ++   ++   +  +G   D +  
Sbjct: 472 FEAL-IFFRQMLLTLKPNSV---TLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP 527

Query: 430 NIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWS 489
           N +++   + G ++ A N  N +  K    D+ ++N L+ GY    K  +A+E+ N M  
Sbjct: 528 NALLDLYVRCGRMNYAWNQFN-SHEK----DVVSWNILLTGYVAHGKGSMAVELFNRMVE 582

Query: 490 HGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEK-RCVPNIITYSILGESLCKAHKIT 548
            GV PD +T+ SLL    ++      +E F +M EK    PN+  Y+ + + L +A K+T
Sbjct: 583 SGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLT 642

Query: 549 EAFNLLEEMENKGLTLDTVAFGTLING 575
           EA+N + +M    +T D   +G L+N 
Sbjct: 643 EAYNFINKMP---ITPDPAVWGALLNA 666

Length = 857

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

 Score =  122 bits (308), Expect = 2e-28
 Identities = 85/349 (24%), Positives = 164/349 (46%), Gaps = 9/349 (2%)

Query: 165 ALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEA-YELFDEMLGMGISPDIATFNKLI 223
           ALR+L+ +   G + +   Y TLI+   +    V+A +E+F EM+  G+  ++ TF  LI
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSG-KVDAMFEVFHEMVNAGVEANVHTFGALI 514

Query: 224 HTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGRED-- 281
               + G V ++   +  +  + V P+   FN  I    + GA+  A  +L  +  E   
Sbjct: 515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHP 574

Query: 282 LTPDVVTYNTLMCGLCKNSKVVEA-EYYLHKMVNE-GLEPDGFSYNAVIDGYCKAGMISS 339
           + PD +T   LM       +V  A E Y  +M++E  ++     Y   ++   + G    
Sbjct: 575 IDPDHITVGALMKACANAGQVDRAKEVY--QMIHEYNIKGTPEVYTIAVNSCSQKGDWDF 632

Query: 340 ADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIK 399
           A  I +D   KG  PDE  + +L++     GD+D+A  +   A ++G+K   V Y++L+ 
Sbjct: 633 ALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

Query: 400 GLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIP 459
             S      +AL+L  ++      P + T N +I  LC+   +  A  ++++    G  P
Sbjct: 693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752

Query: 460 DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCK 508
           +  T++ L+    ++   ++ +++L+     G+ P+++    +  GLC 
Sbjct: 753 NTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800

Length = 1060

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

 Score =  115 bits (290), Expect = 1e-26
 Identities = 97/416 (23%), Positives = 187/416 (44%), Gaps = 22/416 (5%)

Query: 182 VAYCTLIAGFYEENHNVEAYELFDEM-LGMGISPDIATFNKLIHTLCKKGNVRESEKLFN 240
           V+ C+ I        + EA ELF+ +  G   +   +T++ L+       ++R  + ++ 
Sbjct: 88  VSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYW 147

Query: 241 KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS 300
            V   G  P+ +  N  +    + G + +A  L D +   +L     ++ T++ GL    
Sbjct: 148 HVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGGLVDAG 203

Query: 301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYC 360
              EA     +M  +G + +  ++  ++      G   +  ++    +  G V D F  C
Sbjct: 204 NYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSC 263

Query: 361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           +LI+   + GD++ A  V+    EK    + V +N+++ G +  G   +AL L  EM +S
Sbjct: 264 ALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDS 319

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
           G   D +T++I+I    ++  +  A       I  G+  DI     L+D Y K  +ME A
Sbjct: 320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDA 379

Query: 481 IEILNTMWSHGVTP--DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITY-SIL 537
             + + M      P  ++I++N+L+ G     +    +E F+ MI +   PN +T+ ++L
Sbjct: 380 RNVFDRM------PRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVL 433

Query: 538 GESLCKAHKITE-AFNLLEEM-ENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRR 591
             S C+   ++E  + + + M EN  +    + +  +I      G LD AY + RR
Sbjct: 434 --SACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR 487

Length = 697

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

 Score = 91.1 bits (226), Expect = 8e-19
 Identities = 107/478 (22%), Positives = 187/478 (39%), Gaps = 65/478 (13%)

Query: 220 NKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCR-KGAISE-------AI 271
           N  +  LC  G + ++ KL   + +  V  +   +    + LC  K A+ E       A+
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRAL 113

Query: 272 SLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGY 331
           S   SLG       V   N ++    +  ++V A Y   KM     E D FS+N ++ GY
Sbjct: 114 SSHPSLG-------VRLGNAMLSMFVRFGELVHAWYVFGKMP----ERDLFSWNVLVGGY 162

Query: 332 CKAGMISSADKILNDAIFKGFVPDEFTYCSLIN---------------------GLCQDG 370
            KAG    A  + +  ++ G  PD +T+  ++                      G   D 
Sbjct: 163 AKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDV 222

Query: 371 DVDRA-MAVYVKA---------LEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES 420
           DV  A + +YVK           ++  +   + +N +I G  + G  L+ L+L   M E 
Sbjct: 223 DVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMREL 282

Query: 421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
              PD+ T   VI+    +G       +    +  G+  D+   N+LI  Y        A
Sbjct: 283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEA 342

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITY-SILGE 539
            ++ + M     T D +++ ++++G  K    +  +ET+  M +    P+ IT  S+L  
Sbjct: 343 EKVFSRM----ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSA 398

Query: 540 SLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKIS 599
             C    +     L E  E KGL    V    LI  +     +D A ++F  + ++  IS
Sbjct: 399 CACLG-DLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVIS 457

Query: 600 HTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG-CPPDNYTYRIMIDSFCKTGGINSG 656
            T+     +I     +LN    E L +         P++ T    + +  + G +  G
Sbjct: 458 WTS-----IIAGL--RLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCG 508

Length = 857

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

 Score = 86.8 bits (215), Expect = 1e-17
 Identities = 83/364 (22%), Positives = 159/364 (43%), Gaps = 30/364 (8%)

Query: 90  GKVQEAVDVFERMDFYNCEPTVLS--YNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVY 147
           G+ +EA+++FE ++   C  T+ +  Y+ ++   +       V  VY  + + G  PD Y
Sbjct: 101 GRHREALELFEILEA-GCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQY 159

Query: 148 TFVIRIKSFCRTRRPHV-------ALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEA 200
                     R    HV       A RL   MP    E N  ++ T+I G  +  +  EA
Sbjct: 160 MM-------NRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREA 208

Query: 201 YELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQG 260
           + LF EM   G   +  TF  ++      G+ R  ++L   VLK GV  + F     I  
Sbjct: 209 FALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDM 268

Query: 261 LCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPD 320
             + G I +A  + D +  +      V +N+++ G   +    EA    ++M + G+  D
Sbjct: 269 YSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

Query: 321 GFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYV 380
            F+++ +I  + +  ++  A +     I  GF  D     +L++   + G ++ A  V+ 
Sbjct: 325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVF- 383

Query: 381 KALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMG 440
              ++  + +++ +N LI G    G   +A+++   M   G  P+  T+  V++  C+  
Sbjct: 384 ---DRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA-CRYS 439

Query: 441 CVSD 444
            +S+
Sbjct: 440 GLSE 443

Length = 697

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

 Score = 84.9 bits (210), Expect = 8e-17
 Identities = 52/239 (21%), Positives = 112/239 (46%), Gaps = 2/239 (0%)

Query: 61  NLLLEMRMDVDDSLLEGVHIG-VMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMN 119
           ++L EM+ +      + + +G +M+     G+V  A +V++ +  YN + T   Y   +N
Sbjct: 563 DVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN 622

Query: 120 ILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEP 179
              + G +     +Y  M+ KG+ PD   F   +           A  +L++   QG + 
Sbjct: 623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682

Query: 180 NAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLF 239
             V+Y +L+       +  +A EL++++  + + P ++T N LI  LC+   + ++ ++ 
Sbjct: 683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVL 742

Query: 240 NKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCK 298
           +++ + G+ PN  T+++ +    RK      + LL     + + P++V    +  GLC 
Sbjct: 743 SEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800

Length = 1060

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

 Score = 73.6 bits (182), Expect = 2e-16
 Identities = 27/50 (54%), Positives = 39/50 (78%)

Query: 459 PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCK 508
           PD+ T+NTLIDGYCK+ K+E A+++ N M   G+ P+V TY+ L++GLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 72.8 bits (180), Expect = 3e-16
 Identities = 25/50 (50%), Positives = 38/50 (76%)

Query: 389 PSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCK 438
           P +V YNTLI G  ++G + +AL+L NEM + G  P+++TY+I+I+GLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 71.3 bits (176), Expect = 9e-16
 Identities = 25/50 (50%), Positives = 35/50 (70%)

Query: 284 PDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCK 333
           PDVVTYNTL+ G CK  KV EA    ++M   G++P+ ++Y+ +IDG CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 66.7 bits (164), Expect = 4e-14
 Identities = 26/50 (52%), Positives = 38/50 (76%)

Query: 214 PDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCR 263
           PD+ T+N LI   CKKG V E+ KLFN++ KRG+ PN++T+++ I GLC+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 74.5 bits (183), Expect = 1e-13
 Identities = 64/303 (21%), Positives = 118/303 (38%), Gaps = 51/303 (16%)

Query: 383 LEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCK-MGC 441
            ++     I  YN L++     G I   + L+ +M + G       Y+      CK    
Sbjct: 366 GKRKSPEYIDAYNRLLR----DGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRA 421

Query: 442 VSDA---NNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVIT 498
           V +A     L+ +       P + TFN L+        ++ A+ +L  +   G+  D   
Sbjct: 422 VKEAFRFAKLIRN-------PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKL 474

Query: 499 YNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEME 558
           Y +L++   K+ K + + E F  M+      N+ T+  L +   +A ++ +AF     M 
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 559 NKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRME------------------------- 593
           +K +  D V F  LI+    SG +D A+ +   M+                         
Sbjct: 535 SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ 594

Query: 594 -----------DQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRI 642
                       +Y I  T   Y I +N+ S+K ++  A  ++ +M +KG  PD   +  
Sbjct: 595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA 654

Query: 643 MID 645
           ++D
Sbjct: 655 LVD 657

Length = 1060

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

 Score = 65.1 bits (160), Expect = 1e-13
 Identities = 24/50 (48%), Positives = 35/50 (70%)

Query: 494 PDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK 543
           PDV+TYN+L++G CK  K E+ ++ F  M ++   PN+ TYSIL + LCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 65.1 bits (160), Expect = 2e-13
 Identities = 23/50 (46%), Positives = 33/50 (66%)

Query: 319 PDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQ 368
           PD  +YN +IDGYCK G +  A K+ N+   +G  P+ +TY  LI+GLC+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 64.3 bits (158), Expect = 2e-13
 Identities = 23/50 (46%), Positives = 34/50 (68%)

Query: 424 PDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCK 473
           PD+ TYN +I+G CK G V +A  L N+   +G  P+++T++ LIDG CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 73.4 bits (180), Expect = 3e-13
 Identities = 64/338 (18%), Positives = 122/338 (36%), Gaps = 76/338 (22%)

Query: 87  GRRGKVQEAVDVFERM--DFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGI-- 142
           G+ G V  A DV   M  + +  +P  ++   +M      G   +  +VY  +    I  
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 143 VPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLI-----AGFYEENHN 197
            P+VYT  +   S  +      AL +  +M  +G +P+ V +  L+     AG  +    
Sbjct: 613 TPEVYTIAVNSCS--QKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLD---- 666

Query: 198 VEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMF 257
            +A+E+  +    GI     +++ L+       N +++ +L+  +    + P + T N  
Sbjct: 667 -KAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNAL 725

Query: 258 IQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGL 317
           I  LC    + +A+ +L  + R  L P+ +TY+ L+         V +E           
Sbjct: 726 ITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL---------VASE----------- 765

Query: 318 EPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLC---------- 367
                          +         +L+ A   G  P+    C  I GLC          
Sbjct: 766 ---------------RKDDADVGLDLLSQAKEDGIKPN-LVMCRCITGLCLRRFEKACAL 809

Query: 368 --------------QDGDVDRAMAVYVKALEKGLKPSI 391
                         ++     A+ VY + +  G  P++
Sbjct: 810 GEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTM 847

Length = 1060

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

 Score = 64.3 bits (158), Expect = 3e-13
 Identities = 21/48 (43%), Positives = 29/48 (60%)

Query: 602 TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK 649
             TYN +I+ + +K     A KLF EM ++G  P+ YTY I+ID  CK
Sbjct: 3   VVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 63.2 bits (155), Expect = 7e-13
 Identities = 20/50 (40%), Positives = 33/50 (66%)

Query: 249 PNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCK 298
           P++ T+N  I G C+KG + EA+ L + + +  + P+V TY+ L+ GLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 62.8 bits (154), Expect = 9e-13
 Identities = 22/50 (44%), Positives = 32/50 (64%)

Query: 179 PNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCK 228
           P+ V Y TLI G+ ++    EA +LF+EM   GI P++ T++ LI  LCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 71.1 bits (174), Expect = 1e-12
 Identities = 89/401 (22%), Positives = 157/401 (39%), Gaps = 58/401 (14%)

Query: 258 IQGLCRKGAISEAISLLDSL-GREDLTPDVVTYNTLM--CGLCKNSKVVEAEYYLHKMVN 314
           I+ L   G   EA+ L + L      T    TY+ L+  C   K+ + V+A Y+   + +
Sbjct: 94  IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWH--VES 151

Query: 315 EGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDR 374
            G EPD +  N V+  + K GM+  A ++                         D   +R
Sbjct: 152 SGFEPDQYMMNRVLLMHVKCGMLIDARRLF------------------------DEMPER 187

Query: 375 AMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVIN 434
                          ++  + T+I GL   G   +A  L  EM E G   +  T+ +++ 
Sbjct: 188 ---------------NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLR 232

Query: 435 GLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTP 494
               +G       L    +  G + D F    LID Y K   +E A  + + M      P
Sbjct: 233 ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM------P 286

Query: 495 D--VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFN 552
           +   + +NS+L G      SE+ +  +  M +     +  T+SI+     +   +  A  
Sbjct: 287 EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQ 346

Query: 553 LLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAF 612
               +   G  LD VA   L++ +   G ++ A  +F RM  +  IS     +N +I  +
Sbjct: 347 AHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLIS-----WNALIAGY 401

Query: 613 SEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGI 653
                   A ++F  M  +G  P++ T+ + + S C+  G+
Sbjct: 402 GNHGRGTKAVEMFERMIAEGVAPNHVTF-LAVLSACRYSGL 441

Length = 697

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

 Score = 68.7 bits (168), Expect = 6e-12
 Identities = 64/314 (20%), Positives = 130/314 (41%), Gaps = 56/314 (17%)

Query: 78  VHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRM 137
           V   ++  Y + G +++A  VF+ M     E T +++N+++     +GY  +   +Y  M
Sbjct: 261 VSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEM 316

Query: 138 RNKGIVPDVYTFVIRIKSFCR------TRRPHVAL------------------------- 166
           R+ G+  D +TF I I+ F R       ++ H  L                         
Sbjct: 317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRM 376

Query: 167 ----RLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKL 222
                +   MP +    N +++  LIAG+       +A E+F+ M+  G++P+  TF  +
Sbjct: 377 EDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAV 432

Query: 223 IHTLCKKGNVRESEKLFNKVLK-RGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGRED 281
           +      G   +  ++F  + +   + P    +   I+ L R+G + EA +++    R  
Sbjct: 433 LSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIR---RAP 489

Query: 282 LTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNE---GLEPDGF-SYNAVIDGYCKAGMI 337
             P V  +  L+      +  +     L ++  E   G+ P+   +Y  +++ Y  +G  
Sbjct: 490 FKPTVNMWAALL-----TACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQ 544

Query: 338 SSADKILNDAIFKG 351
           + A K++     KG
Sbjct: 545 AEAAKVVETLKRKG 558

Length = 697

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

 Score = 58.6 bits (143), Expect = 3e-11
 Identities = 17/50 (34%), Positives = 29/50 (58%)

Query: 529 PNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN 578
           P+++TY+ L +  CK  K+ EA  L  EM+ +G+  +   +  LI+G C 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 58.2 bits (142), Expect = 4e-11
 Identities = 17/50 (34%), Positives = 31/50 (62%)

Query: 109 PTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCR 158
           P V++YNT+++   + G   +  K++  M+ +GI P+VYT+ I I   C+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 49.3 bits (119), Expect = 3e-08
 Identities = 16/34 (47%), Positives = 21/34 (61%)

Query: 560 KGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRME 593
           KGL  D V + TLI+G C +G +D A +L   ME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 48.9 bits (118), Expect = 6e-08
 Identities = 15/29 (51%), Positives = 20/29 (68%)

Query: 350 KGFVPDEFTYCSLINGLCQDGDVDRAMAV 378
           KG  PD  TY +LI+GLC+ G VD A+ +
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVEL 29

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 = 47.4 bits (114), Expect = 2e-07
 Identities = 17/48 (35%), Positives = 24/48 (50%)

Query: 144 PDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGF 191
           PDV T+   I  +C+  +   AL+L   M  +G +PN   Y  LI G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 47.0 bits (113), Expect = 2e-07
 Identities = 16/33 (48%), Positives = 25/33 (75%)

Query: 455 KGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTM 487
           KG  PD+ T+NTLIDG C+  +++ A+E+L+ M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 45.8 bits (110), Expect = 7e-07
 Identities = 15/34 (44%), Positives = 24/34 (70%)

Query: 525 KRCVPNIITYSILGESLCKAHKITEAFNLLEEME 558
           K   P+++TY+ L + LC+A ++ EA  LL+EME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 45.4 bits (109), Expect = 8e-07
 Identities = 15/31 (48%), Positives = 22/31 (70%)

Query: 245 RGVSPNLFTFNMFIQGLCRKGAISEAISLLD 275
           +G+ P++ T+N  I GLCR G + EA+ LLD
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLD 31

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

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

 Score = 45.5 bits (109), Expect = 8e-07
 Identities = 18/34 (52%), Positives = 22/34 (64%)

Query: 287 VTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPD 320
           VTYNTL+ GLCK  +V EA     +M   G+EPD
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 45.0 bits (108), Expect = 1e-06
 Identities = 14/32 (43%), Positives = 22/32 (68%)

Query: 420 SGCCPDMWTYNIVINGLCKMGCVSDANNLVND 451
            G  PD+ TYN +I+GLC+ G V +A  L+++
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 51.4 bits (123), Expect = 2e-06
 Identities = 63/277 (22%), Positives = 116/277 (41%), Gaps = 27/277 (9%)

Query: 384 EKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDM--WTYNIVIN---GLCK 438
            +  K  + L +  I+ L   G   +AL+L  E+ E+GC   +   TY+ ++     L  
Sbjct: 81  TQIRKSGVSLCSQ-IEKLVACGRHREALELF-EILEAGCPFTLPASTYDALVEACIALKS 138

Query: 439 MGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD--V 496
           + CV      V    S G+ PD +  N ++  + K   +  A  + + M      P+  +
Sbjct: 139 IRCVKAVYWHV---ESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM------PERNL 189

Query: 497 ITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEE 556
            ++ +++ GL  A    +    F+ M E        T+ ++  +            L   
Sbjct: 190 ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCC 249

Query: 557 MENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL 616
           +   G+  DT     LI+ +   GD++ A  +F  M ++     TT  +N M+  ++  L
Sbjct: 250 VLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK-----TTVAWNSMLAGYA--L 302

Query: 617 NFYMAEKL--FYEMSEKGCPPDNYTYRIMIDSFCKTG 651
           + Y  E L  +YEM + G   D +T+ IMI  F +  
Sbjct: 303 HGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLA 339

Length = 697

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

 Score = 44.6 bits (107), Expect = 2e-06
 Identities = 18/33 (54%), Positives = 22/33 (66%)

Query: 281 DLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMV 313
            L PDVVTYNTL+ GLC+  +V EA   L +M 
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 43.5 bits (104), Expect = 4e-06
 Identities = 13/32 (40%), Positives = 21/32 (65%)

Query: 210 MGISPDIATFNKLIHTLCKKGNVRESEKLFNK 241
            G+ PD+ T+N LI  LC+ G V E+ +L ++
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 43.1 bits (103), Expect = 7e-06
 Identities = 14/32 (43%), Positives = 24/32 (75%)

Query: 491 GVTPDVITYNSLLNGLCKAAKSEDVMETFKTM 522
           G+ PDV+TYN+L++GLC+A + ++ +E    M
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 42.7 bits (102), Expect = 8e-06
 Identities = 18/34 (52%), Positives = 26/34 (76%)

Query: 385 KGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMS 418
           KGLKP +V YNTLI GL + G + +A++L++EM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 41.6 bits (99), Expect = 2e-05
 Identities = 14/31 (45%), Positives = 23/31 (74%)

Query: 316 GLEPDGFSYNAVIDGYCKAGMISSADKILND 346
           GL+PD  +YN +IDG C+AG +  A ++L++
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 42.1 bits (100), Expect = 2e-05
 Identities = 18/34 (52%), Positives = 22/34 (64%)

Query: 392 VLYNTLIKGLSQQGLILQALQLMNEMSESGCCPD 425
           V YNTLI GL + G + +AL+L  EM E G  PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 41.7 bits (99), Expect = 2e-05
 Identities = 13/35 (37%), Positives = 20/35 (57%)

Query: 322 FSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDE 356
            +YN +IDG CKAG +  A ++  +   +G  PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 41.7 bits (99), Expect = 2e-05
 Identities = 16/35 (45%), Positives = 26/35 (74%)

Query: 497 ITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNI 531
           +TYN+L++GLCKA + E+ +E FK M E+   P++
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 40.9 bits (97), Expect = 6e-05
 Identities = 11/38 (28%), Positives = 24/38 (63%)

Query: 82  VMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMN 119
           ++  Y ++GKV+EA+ +F  M     +P V +Y+ +++
Sbjct: 9   LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID 46

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

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

 Score = 39.8 bits (94), Expect = 9e-05
 Identities = 13/35 (37%), Positives = 25/35 (71%)

Query: 357 FTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSI 391
            TY +LI+GLC+ G V+ A+ ++ +  E+G++P +
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 17/35 (48%), Positives = 23/35 (65%)

Query: 462 FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDV 496
            T+NTLIDG CK  ++E A+E+   M   G+ PDV
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 13/33 (39%), Positives = 18/33 (54%)

Query: 604 TYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD 636
           TYN +I+   +      A +LF EM E+G  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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 218 TFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPN 250
           T+N LI  LCK G V E+ +LF ++ +RG+ P+
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 38.9 bits (92), Expect = 2e-04
 Identities = 15/33 (45%), Positives = 18/33 (54%)

Query: 175 QGFEPNAVAYCTLIAGFYEENHNVEAYELFDEM 207
           +G +P+ V Y TLI G        EA EL DEM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 38.2 bits (90), Expect = 3e-04
 Identities = 12/30 (40%), Positives = 17/30 (56%)

Query: 604 TYNIMINAFSEKLNFYMAEKLFYEMSEKGC 633
           TYN +I+ + +      A +LF EM EKG 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 38.2 bits (90), Expect = 3e-04
 Identities = 13/31 (41%), Positives = 19/31 (61%)

Query: 287 VTYNTLMCGLCKNSKVVEAEYYLHKMVNEGL 317
           VTYN+L+ G CK  K+ EA     +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 = 37.8 bits (89), Expect = 4e-04
 Identities = 15/34 (44%), Positives = 21/34 (61%)

Query: 428 TYNIVINGLCKMGCVSDANNLVNDAISKGYIPDI 461
           TYN +I+GLCK G V +A  L  +   +G  PD+
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 37.3 bits (88), Expect = 6e-04
 Identities = 14/34 (41%), Positives = 17/34 (50%)

Query: 140 KGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMP 173
           KG+ PDV T+   I   CR  R   A+ LL  M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 37.4 bits (88), Expect = 6e-04
 Identities = 15/31 (48%), Positives = 20/31 (64%)

Query: 462 FTFNTLIDGYCKQLKMEIAIEILNTMWSHGV 492
            T+N+LI GYCK  K+E A+E+   M   GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 37.4 bits (88), Expect = 7e-04
 Identities = 11/34 (32%), Positives = 22/34 (64%)

Query: 113 SYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDV 146
           +YNT+++ L + G   +  +++  M+ +GI PDV
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 37.0 bits (87), Expect = 7e-04
 Identities = 14/31 (45%), Positives = 19/31 (61%)

Query: 392 VLYNTLIKGLSQQGLILQALQLMNEMSESGC 422
           V YN+LI G  + G + +AL+L  EM E G 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 36.9 bits (87), Expect = 9e-04
 Identities = 10/21 (47%), Positives = 12/21 (57%)

Query: 631 KGCPPDNYTYRIMIDSFCKTG 651
           KG  PD  TY  +ID  C+ G
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAG 21

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 = 36.3 bits (85), Expect = 0.001
 Identities = 17/31 (54%), Positives = 22/31 (70%)

Query: 497 ITYNSLLNGLCKAAKSEDVMETFKTMIEKRC 527
           +TYNSL++G CKA K E+ +E FK M EK  
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 10/34 (29%), Positives = 15/34 (44%)

Query: 496 VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVP 529
           + TYN+LL  L KA   +  +   + M      P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 35.9 bits (84), Expect = 0.002
 Identities = 12/31 (38%), Positives = 19/31 (61%)

Query: 322 FSYNAVIDGYCKAGMISSADKILNDAIFKGF 352
            +YN++I GYCKAG +  A ++  +   KG 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 40.6 bits (95), Expect = 0.003
 Identities = 34/159 (21%), Positives = 67/159 (42%), Gaps = 10/159 (6%)

Query: 507 CKAAKSEDVMETF---KTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLT 563
           CK  ++  V E F   K +      P + T+++L      +  I  A  +L  ++  GL 
Sbjct: 416 CKKQRA--VKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLK 469

Query: 564 LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEK 623
            D   + TLI+    SG +D  +++F  M +   +     T+  +I+  +       A  
Sbjct: 470 ADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGALIDGCARAGQVAKAFG 528

Query: 624 LFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLE 662
            +  M  K   PD   +  +I +  ++G ++  + +L E
Sbjct: 529 AYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAE 567

Length = 1060

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

 Score = 35.5 bits (83), Expect = 0.003
 Identities = 12/35 (34%), Positives = 16/35 (45%)

Query: 147 YTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNA 181
            T+   I   C+  R   AL L K M  +G EP+ 
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 = 35.5 bits (83), Expect = 0.003
 Identities = 11/28 (39%), Positives = 21/28 (75%)

Query: 567 VAFGTLINGFCNSGDLDGAYQLFRRMED 594
           V + +LI+G+C +G L+ A +LF+ M++
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKE 28

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

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

 Score = 35.1 bits (82), Expect = 0.004
 Identities = 12/31 (38%), Positives = 21/31 (67%)

Query: 357 FTYCSLINGLCQDGDVDRAMAVYVKALEKGL 387
            TY SLI+G C+ G ++ A+ ++ +  EKG+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 35.2 bits (82), Expect = 0.004
 Identities = 12/34 (35%), Positives = 16/34 (47%)

Query: 286 VVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEP 319
           + TYN L+  L K      A   L +M   GL+P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	759
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	100.0
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	100.0
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.97
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.97
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.94
KOG2076	895	consensus RNA polymerase III transcription factor	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
KOG2076	895	consensus RNA polymerase III transcription factor	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.88
PRK14574	822	hmsH outer membrane protein; Provisional	99.87
PRK14574	822	hmsH outer membrane protein; Provisional	99.86
KOG2003	840	consensus TPR repeat-containing protein [General f	99.83
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.83
KOG2003	840	consensus TPR repeat-containing protein [General f	99.79
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.79
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.77
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.77
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.76
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.75
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.75
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.74
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.74
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.73
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.72
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.71
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.7
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.69
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.68
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.68
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.68
KOG1126	638	consensus DNA-binding cell division cycle control	99.67
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.66
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.65
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.65
KOG1126	638	consensus DNA-binding cell division cycle control	99.65
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.64
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.64
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.63
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.63
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.63
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.62
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.61
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.61
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.59
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.59
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.59
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.56
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.51
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.5
KOG1129	478	consensus TPR repeat-containing protein [General f	99.5
KOG1129	478	consensus TPR repeat-containing protein [General f	99.49
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.47
PRK12370	553	invasion protein regulator; Provisional	99.46
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.45
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.45
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.45
PRK12370	553	invasion protein regulator; Provisional	99.44
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.39
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.39
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.39
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.38
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.37
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.37
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.37
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.35
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.35
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.35
PRK11189	296	lipoprotein NlpI; Provisional	99.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.31
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.3
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.28
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.27
PRK11189	296	lipoprotein NlpI; Provisional	99.26
KOG1125	579	consensus TPR repeat-containing protein [General f	99.26
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.23
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	99.19
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.19
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.18
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	99.11
KOG1125	579	consensus TPR repeat-containing protein [General f	99.1
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.09
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.09
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.09
PF13041	50	PPR_2: PPR repeat family	99.08
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.07
PF13041	50	PPR_2: PPR repeat family	99.07
PRK04841	903	transcriptional regulator MalT; Provisional	99.05
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.05
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.02
KOG3060	289	consensus Uncharacterized conserved protein [Funct	99.0
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.0
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.0
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.0
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.99
PRK04841	903	transcriptional regulator MalT; Provisional	98.96
PRK15359	144	type III secretion system chaperone protein SscB;	98.95
PLN02789	320	farnesyltranstransferase	98.94
PLN02789	320	farnesyltranstransferase	98.94
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.93
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.93
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.93
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.9
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.87
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.87
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.84
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.84
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.8
PRK15359	144	type III secretion system chaperone protein SscB;	98.77
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.76
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.74
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.73
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.72
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.6
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.57
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.55
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.54
KOG0553	304	consensus TPR repeat-containing protein [General f	98.53
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.46
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.46
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.4
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.38
PF12854	34	PPR_1: PPR repeat	98.35
PF12854	34	PPR_1: PPR repeat	98.35
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.33
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.32
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.27
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.27
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.27
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.25
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.23
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.23
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.17
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	98.17
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.14
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.1
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.09
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.06
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.06
KOG0553	304	consensus TPR repeat-containing protein [General f	98.05
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.05
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.04
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.03
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.0
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.98
PF12688	120	TPR_5: Tetratrico peptide repeat	97.98
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.98
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.98
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.96
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.96
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.96
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.95
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.94
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.91
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.89
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.87
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.87
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.85
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.84
PRK10803	263	tol-pal system protein YbgF; Provisional	97.84
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.82
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.82
PF12688	120	TPR_5: Tetratrico peptide repeat	97.82
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.81
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.79
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.76
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.76
PRK11906	458	transcriptional regulator; Provisional	97.72
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.69
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.67
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.64
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.63
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.61
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.58
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.58
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.57
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.56
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.56
PRK15331	165	chaperone protein SicA; Provisional	97.55
PF13371	73	TPR_9: Tetratricopeptide repeat	97.54
PRK10803	263	tol-pal system protein YbgF; Provisional	97.49
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.48
PRK11906	458	transcriptional regulator; Provisional	97.48
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.45
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.43
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.42
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.34
KOG1258	577	consensus mRNA processing protein [RNA processing	97.33
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.32
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.32
PRK15331	165	chaperone protein SicA; Provisional	97.3
PF13371	73	TPR_9: Tetratricopeptide repeat	97.28
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.26
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.25
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.24
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	97.23
KOG1258	577	consensus mRNA processing protein [RNA processing	97.23
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.23
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.2
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.19
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.17
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.15
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.14
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.13
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.11
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.05
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.04
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.02
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.02
KOG4555	175	consensus TPR repeat-containing protein [Function	96.99
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.87
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	96.87
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.84
PF13512	142	TPR_18: Tetratricopeptide repeat	96.78
KOG1585	308	consensus Protein required for fusion of vesicles	96.72
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.72
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.72
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.7
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.7
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.63
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.62
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.6
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.59
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.58
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.54
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.5
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.49
PF13428	44	TPR_14: Tetratricopeptide repeat	96.47
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.47
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.39
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.36
KOG4555	175	consensus TPR repeat-containing protein [Function	96.32
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.3
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.3
PF13428	44	TPR_14: Tetratricopeptide repeat	96.28
PF13512	142	TPR_18: Tetratricopeptide repeat	96.2
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.16
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.12
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.12
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.09
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	95.85
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.78
PF13431	34	TPR_17: Tetratricopeptide repeat	95.75
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.73
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.66
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	95.66
KOG1586	288	consensus Protein required for fusion of vesicles	95.62
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	95.6
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.58
KOG4234	271	consensus TPR repeat-containing protein [General f	95.51
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	95.5
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.45
KOG4648	536	consensus Uncharacterized conserved protein, conta	95.4
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.33
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.29
COG4455	273	ImpE Protein of avirulence locus involved in tempe	95.26
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.2
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.19
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.04
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.96
KOG4234	271	consensus TPR repeat-containing protein [General f	94.89
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.85
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.73
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.73
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.69
PF13431	34	TPR_17: Tetratricopeptide repeat	94.69
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.57
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.54
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.48
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.46
KOG2471	696	consensus TPR repeat-containing protein [General f	94.43
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.39
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.3
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.11
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.09
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.99
KOG1585	308	consensus Protein required for fusion of vesicles	93.9
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.86
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.65
KOG1586	288	consensus Protein required for fusion of vesicles	93.64
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.53
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	93.48
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.47
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.39
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.27
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.99
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.98
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.97
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.86
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.7
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.41
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	92.16
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	92.08
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	92.0
KOG2062	929	consensus 26S proteasome regulatory complex, subun	91.93
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.84
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.73
PRK12798	421	chemotaxis protein; Reviewed	91.73
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	91.54
KOG3941	406	consensus Intermediate in Toll signal transduction	91.4
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.34
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.32
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.1
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.7
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	90.7
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	90.63
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.08
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	90.04
KOG3941	406	consensus Intermediate in Toll signal transduction	89.93
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	89.92
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	89.65
COG1747	711	Uncharacterized N-terminal domain of the transcrip	89.15
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	89.04
KOG3364	149	consensus Membrane protein involved in organellar	88.95
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.86
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.78
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	88.24
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.24
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.19
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	88.08
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	87.77
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.73
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	87.54
KOG4570	418	consensus Uncharacterized conserved protein [Funct	86.94
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.89
PF13929	292	mRNA_stabil: mRNA stabilisation	86.78
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.7
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	86.64
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.31
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	85.92
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	85.87
PRK09687	280	putative lyase; Provisional	85.33
KOG2471	696	consensus TPR repeat-containing protein [General f	85.31
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	85.04
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	84.8
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.67
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.4
COG3947	361	Response regulator containing CheY-like receiver a	84.4
COG5159	421	RPN6 26S proteasome regulatory complex component [	84.36
PRK11619	644	lytic murein transglycosylase; Provisional	83.69
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	83.59
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	83.59
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	83.54
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	83.45
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	83.42
KOG4507	886	consensus Uncharacterized conserved protein, conta	82.78
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	82.58
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	82.57
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.33
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.08
KOG3364	149	consensus Membrane protein involved in organellar	81.85
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	81.47
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	80.63

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.7e-82  Score=708.45  Aligned_cols=707  Identities=20%  Similarity=0.230  Sum_probs=663.6

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Q 004362            7 PKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNY   86 (759)
Q Consensus         7 ~~~~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~   86 (759)
                      +..+-..+.+.|++++|+++|+.+.. .|..|+..+|..++..+.+.+.++.|..++..+.+.++. .+..+++.++..|
T Consensus        54 ~n~~i~~l~~~g~~~~A~~l~~~m~~-~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~n~li~~~  131 (857)
T PLN03077         54 SNSQLRALCSHGQLEQALKLLESMQE-LRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPS-LGVRLGNAMLSMF  131 (857)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHh-cCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCC-CCchHHHHHHHHH
Confidence            34455556689999999999999654 578899999999999999999999999999999988754 3567889999999


Q ss_pred             HhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHH
Q 004362           87 GRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVAL  166 (759)
Q Consensus        87 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  166 (759)
                      .+.|+++.|.++|+.|.    +||+.+|+.++.+|.+.|++++|+++|++|...|+.||..||+.++++|+..++...+.
T Consensus       132 ~~~g~~~~A~~~f~~m~----~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~  207 (857)
T PLN03077        132 VRFGELVHAWYVFGKMP----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGR  207 (857)
T ss_pred             HhCCChHHHHHHHhcCC----CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHH
Confidence            99999999999999998    68999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCC
Q 004362          167 RLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRG  246 (759)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  246 (759)
                      +++..+.+.|+.|+..++++++.+|++.|++++|..+|++|.    .||..+|+.++.+|++.|++++|.++|++|...|
T Consensus       208 ~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g  283 (857)
T PLN03077        208 EVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELS  283 (857)
T ss_pred             HHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999999996    4689999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHH
Q 004362          247 VSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNA  326 (759)
Q Consensus       247 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  326 (759)
                      +.||..+|+.++.++++.|+.+.+.+++..+.+.|+.||..+|++++.+|++.|++++|.++|++|.    .||..+|+.
T Consensus       284 ~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~  359 (857)
T PLN03077        284 VDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTA  359 (857)
T ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999986    578999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCC
Q 004362          327 VIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGL  406 (759)
Q Consensus       327 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  406 (759)
                      ++.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|+++.|.++++.+.+.|+.|+..+++.|+.+|.+.|+
T Consensus       360 li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~  439 (857)
T PLN03077        360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC  439 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          407 ILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNT  486 (759)
Q Consensus       407 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  486 (759)
                      +++|.++|++|.+    +|..+|+.++.+|++.|+.++|..+|++|.. +..||..+|+.++.+|++.|+.+.+.+++..
T Consensus       440 ~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~  514 (857)
T PLN03077        440 IDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAH  514 (857)
T ss_pred             HHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHH
Confidence            9999999999875    5888999999999999999999999999986 5899999999999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccH
Q 004362          487 MWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDT  566 (759)
Q Consensus       487 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  566 (759)
                      +.+.|+.++..++++++.+|++.|+.++|.++|+.+     .||..+|+.++.+|++.|+.++|.++|++|.+.|+.||.
T Consensus       515 ~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~  589 (857)
T PLN03077        515 VLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDE  589 (857)
T ss_pred             HHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCc
Confidence            999999999999999999999999999999999987     579999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDS  646 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  646 (759)
                      .+|..++.+|.+.|++++|.++|+.|.+..+..|+..+|+.++.+|.+.|++++|.+++++|   .+.||..+|.+|+.+
T Consensus       590 ~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m---~~~pd~~~~~aLl~a  666 (857)
T PLN03077        590 VTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA  666 (857)
T ss_pred             ccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC---CCCCCHHHHHHHHHH
Confidence            99999999999999999999999999977788899999999999999999999999999998   478999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCcHHHHHHHHHHHHHCCCCCchHHHHHhc---------cc
Q 004362          647 FCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL-CVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEA---------DK  716 (759)
Q Consensus       647 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~~---------~~  716 (759)
                      |...|+.+.|....+++++  +.|++..++.++.+. ...|+|++|.++.+.|.++|++++..++|++.         ..
T Consensus       667 c~~~~~~e~~e~~a~~l~~--l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d  744 (857)
T PLN03077        667 CRIHRHVELGELAAQHIFE--LDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDD  744 (857)
T ss_pred             HHHcCChHHHHHHHHHHHh--hCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCC
Confidence            9999999999999999999  899888887776655 78999999999999999999999999998875         22


Q ss_pred             cccccchH-------HHHHHHhcCCCchHHHHH
Q 004362          717 REVASPKI-------VVEDLLKKSHITYYAYEL  742 (759)
Q Consensus       717 ~~~~~a~~-------~~~~~~~~~~~~~~~~~~  742 (759)
                      ..+.+..+       +.++|.+.||.|++.+.+
T Consensus       745 ~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~  777 (857)
T PLN03077        745 ESHPQIKEINTVLEGFYEKMKASGLAGSESSSM  777 (857)
T ss_pred             CCCcchHHHHHHHHHHHHHHHhCCcCCCcchhc
Confidence            23334443       445688899999987643

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.5e-79  Score=684.72  Aligned_cols=655  Identities=20%  Similarity=0.269  Sum_probs=628.2

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004362           75 LEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIK  154 (759)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  154 (759)
                      +...++.++..+.+.|++++|..+|+.|...|.+|+..+|..++.+|.+.+.++.+.+++..+.+.+..++...++.++.
T Consensus        50 ~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~  129 (857)
T PLN03077         50 STHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLS  129 (857)
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHH
Confidence            66789999999999999999999999999999999999999999999999999999999999999998899999999999


Q ss_pred             HHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhH
Q 004362          155 SFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRE  234 (759)
Q Consensus       155 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  234 (759)
                      .|++.|+.+.|.++|++|..    ||..+|+++|.+|.+.|++++|+++|++|...|+.||..||+.++.+|+..+++..
T Consensus       130 ~~~~~g~~~~A~~~f~~m~~----~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~  205 (857)
T PLN03077        130 MFVRFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLAR  205 (857)
T ss_pred             HHHhCCChHHHHHHHhcCCC----CCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhh
Confidence            99999999999999999974    67999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHH
Q 004362          235 SEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVN  314 (759)
Q Consensus       235 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  314 (759)
                      +.+++..+.+.|+.||..+++.++.+|++.|+++.|.++|++|.    .||..+|++++.+|++.|++++|.++|++|..
T Consensus       206 ~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~  281 (857)
T PLN03077        206 GREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRE  281 (857)
T ss_pred             HHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999998    78999999999999999999999999999999


Q ss_pred             CCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhH
Q 004362          315 EGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLY  394 (759)
Q Consensus       315 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  394 (759)
                      .|+.||..||+.++.+|++.|+++.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|++|..    ||..+|
T Consensus       282 ~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~  357 (857)
T PLN03077        282 LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSW  357 (857)
T ss_pred             cCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999863    689999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhc
Q 004362          395 NTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQ  474 (759)
Q Consensus       395 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  474 (759)
                      +.++.+|.+.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+++.|+.+|++.
T Consensus       358 n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~  437 (857)
T PLN03077        358 TAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKC  437 (857)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHH
Q 004362          475 LKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLL  554 (759)
Q Consensus       475 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  554 (759)
                      |++++|.++|++|.+    +|..+|+.++.+|++.|+.++|+.+|++|.. ++.||..||..++.+|++.|+.+.+.+++
T Consensus       438 g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~  512 (857)
T PLN03077        438 KCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIH  512 (857)
T ss_pred             CCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHH
Confidence            999999999999975    5889999999999999999999999999986 48999999999999999999999999999


Q ss_pred             HHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 004362          555 EEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCP  634 (759)
Q Consensus       555 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  634 (759)
                      ..+.+.|+.++..+++.++.+|+++|++++|.++|+.+      +++..+|+.++.+|.+.|+.++|+++|++|.+.|+.
T Consensus       513 ~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~------~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~  586 (857)
T PLN03077        513 AHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH------EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVN  586 (857)
T ss_pred             HHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc------CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999886      458899999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHhcCChHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc--hHHHH
Q 004362          635 PDNYTYRIMIDSFCKTGGINSGYCLLLENI-DKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE--VVNTI  711 (759)
Q Consensus       635 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~  711 (759)
                      ||..||+.++.+|.+.|++++|..+|+.|. +.|+.|+..+|..++..+.+.|++++|.+++++|.   +.|+  +|.++
T Consensus       587 Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~---~~pd~~~~~aL  663 (857)
T PLN03077        587 PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGAL  663 (857)
T ss_pred             CCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC---CCCCHHHHHHH
Confidence            999999999999999999999999999999 67999999999999999999999999999999984   6777  89999


Q ss_pred             Hhc--cccccccchHHHHHHHhcCCCchHHHHHHHhhhhhhhhhhh
Q 004362          712 FEA--DKREVASPKIVVEDLLKKSHITYYAYELLFDGIRDKKLLKK  755 (759)
Q Consensus       712 ~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  755 (759)
                      +.+  .+|+.+.+....+++++..|.....+.+|.+......+|++
T Consensus       664 l~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~  709 (857)
T PLN03077        664 LNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDE  709 (857)
T ss_pred             HHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHH
Confidence            988  78999999999999999999877888888887766666654

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.3e-67  Score=567.42  Aligned_cols=546  Identities=18%  Similarity=0.254  Sum_probs=492.1

Q ss_pred             CCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCC-CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHH
Q 004362          143 VPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGF-EPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNK  221 (759)
Q Consensus       143 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  221 (759)
                      .++...|..++..+++.|++++|.++|++|...++ +++...++.++..|.+.|..++|+.+|+.|..    ||..+|+.
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~  442 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNM  442 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHH
Confidence            45677888888889999999999999999998874 56777888899999999999999999998864    89999999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCC
Q 004362          222 LIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSK  301 (759)
Q Consensus       222 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  301 (759)
                      ++.+|++.|+++.|.++|+.|.+.|+.||..+|+.++.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHh--CCCCCCcccHHHHHHHHHhcCCHHHHHHHH
Q 004362          302 VVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIF--KGFVPDEFTYCSLINGLCQDGDVDRAMAVY  379 (759)
Q Consensus       302 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  379 (759)
                      +++|.++|++|...|+.||..+|+.++.+|++.|++++|.++|++|..  .++.||..+|+.++.+|++.|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999976  578899999999999999999999999999


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 004362          380 VKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIP  459 (759)
Q Consensus       380 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  459 (759)
                      +.|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHH
Q 004362          460 DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGE  539 (759)
Q Consensus       460 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  539 (759)
                      +..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|...|+.||..+|..++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHH
Q 004362          540 SLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFY  619 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  619 (759)
                      +|++.|++++|.+++++|.+.|+.||..+|+.++.+|.  +.+++|....+.+..-  .+         +......+..+
T Consensus       763 a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~f--~~---------g~~~~~n~w~~  829 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVSF--DS---------GRPQIENKWTS  829 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhhh--hc---------cccccccchHH
Confidence            99999999999999999999999999999999987654  2466666554444322  00         11112223456


Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 004362          620 MAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMV  699 (759)
Q Consensus       620 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  699 (759)
                      +|..+|++|.+.|+.||..||..++.+++..+..+.+..+++.+...+..|+..+|..++.++.+  ..++|..++++|.
T Consensus       830 ~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~--~~~~A~~l~~em~  907 (1060)
T PLN03218        830 WALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGE--YDPRAFSLLEEAA  907 (1060)
T ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhcc--ChHHHHHHHHHHH
Confidence            79999999999999999999999998888899999999999888777788899999999998743  2468999999999


Q ss_pred             HCCCCCch
Q 004362          700 QKGIVPEV  707 (759)
Q Consensus       700 ~~~~~p~~  707 (759)
                      ..|+.|+.
T Consensus       908 ~~Gi~p~~  915 (1060)
T PLN03218        908 SLGVVPSV  915 (1060)
T ss_pred             HcCCCCCc
Confidence            99999994

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.6e-66  Score=560.40  Aligned_cols=547  Identities=18%  Similarity=0.267  Sum_probs=489.4

Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHH
Q 004362           37 KHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNT  116 (759)
Q Consensus        37 ~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  116 (759)
                      .++...|..+...|++.|++++|.++|+.+...+..+.+...+..++..|.+.|..++|..+|+.|.    .||..+|+.
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~----~pd~~Tyn~  442 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR----NPTLSTFNM  442 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC----CCCHHHHHH
Confidence            4456677888888899999999999999999887432255566678889999999999999999998    489999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCC
Q 004362          117 IMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENH  196 (759)
Q Consensus       117 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  196 (759)
                      ++.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|+.+.|.++|++|.+.|+.||..+|+.+|.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhh--CCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004362          197 NVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLK--RGVSPNLFTFNMFIQGLCRKGAISEAISLL  274 (759)
Q Consensus       197 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  274 (759)
                      +++|+++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999976  578999999999999999999999999999


Q ss_pred             HHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCC
Q 004362          275 DSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVP  354 (759)
Q Consensus       275 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  354 (759)
                      +.|.+.++.|+..+|+.++.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          355 DEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVIN  434 (759)
Q Consensus       355 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  434 (759)
                      +..+|+.+|.+|++.|++++|.++|++|...|+.|+..+|+.||.+|++.|++++|.++|++|...|+.||..||+.++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004362          435 GLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSED  514 (759)
Q Consensus       435 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  514 (759)
                      +|++.|++++|.+++.+|.+.|+.||..+|+.++.+|.+  .+++|..+.+.+...+.          .......+..+.
T Consensus       763 a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~--~y~ka~~l~~~v~~f~~----------g~~~~~n~w~~~  830 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDS----------GRPQIENKWTSW  830 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhhhhc----------cccccccchHHH
Confidence            999999999999999999999999999999999876542  45666555444432210          011111233467


Q ss_pred             HHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHH
Q 004362          515 VMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMED  594 (759)
Q Consensus       515 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  594 (759)
                      |+.+|++|.+.|+.||..||..++.++...+..+.+..+++.+...+..|+..+|+.+++++.+.  .++|..+|+.|..
T Consensus       831 Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~  908 (1060)
T PLN03218        831 ALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAAS  908 (1060)
T ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHH
Confidence            99999999999999999999999988888889999999999988888889999999999988432  4689999999999


Q ss_pred             ccCCCCc
Q 004362          595 QYKISHT  601 (759)
Q Consensus       595 ~~~~~~~  601 (759)
                      .+..|+-
T Consensus       909 ~Gi~p~~  915 (1060)
T PLN03218        909 LGVVPSV  915 (1060)
T ss_pred             cCCCCCc
Confidence            8766654

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

Probab=100.00  E-value=5.6e-63  Score=538.11  Aligned_cols=518  Identities=19%  Similarity=0.297  Sum_probs=459.5

Q ss_pred             CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHH
Q 004362          178 EPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMG-ISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNM  256 (759)
Q Consensus       178 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  256 (759)
                      ..+..+|+.+|..+.+.|++++|+++|+.|...+ ..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.
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            3456789999999999999999999999998764 679999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCC
Q 004362          257 FIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGM  336 (759)
Q Consensus       257 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  336 (759)
                      ++.+|++.|+++.|.++|++|.    .||..+|++++.+|++.|++++|.++|++|.+.|+.|+..+|..++.+|++.|.
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~  239 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGS  239 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCc
Confidence            9999999999999999999998    789999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          337 ISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNE  416 (759)
Q Consensus       337 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  416 (759)
                      .+.+.+++..+.+.|+.+|..+++.|+.+|++.|++++|.++|++|..    +|..+||.++.+|++.|++++|+++|++
T Consensus       240 ~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~  315 (697)
T PLN03081        240 ARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYE  315 (697)
T ss_pred             HHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999864    5999999999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004362          417 MSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDV  496 (759)
Q Consensus       417 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  496 (759)
                      |.+.|+.||..||+.++.+|++.|.+++|.+++..+.+.|+.||..+++.|+.+|++.|++++|.++|++|.+    ||.
T Consensus       316 M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~  391 (697)
T PLN03081        316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNL  391 (697)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCe
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999864    688


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCccHHHHHHHHHH
Q 004362          497 ITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMEN-KGLTLDTVAFGTLING  575 (759)
Q Consensus       497 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~  575 (759)
                      .+|+.++.+|++.|+.++|+++|++|.+.|+.||..||..++.+|.+.|.+++|.++|+.|.+ .|+.|+..+|+.++.+
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~  471 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIEL  471 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHH
Confidence            889999999999999999999999888888888888888888888888888888888888875 4777777777777777


Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  655 (759)
                      |++.|++++|.++++++                                       ++.|+..+|+.|+.+|...|+++.
T Consensus       472 l~r~G~~~eA~~~~~~~---------------------------------------~~~p~~~~~~~Ll~a~~~~g~~~~  512 (697)
T PLN03081        472 LGREGLLDEAYAMIRRA---------------------------------------PFKPTVNMWAALLTACRIHKNLEL  512 (697)
T ss_pred             HHhcCCHHHHHHHHHHC---------------------------------------CCCCCHHHHHHHHHHHHHcCCcHH
Confidence            77777777777765432                                       457888899999999999999999


Q ss_pred             HHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCchHHHHHhcc-------cc--cc------
Q 004362          656 GYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEAD-------KR--EV------  719 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~~~-------~~--~~------  719 (759)
                      |..+++++.+  +.|+ ..+|..++..|.+.|+|++|.+++++|.++|+.+...++|++.+       .|  .+      
T Consensus       513 a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i  590 (697)
T PLN03081        513 GRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREI  590 (697)
T ss_pred             HHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHH
Confidence            9999999887  7786 45677777888899999999999999999999877666776541       11  12      


Q ss_pred             -ccchHHHHHHHhcCCCchHHHHHHHhhhh
Q 004362          720 -ASPKIVVEDLLKKSHITYYAYELLFDGIR  748 (759)
Q Consensus       720 -~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  748 (759)
                       +....+..+|.+.||.|++.+.+.....+
T Consensus       591 ~~~l~~l~~~~~~~gy~~~~~~~~~~~~~~  620 (697)
T PLN03081        591 YQKLDELMKEISEYGYVAEENELLPDVDED  620 (697)
T ss_pred             HHHHHHHHHHHHHcCCCCCcchhhccccHH
Confidence             33345667788899999988766554433

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

Probab=100.00  E-value=1.4e-59  Score=511.61  Aligned_cols=577  Identities=19%  Similarity=0.285  Sum_probs=495.5

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhCC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004362           77 GVHIGVMRNYGRRGKVQEAVDVFERMDFYN-CEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKS  155 (759)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  155 (759)
                      ..++.++..+.+.|++++|+++|+.|...+ ..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.++..
T Consensus        88 ~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~  167 (697)
T PLN03081         88 VSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLM  167 (697)
T ss_pred             eeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            368889999999999999999999998654 5789999999999999999999999999999999999999999999999


Q ss_pred             HHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHH
Q 004362          156 FCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRES  235 (759)
Q Consensus       156 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  235 (759)
                      |++.|+++.|.++|++|.+    ||..+|++++.+|++.|++++|+++|++|.+.|+.|+..+|..++.+|++.|+.+.+
T Consensus       168 y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        168 HVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            9999999999999999975    689999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 004362          236 EKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNE  315 (759)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  315 (759)
                      .+++..+.+.|+.||..+++.|+.+|++.|++++|.++|++|.    .+|..+|++++.+|++.|++++|.++|++|...
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~  319 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDS  319 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999997    789999999999999999999999999999999


Q ss_pred             CCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 004362          316 GLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYN  395 (759)
Q Consensus       316 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  395 (759)
                      |+.||..||+.++.+|++.|+++.|.+++..+.+.|+.||..+++.|+.+|+++|++++|.++|++|.+    ||..+||
T Consensus       320 g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n  395 (697)
T PLN03081        320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWN  395 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999864    6999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-CCCCCCHhhHHHHHHHHHhc
Q 004362          396 TLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAIS-KGYIPDIFTFNTLIDGYCKQ  474 (759)
Q Consensus       396 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~  474 (759)
                      .||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .++.|+..+|+.++++|++.
T Consensus       396 ~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~  475 (697)
T PLN03081        396 ALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGRE  475 (697)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999986 58999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHH
Q 004362          475 LKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLL  554 (759)
Q Consensus       475 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  554 (759)
                      |++++|.+++++|   ++.|+..+|+.++.+|...|+.+.|..+++++.+.+ +.+..+|..++..|++.|++++|.+++
T Consensus       476 G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~-p~~~~~y~~L~~~y~~~G~~~~A~~v~  551 (697)
T PLN03081        476 GLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG-PEKLNNYVVLLNLYNSSGRQAEAAKVV  551 (697)
T ss_pred             CCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCC-CCCCcchHHHHHHHHhCCCHHHHHHHH
Confidence            9999999998876   467999999999999999999999999999997653 235679999999999999999999999


Q ss_pred             HHHHHCCCCccHH-HHHHHH---HHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          555 EEMENKGLTLDTV-AFGTLI---NGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       555 ~~~~~~~~~~~~~-~~~~l~---~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      +.|.+.|+...+. +|..+.   ..+. .|+              ...|....+             +....++..+|.+
T Consensus       552 ~~m~~~g~~k~~g~s~i~~~~~~~~f~-~~d--------------~~h~~~~~i-------------~~~l~~l~~~~~~  603 (697)
T PLN03081        552 ETLKRKGLSMHPACTWIEVKKQDHSFF-SGD--------------RLHPQSREI-------------YQKLDELMKEISE  603 (697)
T ss_pred             HHHHHcCCccCCCeeEEEECCeEEEEc-cCC--------------CCCccHHHH-------------HHHHHHHHHHHHH
Confidence            9999998754332 121110   0000 011              001111111             2233456677777


Q ss_pred             cCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH--HHhCCCC--CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCC
Q 004362          631 KGCPPDNYTYRIMIDSFCKTGGINSGYCLLLE--NIDKGFI--PSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKG  702 (759)
Q Consensus       631 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~--~~~~g~~--p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  702 (759)
                      .|..||......=+.    ....++.+..-.+  ++..|+.  |.. +...+..++.-+|+.+.|.+++.++....
T Consensus       604 ~gy~~~~~~~~~~~~----~~~~~~~~~~hsekla~a~~l~~~~~~-~~i~i~knlr~c~dch~~~k~~s~~~~r~  674 (697)
T PLN03081        604 YGYVAEENELLPDVD----EDEEKVSGRYHSEKLAIAFGLINTSEW-TPLQITQSHRICKDCHKVIKFIALVTKRE  674 (697)
T ss_pred             cCCCCCcchhhcccc----HHHHHHHHHhccHHHHHHhhCccCCCC-CeEEEecCCEECCCchhhHHHHhhhcceE
Confidence            788887432211000    0011122222111  2333432  221 12345677778999999999999987644

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

Probab=100.00  E-value=3.7e-44  Score=413.68  Aligned_cols=721  Identities=12%  Similarity=0.043  Sum_probs=590.3

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHH
Q 004362            8 KHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYG   87 (759)
Q Consensus         8 ~~~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (759)
                      ..++.++...|++++|++.++.+....  +.+...+..++.++...|++++|...|+.+...+|.  +..++..++..+.
T Consensus       163 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~--~~~~~~~~~~~~~  238 (899)
T TIGR02917       163 LGLAQLALAENRFDEARALIDEVLTAD--PGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPN--NPAVLLALATILI  238 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC--CHHHHHHHHHHHH
Confidence            345666778999999999999987754  346778888899999999999999999999998888  8889999999999


Q ss_pred             hcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCChhhHH
Q 004362           88 RRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPD-VYTFVIRIKSFCRTRRPHVAL  166 (759)
Q Consensus        88 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~  166 (759)
                      ..|++++|...++.+.... +.+...+......+...|++++|...|+++.+.+  |+ ...+..+...+...|+++.|.
T Consensus       239 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~~~~~~~~~~g~~~~A~  315 (899)
T TIGR02917       239 EAGEFEEAEKHADALLKKA-PNSPLAHYLKALVDFQKKNYEDARETLQDALKSA--PEYLPALLLAGASEYQLGNLEQAY  315 (899)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999998655 3444555556667778999999999999998865  33 445556677788999999999


Q ss_pred             HHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCC
Q 004362          167 RLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRG  246 (759)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  246 (759)
                      ..++.+.... +.+...+..+...+...|++++|...++.+.... +.+...+..+...+.+.|++++|.++|+++.+..
T Consensus       316 ~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  393 (899)
T TIGR02917       316 QYLNQILKYA-PNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKAAEYLAKATELD  393 (899)
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999988775 5667788888889999999999999999998764 3467778888899999999999999999988764


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHH
Q 004362          247 VSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNA  326 (759)
Q Consensus       247 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  326 (759)
                       +.+...+..+...+...|++++|.+.++.+.... +........++..+.+.|++++|..+++.+... .+.+..++..
T Consensus       394 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~  470 (899)
T TIGR02917       394 -PENAAARTQLGISKLSQGDPSEAIADLETAAQLD-PELGRADLLLILSYLRSGQFDKALAAAKKLEKK-QPDNASLHNL  470 (899)
T ss_pred             -CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcHHHHH
Confidence             3356677888888999999999999999987664 334455667778889999999999999998876 3456778888


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCC
Q 004362          327 VIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGL  406 (759)
Q Consensus       327 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  406 (759)
                      +...+...|++++|.+.|+++.... +.+...+..++..+...|++++|...|+++....+. +..++..+...+...|+
T Consensus       471 l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  548 (899)
T TIGR02917       471 LGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPK-NLRAILALAGLYLRTGN  548 (899)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHcCC
Confidence            8999999999999999999988764 335567778888999999999999999999887655 77888889999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          407 ILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNT  486 (759)
Q Consensus       407 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  486 (759)
                      .++|...++++...+ +.+...+..++..+...|++++|..+++.+.... +.+...|..+..+|...|++++|...|++
T Consensus       549 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  626 (899)
T TIGR02917       549 EEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKK  626 (899)
T ss_pred             HHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999988764 3456677888889999999999999999988754 55778899999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccH
Q 004362          487 MWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDT  566 (759)
Q Consensus       487 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  566 (759)
                      +.+.. +.+...+..+..++...|++++|...|+++.+.. +.+..++..++..+...|++++|..+++.+.+. .+.+.
T Consensus       627 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~  703 (899)
T TIGR02917       627 LLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQ-HPKAA  703 (899)
T ss_pred             HHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcCCh
Confidence            98764 3367778888899999999999999999998764 446778888999999999999999999999887 35677


Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDS  646 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  646 (759)
                      ..+..++..+...|++++|...|+.+...  .|.+ ..+..++.++...|++++|.+.++++.+.. +.+...+..++..
T Consensus       704 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~  779 (899)
T TIGR02917       704 LGFELEGDLYLRQKDYPAAIQAYRKALKR--APSS-QNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAEL  779 (899)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCc-hHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            78888889999999999999999999887  4444 677788899999999999999999998763 5568888889999


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc---hHHHHHhc--cccccc
Q 004362          647 FCKTGGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE---VVNTIFEA--DKREVA  720 (759)
Q Consensus       647 ~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~~~--~~~~~~  720 (759)
                      |...|++++|...|+++++  ..|+ ...+..+...+...|+ .+|+.+++++...  .|+   .+..+...  ..|+++
T Consensus       780 ~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~  854 (899)
T TIGR02917       780 YLAQKDYDKAIKHYRTVVK--KAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKL--APNIPAILDTLGWLLVEKGEAD  854 (899)
T ss_pred             HHHCcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHH
Confidence            9999999999999999998  5565 4455666677778888 8899999998873  444   33333333  789999


Q ss_pred             cchHHHHHHHhcCCCchHHHHHHHhh-hhhhhhhhhh
Q 004362          721 SPKIVVEDLLKKSHITYYAYELLFDG-IRDKKLLKKK  756 (759)
Q Consensus       721 ~a~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  756 (759)
                      +|...++++++.++....++..+... ...|+..++.
T Consensus       855 ~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~  891 (899)
T TIGR02917       855 RALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEAR  891 (899)
T ss_pred             HHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999988744554444444 4456665553

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=2.4e-43  Score=406.95  Aligned_cols=710  Identities=13%  Similarity=0.061  Sum_probs=567.9

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhc
Q 004362           10 VAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRR   89 (759)
Q Consensus        10 ~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (759)
                      ++..+...|++++|.+.|+.+....+.  +...+..++..+...|++++|.+.++.+...+|.  +...+..++..+...
T Consensus       131 ~~~~~~~~~~~~~A~~~~~~a~~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~~~~~~~~  206 (899)
T TIGR02917       131 RGLAYLGLGQLELAQKSYEQALAIDPR--SLYAKLGLAQLALAENRFDEARALIDEVLTADPG--NVDALLLKGDLLLSL  206 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCC--ChhhHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHhc
Confidence            455566788999999999988776543  4556778888888999999999999999888877  778888889999999


Q ss_pred             CChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHH
Q 004362           90 GKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLL  169 (759)
Q Consensus        90 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  169 (759)
                      |++++|...|+++.... +.+...+..++.++...|++++|...++.+.+.. +.+...+......+...|++++|...|
T Consensus       207 g~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~  284 (899)
T TIGR02917       207 GNIELALAAYRKAIALR-PNNPAVLLALATILIEAGEFEEAEKHADALLKKA-PNSPLAHYLKALVDFQKKNYEDARETL  284 (899)
T ss_pred             CCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCHHHHHHHH
Confidence            99999999999887655 5677788888888999999999999999988764 233444445555667889999999999


Q ss_pred             hhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCC
Q 004362          170 KNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSP  249 (759)
Q Consensus       170 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  249 (759)
                      +++.+.+ +.+...+..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.... +.
T Consensus       285 ~~~l~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~  361 (899)
T TIGR02917       285 QDALKSA-PEYLPALLLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PD  361 (899)
T ss_pred             HHHHHhC-CCchhHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CC
Confidence            9888765 3334555666677888999999999999988763 3355667777888889999999999999887764 34


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHH
Q 004362          250 NLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVID  329 (759)
Q Consensus       250 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  329 (759)
                      +...+..+...+.+.|++++|.+.|+++.... +.+...+..+...+...|++++|...++.+...... .......++.
T Consensus       362 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~  439 (899)
T TIGR02917       362 DPAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLIL  439 (899)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHH
Confidence            67788888888999999999999999887654 445667777888888999999999999988876432 3345556777


Q ss_pred             HHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHH
Q 004362          330 GYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQ  409 (759)
Q Consensus       330 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  409 (759)
                      .+.+.|+++.|..+++.+.... +.+..++..+...+...|++++|...|+++.+..+. +...+..+...+...|++++
T Consensus       440 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~  517 (899)
T TIGR02917       440 SYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPD-FFPAAANLARIDIQEGNPDD  517 (899)
T ss_pred             HHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHCCCHHH
Confidence            8888999999999999887653 446778888899999999999999999998877554 66677888888889999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          410 ALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWS  489 (759)
Q Consensus       410 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  489 (759)
                      |...++++...+ +.+..++..+...+...|+.++|..+++++.... +.+...+..++..|...|++++|..+++.+.+
T Consensus       518 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  595 (899)
T TIGR02917       518 AIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAAD  595 (899)
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999988764 3467788888888889999999999999887764 44667778888889999999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHH
Q 004362          490 HGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAF  569 (759)
Q Consensus       490 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  569 (759)
                      .. +.+...|..++.++...|++++|+..|+.+.+.. +.+...+..++.++...|++++|..+++++.+. .+.+...+
T Consensus       596 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~  672 (899)
T TIGR02917       596 AA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALEL-KPDNTEAQ  672 (899)
T ss_pred             cC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCHHHH
Confidence            53 4567888889999999999999999999988764 346667888888899999999999999998876 45567888


Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh
Q 004362          570 GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK  649 (759)
Q Consensus       570 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  649 (759)
                      ..++..+...|++++|.++++.+...  .|++...+..++.++...|++++|++.|+++.+.  .|+..++..++.++..
T Consensus       673 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~  748 (899)
T TIGR02917       673 IGLAQLLLAAKRTESAKKIAKSLQKQ--HPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLA  748 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHH
Confidence            88899999999999999999999887  6778888888999999999999999999998865  4666778888889999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc---hHHHHHhc--cccccccch
Q 004362          650 TGGINSGYCLLLENIDKGFIPSLS-TIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE---VVNTIFEA--DKREVASPK  723 (759)
Q Consensus       650 ~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~~~--~~~~~~~a~  723 (759)
                      .|++++|...++++++  ..|++. .+..+...+...|++++|.++++++.+.  .|+   .+..+...  ..|+ ++|.
T Consensus       749 ~g~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~-~~A~  823 (899)
T TIGR02917       749 SGNTAEAVKTLEAWLK--THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK--APDNAVVLNNLAWLYLELKD-PRAL  823 (899)
T ss_pred             CCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCc-HHHH
Confidence            9999999999999988  556544 4445555567889999999999999874  344   33333333  5666 7799


Q ss_pred             HHHHHHHhcCCCchHHHHHHHhh
Q 004362          724 IVVEDLLKKSHITYYAYELLFDG  746 (759)
Q Consensus       724 ~~~~~~~~~~~~~~~~~~~~~~~  746 (759)
                      ..++++++..+.....+..+...
T Consensus       824 ~~~~~~~~~~~~~~~~~~~~~~~  846 (899)
T TIGR02917       824 EYAEKALKLAPNIPAILDTLGWL  846 (899)
T ss_pred             HHHHHHHhhCCCCcHHHHHHHHH
Confidence            99999998877766555544444

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=3.5e-32  Score=311.27  Aligned_cols=641  Identities=14%  Similarity=0.057  Sum_probs=447.5

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHH--------
Q 004362           43 YKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSY--------  114 (759)
Q Consensus        43 ~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--------  114 (759)
                      +...++.....++.+.|.+.++++....|.  ++.++..+++.+.+.|+.++|.+.++++.... +.+....        
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p~--~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~-P~~~~~~~~~~~~~~  107 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELIDPN--NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA-PDSNAYRSSRTTMLL  107 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccCCC--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHh
Confidence            445555666677777777777777777776  66777777777777777777777777776554 2232221        


Q ss_pred             --------HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHH
Q 004362          115 --------NTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVY-TFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYC  185 (759)
Q Consensus       115 --------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  185 (759)
                              ..+.+.+...|++++|.+.|+.+.+.+ +|+.. ............|+.++|++.++++.... |.+...+.
T Consensus       108 ~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~  185 (1157)
T PRK11447        108 STPEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRN  185 (1157)
T ss_pred             cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHH
Confidence                    223345666777777777777776643 23321 11111112223477777777777777664 45566677


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCC----------------Ch---hhHHHHHHHHHhcCChhHHHHHHHHHhhCC
Q 004362          186 TLIAGFYEENHNVEAYELFDEMLGMGISP----------------DI---ATFNKLIHTLCKKGNVRESEKLFNKVLKRG  246 (759)
Q Consensus       186 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----------------~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  246 (759)
                      .+...+...|++++|++.|+++.......                +.   ..+...+..+........|...+.......
T Consensus       186 ~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~  265 (1157)
T PRK11447        186 TLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQL  265 (1157)
T ss_pred             HHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhc
Confidence            77777777777777777777765432100                00   011111111111222344555555544332


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCh-hcH-
Q 004362          247 VSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDG-FSY-  324 (759)
Q Consensus       247 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~-  324 (759)
                      ..|.... ......+...|++++|+..|++..+.. +.+...+..+..++.+.|++++|+..|++..+....... ..+ 
T Consensus       266 ~dp~~~~-~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~  343 (1157)
T PRK11447        266 ADPAFRA-RAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWE  343 (1157)
T ss_pred             cCcchHH-HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHH
Confidence            2333221 233556778899999999999988764 446778888889999999999999999998876332111 111 


Q ss_pred             -----------HHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHh
Q 004362          325 -----------NAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVL  393 (759)
Q Consensus       325 -----------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  393 (759)
                                 ......+.+.|++++|+..+++++... +.+...+..+...+...|++++|++.|+++.+..+. +...
T Consensus       344 ~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a  421 (1157)
T PRK11447        344 SLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNA  421 (1157)
T ss_pred             HHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHH
Confidence                       122446678899999999999999874 335667778899999999999999999999987554 5666


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--------CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHH
Q 004362          394 YNTLIKGLSQQGLILQALQLMNEMSESGCC--------PDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFN  465 (759)
Q Consensus       394 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  465 (759)
                      +..+...|. .++.++|...++.+......        .....+..+...+...|++++|...+++.++.. +.+...+.
T Consensus       422 ~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~  499 (1157)
T PRK11447        422 VRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTY  499 (1157)
T ss_pred             HHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            777777664 45789998888765432100        011234556677888999999999999998874 34677788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh---------hcHHH
Q 004362          466 TLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNI---------ITYSI  536 (759)
Q Consensus       466 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~  536 (759)
                      .+...|.+.|++++|...++++.+.. +.+...+..+...+...++.++|+..++.+......++.         ..+..
T Consensus       500 ~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~  578 (1157)
T PRK11447        500 RLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLE  578 (1157)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHH
Confidence            88999999999999999999998753 235555666666677889999999999876543222221         12335


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL  616 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  616 (759)
                      .+..+...|++++|..+++.     .+.+...+..+...+.+.|++++|+..|+++...  .|.++..+..++.+|...|
T Consensus       579 ~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g  651 (1157)
T PRK11447        579 TANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQG  651 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCC
Confidence            56778899999999999872     4567777888999999999999999999999998  8999999999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCcH
Q 004362          617 NFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-------STIGRVINCLCVDHRV  688 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-------~~~~~l~~~~~~~g~~  688 (759)
                      ++++|++.++++.+.  .|+ ..++..++.++...|++++|..++++++.  ..|+.       ..+..+...+...|++
T Consensus       652 ~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~--~~~~~~~~~~~a~~~~~~a~~~~~~G~~  727 (1157)
T PRK11447        652 DLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIP--QAKSQPPSMESALVLRDAARFEAQTGQP  727 (1157)
T ss_pred             CHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh--hCccCCcchhhHHHHHHHHHHHHHcCCH
Confidence            999999999998854  454 67788888999999999999999999987  33321       2333445566789999


Q ss_pred             HHHHHHHHHHHH-CCCCCc
Q 004362          689 HEAVGFVHLMVQ-KGIVPE  706 (759)
Q Consensus       689 ~~A~~~~~~~~~-~~~~p~  706 (759)
                      ++|+..++++.. .|+.|.
T Consensus       728 ~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        728 QQALETYKDAMVASGITPT  746 (1157)
T ss_pred             HHHHHHHHHHHhhcCCCCC
Confidence            999999999863 445443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=5.2e-31  Score=301.65  Aligned_cols=635  Identities=12%  Similarity=0.044  Sum_probs=477.5

Q ss_pred             HhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHH--------------
Q 004362           14 VKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVH--------------   79 (759)
Q Consensus        14 l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~--------------   79 (759)
                      -...++++.|.+.++++....+.  ++..+...+.++...|+.++|.+.++++.+..|.  +....              
T Consensus        38 ~~~~~~~d~a~~~l~kl~~~~p~--~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~--~~~~~~~~~~~~~~~~~~~  113 (1157)
T PRK11447         38 GEATHREDLVRQSLYRLELIDPN--NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPD--SNAYRSSRTTMLLSTPEGR  113 (1157)
T ss_pred             HHhhCChHHHHHHHHHHHccCCC--CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC--ChHHHHHHHHHHhcCCchh
Confidence            34789999999999998877654  5677788999999999999999999999999988  54432              


Q ss_pred             --HHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHH-HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004362           80 --IGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLS-YNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSF  156 (759)
Q Consensus        80 --~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  156 (759)
                        ..+++.+.+.|++++|+..|+.+...+ +++... ...........|+.++|+..++++.+.. +.+...+..+...+
T Consensus       114 ~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll  191 (1157)
T PRK11447        114 QALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLL  191 (1157)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence              445678899999999999999998654 444321 1112222334699999999999999874 44677888899999


Q ss_pred             HccCChhhHHHHHhhchhCCCCCCH---HhH-----------------HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh
Q 004362          157 CRTRRPHVALRLLKNMPSQGFEPNA---VAY-----------------CTLIAGFYEENHNVEAYELFDEMLGMGISPDI  216 (759)
Q Consensus       157 ~~~~~~~~A~~~~~~~~~~~~~~~~---~~~-----------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  216 (759)
                      ...|++++|+..++++.... +.+.   ..|                 ...+..+-.......+...+.........|+.
T Consensus       192 ~~~g~~~eAl~~l~~~~~~~-~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~  270 (1157)
T PRK11447        192 FSSGRRDEGFAVLEQMAKSP-AGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAF  270 (1157)
T ss_pred             HccCCHHHHHHHHHHHhhCC-CchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcch
Confidence            99999999999999986542 1111   111                 11111111122234455555554443223332


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC-CcchHH-----
Q 004362          217 ATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTP-DVVTYN-----  290 (759)
Q Consensus       217 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~-----  290 (759)
                      .. ......+...|++++|...|++.++... .+...+..+...+.+.|++++|+..|++..+..... ....|.     
T Consensus       271 ~~-~~~G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~  348 (1157)
T PRK11447        271 RA-RAQGLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKV  348 (1157)
T ss_pred             HH-HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHh
Confidence            21 2335667789999999999999998743 377888999999999999999999999988663211 111121     


Q ss_pred             -------HHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHH
Q 004362          291 -------TLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLI  363 (759)
Q Consensus       291 -------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  363 (759)
                             .....+.+.|++++|+..|+++.... +.+...+..+...+...|++++|++.|+++++.. +.+...+..+.
T Consensus       349 ~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~  426 (1157)
T PRK11447        349 NRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLA  426 (1157)
T ss_pred             hhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence                   22346678999999999999999874 3356677788899999999999999999999864 22455666677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCC--------CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004362          364 NGLCQDGDVDRAMAVYVKALEKGLK--------PSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVING  435 (759)
Q Consensus       364 ~~~~~~~~~~~A~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  435 (759)
                      ..+. .++.++|..+++.+......        .....+..+...+...|++++|++.|++..+... -+...+..+...
T Consensus       427 ~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~  504 (1157)
T PRK11447        427 NLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDP-GSVWLTYRLAQD  504 (1157)
T ss_pred             HHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            7664 46789999888765432110        0123455667788899999999999999998742 256677888899


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH---------HHHHHHHHH
Q 004362          436 LCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVI---------TYNSLLNGL  506 (759)
Q Consensus       436 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---------~~~~l~~~~  506 (759)
                      |...|++++|...++++.+.. +.+...+..+...+...++.++|...++.+......++..         .+..+...+
T Consensus       505 ~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l  583 (1157)
T PRK11447        505 LRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRL  583 (1157)
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHH
Confidence            999999999999999998764 3355555556666778999999999998875432222221         123456678


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHH
Q 004362          507 CKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAY  586 (759)
Q Consensus       507 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  586 (759)
                      ...|+.++|..+++.     .+++...+..++..+...|++++|+..|+++++. .|.+...+..++.+|...|++++|+
T Consensus       584 ~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~-~P~~~~a~~~la~~~~~~g~~~eA~  657 (1157)
T PRK11447        584 RDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR-EPGNADARLGLIEVDIAQGDLAAAR  657 (1157)
T ss_pred             HHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            889999999999872     2456677888999999999999999999999987 4667889999999999999999999


Q ss_pred             HHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CC---CHhhHHHHHHHHHhcCChHHHHHHHH
Q 004362          587 QLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGC--PP---DNYTYRIMIDSFCKTGGINSGYCLLL  661 (759)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~p---~~~~~~~l~~~~~~~g~~~~A~~~~~  661 (759)
                      +.++.+...  .|++...+..++.++...|++++|+++++++++..-  +|   +...+..++..+...|++++|+..|+
T Consensus       658 ~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~  735 (1157)
T PRK11447        658 AQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYK  735 (1157)
T ss_pred             HHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999877  778888899999999999999999999999986521  11   12466677889999999999999999


Q ss_pred             HHHh-CCCCC
Q 004362          662 ENID-KGFIP  670 (759)
Q Consensus       662 ~~~~-~g~~p  670 (759)
                      +++. .|+.|
T Consensus       736 ~Al~~~~~~~  745 (1157)
T PRK11447        736 DAMVASGITP  745 (1157)
T ss_pred             HHHhhcCCCC
Confidence            9974 35554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=100.00  E-value=2.6e-27  Score=257.56  Aligned_cols=638  Identities=12%  Similarity=0.024  Sum_probs=391.0

Q ss_pred             HHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChh
Q 004362           49 KLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFS  128 (759)
Q Consensus        49 ~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  128 (759)
                      .+...|++++|...|+.+...+|.  +..++..+++.|...|++++|+..+++..... +.|...+..+ ..+   ++++
T Consensus        53 ~~~~~Gd~~~A~~~l~~Al~~dP~--n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld-P~n~~~~~~L-a~i---~~~~  125 (987)
T PRK09782         53 KAQKNNDEATAIREFEYIHQQVPD--NIPLTLYLAEAYRHFGHDDRARLLLEDQLKRH-PGDARLERSL-AAI---PVEV  125 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-cccHHHHHHH-HHh---ccCh
Confidence            334559999999999999999999  78999999999999999999999999998764 3444444443 222   8899


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH--------HHccCChhhHHHHHhhchhCCCCCCHHhHHHH-HHHHHhcCChhH
Q 004362          129 QVHKVYMRMRNKGIVPDVYTFVIRIKS--------FCRTRRPHVALRLLKNMPSQGFEPNAVAYCTL-IAGFYEENHNVE  199 (759)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~~~~~~l~~~--------~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~  199 (759)
                      +|..+|+++.+.. +-+..++..+...        |.+.   ++|.+.++ .......|+..+.... ...|.+.+++++
T Consensus       126 kA~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~  200 (987)
T PRK09782        126 KSVTTVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQ  200 (987)
T ss_pred             hHHHHHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHH
Confidence            9999999999864 2345566555554        5554   55555555 2222223344444444 889999999999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHh-cCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 004362          200 AYELFDEMLGMGISPDIATFNKLIHTLCK-KGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLG  278 (759)
Q Consensus       200 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  278 (759)
                      |++++.++.+.++. +......+..+|.. .++ +.+..+++.    .+..+...+..++..|.+.|+.++|.+.++++.
T Consensus       201 Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~  274 (987)
T PRK09782        201 ADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENK  274 (987)
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            99999999998643 44446666677777 366 777777553    233578889999999999999999999999976


Q ss_pred             hCCCC-CCcchHHHHHHHHHhCCChH-HHHHHHHHHHHCCCCCCh-hcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCC
Q 004362          279 REDLT-PDVVTYNTLMCGLCKNSKVV-EAEYYLHKMVNEGLEPDG-FSYNAVIDGYCKAGMISSADKILNDAIFKGFVPD  355 (759)
Q Consensus       279 ~~~~~-~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  355 (759)
                      ..... |...+|.-+   +.+.+... .|..-|.+=    ..++. ......+..+.+.++++.++++..      ..|.
T Consensus       275 ~~~~~~~~~~~~~~~---l~r~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~  341 (987)
T PRK09782        275 PLFTTDAQEKSWLYL---LSKYSANPVQALANYTVQ----FADNRQYVVGATLPVLLKEGQYDAAQKLLA------TLPA  341 (987)
T ss_pred             ccccCCCccHHHHHH---HHhccCchhhhccchhhh----hHHHHHHHHHHHHHHHHhccHHHHHHHHhc------CCCc
Confidence            44212 344333333   33333321 111111110    01111 112223566666777775554422      1222


Q ss_pred             cccHHHHHHH--HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC-C-CCCCHHHHHH
Q 004362          356 EFTYCSLING--LCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES-G-CCPDMWTYNI  431 (759)
Q Consensus       356 ~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~  431 (759)
                      ...  ..+..  ....+...++...+..+....+. +......+.-...+.|+.++|..+|++.... + ..++......
T Consensus       342 ~~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~-~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  418 (987)
T PRK09782        342 NEM--LEERYAVSVATRNKAEALRLARLLYQQEPA-NLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMAR  418 (987)
T ss_pred             chH--HHHHHhhccccCchhHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHH
Confidence            222  12221  12235555666666665554322 4444444444556667777777777766552 1 1222333335


Q ss_pred             HHHHHHhcCC---hHHHHHH----------------------HHHHHHC-C-CCC--CHhhHHHHHHHHHhcCCHHHHHH
Q 004362          432 VINGLCKMGC---VSDANNL----------------------VNDAISK-G-YIP--DIFTFNTLIDGYCKQLKMEIAIE  482 (759)
Q Consensus       432 l~~~~~~~~~---~~~a~~~----------------------~~~~~~~-~-~~~--~~~~~~~l~~~~~~~~~~~~A~~  482 (759)
                      ++..|.+.+.   ..++..+                      +...... + .++  +...+..+..++.. ++.++|..
T Consensus       419 l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~  497 (987)
T PRK09782        419 LASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALY  497 (987)
T ss_pred             HHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHH
Confidence            5555555544   2222221                      1111111 1 123  45566666666655 67777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004362          483 ILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGL  562 (759)
Q Consensus       483 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  562 (759)
                      .+.+....  .|+......+..++...|++++|...|+++...  +|+...+..++.++...|++++|...+++.++.. 
T Consensus       498 a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-  572 (987)
T PRK09782        498 AWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-  572 (987)
T ss_pred             HHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-
Confidence            77666654  345433333344445777777777777776543  3444455566667777777777777777777653 


Q ss_pred             CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHH
Q 004362          563 TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYR  641 (759)
Q Consensus       563 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~  641 (759)
                      +.....+..+.....+.|++++|...|+++.+.  .|. ...+..++.++.+.|++++|+..++++++.  .|+ ...+.
T Consensus       573 P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~-~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~  647 (987)
T PRK09782        573 LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APS-ANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQA  647 (987)
T ss_pred             CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            333333334444444557788888887777776  553 677777777777778888888887777754  444 66777


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCch---HHHH--Hhcc
Q 004362          642 IMIDSFCKTGGINSGYCLLLENIDKGFIPSLS-TIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEV---VNTI--FEAD  715 (759)
Q Consensus       642 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~--~~~~  715 (759)
                      .++.++...|++++|+..++++++  +.|++. .+..+...+...|++++|+..++++.+  +.|+.   ...+  +...
T Consensus       648 nLG~aL~~~G~~eeAi~~l~~AL~--l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~--l~P~~a~i~~~~g~~~~~  723 (987)
T PRK09782        648 ALGYALWDSGDIAQSREMLERAHK--GLPDDPALIRQLAYVNQRLDDMAATQHYARLVID--DIDNQALITPLTPEQNQQ  723 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCCchhhhhhhHHHHH
Confidence            777777777788888887777777  667544 334555556777788888887777776  55652   2111  1224


Q ss_pred             ccccccchHHHHHHHhcCCC
Q 004362          716 KREVASPKIVVEDLLKKSHI  735 (759)
Q Consensus       716 ~~~~~~a~~~~~~~~~~~~~  735 (759)
                      ..+++.+.+.+++....++.
T Consensus       724 ~~~~~~a~~~~~r~~~~~~~  743 (987)
T PRK09782        724 RFNFRRLHEEVGRRWTFSFD  743 (987)
T ss_pred             HHHHHHHHHHHHHHhhcCcc
Confidence            45566666666666664443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=100.00  E-value=2e-27  Score=258.32  Aligned_cols=642  Identities=11%  Similarity=-0.013  Sum_probs=446.0

Q ss_pred             hcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhH
Q 004362           15 KHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQE   94 (759)
Q Consensus        15 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   94 (759)
                      ...|++++|+..|+.+.+..|..  ..++..++.+|...|++++|+..++++.+.+|.  +...+..++..    +++++
T Consensus        55 ~~~Gd~~~A~~~l~~Al~~dP~n--~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~--n~~~~~~La~i----~~~~k  126 (987)
T PRK09782         55 QKNNDEATAIREFEYIHQQVPDN--IPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPG--DARLERSLAAI----PVEVK  126 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc--cHHHHHHHHHh----ccChh
Confidence            35699999999999999887653  777799999999999999999999999999986  66665555333    99999


Q ss_pred             HHHHHHHhhhCCCCCCHHHHHHHHHH--------HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHccCChhhH
Q 004362           95 AVDVFERMDFYNCEPTVLSYNTIMNI--------LVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIR-IKSFCRTRRPHVA  165 (759)
Q Consensus        95 A~~~~~~~~~~~~~~~~~~~~~l~~~--------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~A  165 (759)
                      |..+++++.... +.+...+..+...        |.+.   ++|.+..+ .......|+..+.... .+.|...|+++.|
T Consensus       127 A~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~A  201 (987)
T PRK09782        127 SVTTVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQA  201 (987)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHH
Confidence            999999998765 4455555555555        5555   55555555 3333333445544444 8999999999999


Q ss_pred             HHHHhhchhCCCCCCHHhHHHHHHHHHh-cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhh
Q 004362          166 LRLLKNMPSQGFEPNAVAYCTLIAGFYE-ENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLK  244 (759)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  244 (759)
                      ++++.++.+.+ +.+......+...|.. .++ +++..+++..    +.-+...+..+...+.+.|+.++|.++++++..
T Consensus       202 i~lL~~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~----lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~  275 (987)
T PRK09782        202 DTLYNEARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQG----IFTDPQSRITYATALAYRGEKARLQHYLIENKP  275 (987)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhchh----cccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcc
Confidence            99999999987 5666667778788877 366 7777776542    235778888999999999999999999998765


Q ss_pred             CCCC-CCHHHHHHHHHHHHhcCCHH-HHHHHHHHHhhCCCCCC-cchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCh
Q 004362          245 RGVS-PNLFTFNMFIQGLCRKGAIS-EAISLLDSLGREDLTPD-VVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDG  321 (759)
Q Consensus       245 ~~~~-~~~~~~~~l~~~~~~~g~~~-~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  321 (759)
                      .-.. |...+|.-++   .+.+... .|..-|.+    ...++ ....-.++..+.+.++++.++++..      ..|..
T Consensus       276 ~~~~~~~~~~~~~~l---~r~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~  342 (987)
T PRK09782        276 LFTTDAQEKSWLYLL---SKYSANPVQALANYTV----QFADNRQYVVGATLPVLLKEGQYDAAQKLLA------TLPAN  342 (987)
T ss_pred             cccCCCccHHHHHHH---HhccCchhhhccchhh----hhHHHHHHHHHHHHHHHHhccHHHHHHHHhc------CCCcc
Confidence            4222 4444443332   2333221 11111111    00111 1112223555666666665544311      22222


Q ss_pred             hcHHHHHHHHH--HcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCCHHhHHHH
Q 004362          322 FSYNAVIDGYC--KAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEK--GLKPSIVLYNTL  397 (759)
Q Consensus       322 ~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~l  397 (759)
                      ..  ..++...  ..+...++...+..+.+.. +.+......+.-...+.|+.++|..+|+.....  +-.++....+-+
T Consensus       343 ~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l  419 (987)
T PRK09782        343 EM--LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARL  419 (987)
T ss_pred             hH--HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHH
Confidence            21  1222222  2244555555555554431 224444444555556667777777777666552  111233344455


Q ss_pred             HHHHHhcCC---HHHHHHH-------------------------HHHHHhCCCCC--CHHHHHHHHHHHHhcCChHHHHH
Q 004362          398 IKGLSQQGL---ILQALQL-------------------------MNEMSESGCCP--DMWTYNIVINGLCKMGCVSDANN  447 (759)
Q Consensus       398 ~~~~~~~~~---~~~a~~~-------------------------~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~  447 (759)
                      +..|.+.+.   ..++..+                         +...... .++  +...+..+..++.. ++..+|..
T Consensus       420 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~-~p~~~~~~a~~~LG~~l~~-~~~~eAi~  497 (987)
T PRK09782        420 ASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD-MSPSYDAAAWNRLAKCYRD-TLPGVALY  497 (987)
T ss_pred             HHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc-CCCCCCHHHHHHHHHHHHh-CCcHHHHH
Confidence            555555543   2222222                         2222221 123  56677777766666 88999999


Q ss_pred             HHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004362          448 LVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRC  527 (759)
Q Consensus       448 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  527 (759)
                      .+......  .|+......+...+...|++++|...|+++...  +|+...+..+..++.+.|+.++|...++..++.. 
T Consensus       498 a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-  572 (987)
T PRK09782        498 AWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-  572 (987)
T ss_pred             HHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-
Confidence            88887766  355444444455557899999999999998765  4555567777888899999999999999998864 


Q ss_pred             CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHH
Q 004362          528 VPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNI  607 (759)
Q Consensus       528 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  607 (759)
                      +++...+..+...+...|++++|...+++.++.  .|+...+..+..++.+.|++++|+..|+++...  .|++...++.
T Consensus       573 P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~n  648 (987)
T PRK09782        573 LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAA  648 (987)
T ss_pred             CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            223333444444555669999999999999985  457888999999999999999999999999999  8999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhc
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG-RVINCLCVD  685 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~  685 (759)
                      ++.++...|++++|+..++++++.  .|+ +..+..++.++...|++++|+..++++++  +.|+..... .......+.
T Consensus       649 LG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~--l~P~~a~i~~~~g~~~~~~  724 (987)
T PRK09782        649 LGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVID--DIDNQALITPLTPEQNQQR  724 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCCchhhhhhhHHHHHH
Confidence            999999999999999999999975  454 88999999999999999999999999999  889876554 444445788


Q ss_pred             CcHHHHHHHHHHHHHCCCCCchH
Q 004362          686 HRVHEAVGFVHLMVQKGIVPEVV  708 (759)
Q Consensus       686 g~~~~A~~~~~~~~~~~~~p~~~  708 (759)
                      .+++.|.+-+++...  +.|+.+
T Consensus       725 ~~~~~a~~~~~r~~~--~~~~~~  745 (987)
T PRK09782        725 FNFRRLHEEVGRRWT--FSFDSS  745 (987)
T ss_pred             HHHHHHHHHHHHHhh--cCccch
Confidence            889999998888876  666644

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

Probab=99.97  E-value=4.4e-25  Score=223.18  Aligned_cols=596  Identities=14%  Similarity=0.108  Sum_probs=358.7

Q ss_pred             hHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHH
Q 004362           20 PLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVF   99 (759)
Q Consensus        20 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~   99 (759)
                      ...|.-.|+.+-+..-..++...+......+..--+.+.|...|..+....|+  +...+..-++.....++|..|+.+|
T Consensus       110 ~~~at~~~~~A~ki~m~~~~~l~~~~~~~l~~~~~~~~~A~a~F~~Vl~~sp~--Nil~LlGkA~i~ynkkdY~~al~yy  187 (1018)
T KOG2002|consen  110 FDKATLLFDLADKIDMYEDSHLLVQRGFLLLEGDKSMDDADAQFHFVLKQSPD--NILALLGKARIAYNKKDYRGALKYY  187 (1018)
T ss_pred             HHHHHHHhhHHHHhhccCcchhhhhhhhhhhcCCccHHHHHHHHHHHHhhCCc--chHHHHHHHHHHhccccHHHHHHHH
Confidence            34555566655443333333333333332222222358888888888888877  6666666677777888999999999


Q ss_pred             HHhhhCC--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc---CChhhHHHHHhhchh
Q 004362          100 ERMDFYN--CEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRT---RRPHVALRLLKNMPS  174 (759)
Q Consensus       100 ~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~  174 (759)
                      ..+....  .++|+  .-.+..++.+.|+.+.|+..|.+..+.. +.++.++..|.-.-...   ..+..+..++.....
T Consensus       188 k~al~inp~~~aD~--rIgig~Cf~kl~~~~~a~~a~~ralqLd-p~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~  264 (1018)
T KOG2002|consen  188 KKALRINPACKADV--RIGIGHCFWKLGMSEKALLAFERALQLD-PTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYK  264 (1018)
T ss_pred             HHHHhcCcccCCCc--cchhhhHHHhccchhhHHHHHHHHHhcC-hhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHh
Confidence            8865332  34444  2334566778888899999999988854 12344444443322222   345557777776666


Q ss_pred             CCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHH
Q 004362          175 QGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGIS--PDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLF  252 (759)
Q Consensus       175 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  252 (759)
                      .+ +.++.+.+.|...|.-.|++..++.+...+......  .-+..|-.+.++|...|++++|...|.+..+....--..
T Consensus       265 ~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l  343 (1018)
T KOG2002|consen  265 EN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVL  343 (1018)
T ss_pred             hc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccc
Confidence            55 567888888888888899999999988888765321  113357778888888999999999888877653222234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCC----ChHHHHHHHHHHHHCCCCCChhcHHHHH
Q 004362          253 TFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNS----KVVEAEYYLHKMVNEGLEPDGFSYNAVI  328 (759)
Q Consensus       253 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~ll  328 (759)
                      .+-.+.+.|.+.|+++.+...|+.+.... +.+..+...|...|...+    ..++|..++.+....- +.|...|..+.
T Consensus       344 ~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~la  421 (1018)
T KOG2002|consen  344 PLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELA  421 (1018)
T ss_pred             cccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHH
Confidence            45567788889999999999998887663 445566666666666554    4566666666666552 33666676666


Q ss_pred             HHHHHcCChhHHHHHHHHHH----hCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCCH------HhHH
Q 004362          329 DGYCKAGMISSADKILNDAI----FKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEK---GLKPSI------VLYN  395 (759)
Q Consensus       329 ~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~------~~~~  395 (759)
                      ..+....-+.. ...+..+.    ..+..+.+...|.+...+...|+++.|...|......   ...++.      .+--
T Consensus       422 ql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~Y  500 (1018)
T KOG2002|consen  422 QLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKY  500 (1018)
T ss_pred             HHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHH
Confidence            66655443333 55555443    3444566777888888888888888888888877654   111222      1222


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhc
Q 004362          396 TLIKGLSQQGLILQALQLMNEMSESGCCPDM-WTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQ  474 (759)
Q Consensus       396 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  474 (759)
                      .+...+-..++.+.|.+.|..+.+.  .|+- ..|..++......+...+|...++...... ..++..++.+...|.+.
T Consensus       501 Nlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k  577 (1018)
T KOG2002|consen  501 NLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKK  577 (1018)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhh
Confidence            3444455556777777777777765  2332 233333322233466677777777776653 34556666666677777


Q ss_pred             CCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHh------------cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHH
Q 004362          475 LKMEIAIEILNTMWSHG-VTPDVITYNSLLNGLCK------------AAKSEDVMETFKTMIEKRCVPNIITYSILGESL  541 (759)
Q Consensus       475 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  541 (759)
                      ..+..|.+-|..+.+.- ..+|..+.-+|.+.|.+            .+..+.|+++|.+.++.. +-|...-+.++.++
T Consensus       578 ~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVL  656 (1018)
T KOG2002|consen  578 SEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVL  656 (1018)
T ss_pred             hhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhh
Confidence            77777777666655432 12455555555554432            123344555555554442 22444444555555


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHH
Q 004362          542 CKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMA  621 (759)
Q Consensus       542 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  621 (759)
                      +..|++.+|..+|.++.+.. .....+|..++++|..+|++-.|+++|+.....+...++..+...|++++.+.|.+.+|
T Consensus       657 A~kg~~~~A~dIFsqVrEa~-~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~ea  735 (1018)
T KOG2002|consen  657 AEKGRFSEARDIFSQVREAT-SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEA  735 (1018)
T ss_pred             hhccCchHHHHHHHHHHHHH-hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHH
Confidence            55555555555555555441 22334445555555555555555555555555544444555555555555555555555


Q ss_pred             HHHHHHHH
Q 004362          622 EKLFYEMS  629 (759)
Q Consensus       622 ~~~~~~~~  629 (759)
                      .+.+..+.
T Consensus       736 k~~ll~a~  743 (1018)
T KOG2002|consen  736 KEALLKAR  743 (1018)
T ss_pred             HHHHHHHH
Confidence            55555544

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

Probab=99.97  E-value=1.6e-24  Score=219.20  Aligned_cols=624  Identities=13%  Similarity=0.080  Sum_probs=457.3

Q ss_pred             ChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHccCChhhHHHH
Q 004362           91 KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKG--IVPDVYTFVIRIKSFCRTRRPHVALRL  168 (759)
Q Consensus        91 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~  168 (759)
                      +++.|...|..+.... ++|+..+-.-.......+++..|+.+|.......  ..||+  ...+..++.++|+.+.|...
T Consensus       145 ~~~~A~a~F~~Vl~~s-p~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~--rIgig~Cf~kl~~~~~a~~a  221 (1018)
T KOG2002|consen  145 SMDDADAQFHFVLKQS-PDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADV--RIGIGHCFWKLGMSEKALLA  221 (1018)
T ss_pred             cHHHHHHHHHHHHhhC-CcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCc--cchhhhHHHhccchhhHHHH
Confidence            3699999999988654 6676555444444556789999999999987653  34454  34556778899999999999


Q ss_pred             HhhchhCCCCCCHHhHHHHHHHHHhc---CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhC
Q 004362          169 LKNMPSQGFEPNAVAYCTLIAGFYEE---NHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKR  245 (759)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  245 (759)
                      |..+.+.+ |.++.++..|...-...   ..+..++.++...-..+. -+++..+.|...+.-.|+++.+..+...++..
T Consensus       222 ~~ralqLd-p~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~-~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~  299 (1018)
T KOG2002|consen  222 FERALQLD-PTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENN-ENPVALNHLANHFYFKKDYERVWHLAEHAIKN  299 (1018)
T ss_pred             HHHHHhcC-hhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcC-CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHh
Confidence            99999886 34444444444433333   345667777777666543 37778899999999999999999999998876


Q ss_pred             CCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--cchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCh
Q 004362          246 GVS--PNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPD--VVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDG  321 (759)
Q Consensus       246 ~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  321 (759)
                      ...  .-...|-.+.++|...|++++|...|.+..+.  .++  +..+.-+...+...|+.+.+...|+..... .+-+.
T Consensus       300 t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~-~p~~~  376 (1018)
T KOG2002|consen  300 TENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ-LPNNY  376 (1018)
T ss_pred             hhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHh-CcchH
Confidence            321  12235778899999999999999999998766  343  344556789999999999999999999986 34466


Q ss_pred             hcHHHHHHHHHHcC----ChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHH----HcCCCCCHHh
Q 004362          322 FSYNAVIDGYCKAG----MISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKAL----EKGLKPSIVL  393 (759)
Q Consensus       322 ~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~  393 (759)
                      .+...+...|+..+    ..+.|..++.+..... +.|...|..+...+...+-+.. +..|..+.    ..+..+.+..
T Consensus       377 etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~  454 (1018)
T KOG2002|consen  377 ETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEV  454 (1018)
T ss_pred             HHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHH
Confidence            78888888887765    5677778887777664 4477788777777766554444 77776655    3455578899


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCC------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhH
Q 004362          394 YNTLIKGLSQQGLILQALQLMNEMSES---GCCP------DMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTF  464 (759)
Q Consensus       394 ~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  464 (759)
                      .|.+...+...|++.+|...|......   ...+      +..+--.+.+.....++++.|.+.|..+.+.. +.-+..|
T Consensus       455 LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~y  533 (1018)
T KOG2002|consen  455 LNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAY  533 (1018)
T ss_pred             HHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHH
Confidence            999999999999999999999887654   1122      22233345566667889999999999999873 3334455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhcHHHHHHHHHh
Q 004362          465 NTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKR-CVPNIITYSILGESLCK  543 (759)
Q Consensus       465 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~  543 (759)
                      ..++-+....++..+|...++.....+ ..++..+..+...+.....+..|.+-|....+.. ..+|..+...|++.|..
T Consensus       534 lRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~  612 (1018)
T KOG2002|consen  534 LRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQ  612 (1018)
T ss_pred             HHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHH
Confidence            555544445678899999999988764 3467778888888988889999998888877652 23566777777776642


Q ss_pred             ------------cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH
Q 004362          544 ------------AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA  611 (759)
Q Consensus       544 ------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  611 (759)
                                  .+..++|+++|.++++. .|-+..+-+.+.-++...|++.+|..+|.++.+.  ......+|.+++++
T Consensus       613 ~l~~~~rn~ek~kk~~~KAlq~y~kvL~~-dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~~~dv~lNlah~  689 (1018)
T KOG2002|consen  613 ALHNPSRNPEKEKKHQEKALQLYGKVLRN-DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREA--TSDFEDVWLNLAHC  689 (1018)
T ss_pred             HhcccccChHHHHHHHHHHHHHHHHHHhc-CcchhhhccchhhhhhhccCchHHHHHHHHHHHH--HhhCCceeeeHHHH
Confidence                        34578899999999987 4667777888888999999999999999999987  44567899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH-HHHHH-------
Q 004362          612 FSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGR-VINCL-------  682 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~-l~~~~-------  682 (759)
                      |...|+|..|+++|+...+...+.+ ..+...|+.++...|.+.+|...+..+..  +.|.++.... ++-.+       
T Consensus       690 ~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~--~~p~~~~v~FN~a~v~kkla~s~  767 (1018)
T KOG2002|consen  690 YVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARH--LAPSNTSVKFNLALVLKKLAESI  767 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHH--hCCccchHHhHHHHHHHHHHHHH
Confidence            9999999999999999888755544 78889999999999999999999999998  7787655421 11111       


Q ss_pred             ------------HhcCcHHHHHHHHHHHHHCCCC---CchHHHHHhccccccccchHHHHHHHh
Q 004362          683 ------------CVDHRVHEAVGFVHLMVQKGIV---PEVVNTIFEADKREVASPKIVVEDLLK  731 (759)
Q Consensus       683 ------------~~~g~~~~A~~~~~~~~~~~~~---p~~~~~~~~~~~~~~~~a~~~~~~~~~  731 (759)
                                  ...+..+.|.++|..+...+-.   +.....-...++.-..+|..-..++.+
T Consensus       768 lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~r~~~~~~~~~a~~c~~ll~~a~~~~~~Aq~  831 (1018)
T KOG2002|consen  768 LRLEKRTLEEVLEAVKELEEARRLFTELSKNGDKRISKTVIAQEAQLCKDLLKQALEHVAQAQE  831 (1018)
T ss_pred             HhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence                        1224566677777777663322   223333333344444555554444433

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

Probab=99.96  E-value=3.8e-25  Score=211.98  Aligned_cols=436  Identities=17%  Similarity=0.149  Sum_probs=252.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhC
Q 004362          220 NKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKN  299 (759)
Q Consensus       220 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  299 (759)
                      ..|.+-..+.|++.+|++.-..+-..+.. +......+-..+....+.+....--....+.. +.-..+|+.+...+-..
T Consensus        52 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   52 LELAHRLYQGGDYKQAEKHCNMVGQEDPT-NTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHhccCHHHHHHHHhHhhccCCC-cccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHHh
Confidence            34445555667777776665544433211 22222222334444444444443333333221 33455666666666666


Q ss_pred             CChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcc-cHHHHHHHHHhcCCHHHHHHH
Q 004362          300 SKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEF-TYCSLINGLCQDGDVDRAMAV  378 (759)
Q Consensus       300 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~  378 (759)
                      |+++.|+.+++.+.+.... ....|..+..++...|+.+.|.+.|...++.  .|+.. ..+.+.......|++.+|...
T Consensus       130 g~~~~al~~y~~aiel~p~-fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  130 GQLQDALALYRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             chHHHHHHHHHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHH
Confidence            7777777777666665221 3455666666666666666666666666654  23322 223344444556666666666


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 004362          379 YVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPD-MWTYNIVINGLCKMGCVSDANNLVNDAISKGY  457 (759)
Q Consensus       379 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  457 (759)
                      |.++++..+. -...|+.|...+..+|+...|+..|++..+.  .|+ ...|..+...|...+.+++|...+.+..... 
T Consensus       207 YlkAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-  282 (966)
T KOG4626|consen  207 YLKAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-  282 (966)
T ss_pred             HHHHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-
Confidence            6666665433 3445666666666666666666666666654  233 3355666666666666666666666655542 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHH
Q 004362          458 IPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD-VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSI  536 (759)
Q Consensus       458 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  536 (759)
                      +.....+..+...|..+|..+.|+..|++.++.  .|+ ...|+.+..++-..|+..+|...|++.+... +....+.+.
T Consensus       283 pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~N  359 (966)
T KOG4626|consen  283 PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNN  359 (966)
T ss_pred             CcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHH
Confidence            234455555555666666666666666666664  232 4566666666666666666666666666542 223445666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL  616 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  616 (759)
                      ++..+...|.+++|..+|....+. .+.-....+.+...|...|++++|+..|+.++..  .|....+|++++..|-..|
T Consensus       360 Lgni~~E~~~~e~A~~ly~~al~v-~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g  436 (966)
T KOG4626|consen  360 LGNIYREQGKIEEATRLYLKALEV-FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMG  436 (966)
T ss_pred             HHHHHHHhccchHHHHHHHHHHhh-ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhh
Confidence            666666666666666666666653 2333445566666666666666666666666665  5666666666666666666


Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          617 NFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                      +.+.|++.|.+++.  +.|. ...++.|+.+|..+|+..+|+..|+.+++  +.||.+.
T Consensus       437 ~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfpd  491 (966)
T KOG4626|consen  437 DVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFPD  491 (966)
T ss_pred             hHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCch
Confidence            66666666666663  3455 55666666666666666666666666666  6666443

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

Probab=99.95  E-value=1e-24  Score=209.01  Aligned_cols=442  Identities=14%  Similarity=0.125  Sum_probs=342.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHH
Q 004362          254 FNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCK  333 (759)
Q Consensus       254 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  333 (759)
                      ...|..-..+.|++++|++.-..+-..+ +.+....-.+-..+.+..+.++....-....+. .+.-..+|..+...+-.
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~-~~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHH
Confidence            4456666678899999988877766543 223333333445666667777766554444443 23355688888888888


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHH
Q 004362          334 AGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQL  413 (759)
Q Consensus       334 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  413 (759)
                      .|+++.|+..++.+++.. +.....|..+..++...|+.+.|.++|.+.++.++. .....+.+.......|+..+|...
T Consensus       129 rg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~-l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPD-LYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcc-hhhhhcchhHHHHhhcccchhHHH
Confidence            999999999999988874 225678888899999999999999999888876432 233344455555667889999888


Q ss_pred             HHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004362          414 MNEMSESGCCPD-MWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGV  492 (759)
Q Consensus       414 ~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  492 (759)
                      +.+.++.  .|. ...|+.+...+..+|+...|+..|++.++.. +.-...|-.|...|...+.+++|...|.+..... 
T Consensus       207 YlkAi~~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-  282 (966)
T KOG4626|consen  207 YLKAIET--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-  282 (966)
T ss_pred             HHHHHhh--CCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-
Confidence            8887775  333 4577888888888999999999999988763 2245678888999999999999999998888753 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-hhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHH
Q 004362          493 TPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPN-IITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGT  571 (759)
Q Consensus       493 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  571 (759)
                      +.....+..+...|..+|..+-|+..|++.++.  .|+ ...|+.++.++-..|++.+|...|.+.+.. .+....+.+.
T Consensus       283 pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l-~p~hadam~N  359 (966)
T KOG4626|consen  283 PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL-CPNHADAMNN  359 (966)
T ss_pred             CcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh-CCccHHHHHH
Confidence            224667778888888999999999999998886  344 568899999999999999999999999886 4556777888


Q ss_pred             HHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhc
Q 004362          572 LINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKT  650 (759)
Q Consensus       572 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  650 (759)
                      +...|...|.+++|..+|....+-  .|.-....++++..|-++|++++|+..|++++  .+.|+ ...|+.++..|-..
T Consensus       360 Lgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal--rI~P~fAda~~NmGnt~ke~  435 (966)
T KOG4626|consen  360 LGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL--RIKPTFADALSNMGNTYKEM  435 (966)
T ss_pred             HHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH--hcCchHHHHHHhcchHHHHh
Confidence            999999999999999999999888  78888889999999999999999999999988  56788 78899999999999


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc---hHHHHHhc
Q 004362          651 GGINSGYCLLLENIDKGFIPSLSTI-GRVINCLCVDHRVHEAVGFVHLMVQKGIVPE---VVNTIFEA  714 (759)
Q Consensus       651 g~~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~~~  714 (759)
                      |+.+.|+..+.+++.  +.|..... ..+...+-..|+..+|+..|+..+.  ++||   .++.++.+
T Consensus       436 g~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfpdA~cNllh~  499 (966)
T KOG4626|consen  436 GDVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFPDAYCNLLHC  499 (966)
T ss_pred             hhHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCchhhhHHHHH
Confidence            999999999999998  88875544 4555555678999999999998886  5665   55555544

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

Probab=99.94  E-value=7.3e-20  Score=177.20  Aligned_cols=496  Identities=13%  Similarity=0.065  Sum_probs=328.2

Q ss_pred             ChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHH
Q 004362          231 NVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLH  310 (759)
Q Consensus       231 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  310 (759)
                      +.+.|+-++.+..+- ++.+...|.    +|.+..-++.|..+++...+. ++.+...|.+-...--.+|+.+...+++.
T Consensus       391 ~~~darilL~rAvec-cp~s~dLwl----AlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~  464 (913)
T KOG0495|consen  391 EPEDARILLERAVEC-CPQSMDLWL----ALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIID  464 (913)
T ss_pred             ChHHHHHHHHHHHHh-ccchHHHHH----HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHH
Confidence            334455555555443 222222232    233334445555555554422 24444555444444445555555555544


Q ss_pred             H----HHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCC--cccHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          311 K----MVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPD--EFTYCSLINGLCQDGDVDRAMAVYVKALE  384 (759)
Q Consensus       311 ~----~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  384 (759)
                      +    +...|+..+...|..-...|-..|..-.+..+....+..|+...  ..++..-...|.+.+.++-|+.+|..+++
T Consensus       465 rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alq  544 (913)
T KOG0495|consen  465 RGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQ  544 (913)
T ss_pred             HHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHh
Confidence            3    33346666666666666667777777777777777776665432  24666667777777888888888877776


Q ss_pred             cCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhH
Q 004362          385 KGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTF  464 (759)
Q Consensus       385 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  464 (759)
                      .-+. +...|......--..|..++...+|++.... ++-....|......+...|++..|..++..+.+.. +.+...|
T Consensus       545 vfp~-k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiw  621 (913)
T KOG0495|consen  545 VFPC-KKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIW  621 (913)
T ss_pred             hccc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHH
Confidence            5443 5566666666666667777777777777765 33344455555566667788888888888777764 3366777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhc
Q 004362          465 NTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKA  544 (759)
Q Consensus       465 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  544 (759)
                      -.-+.......+++.|..+|.+....  .|+...|.--+..---.++.++|++++++.++. ++.-...|..+++.+.+.
T Consensus       622 laavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~  698 (913)
T KOG0495|consen  622 LAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQM  698 (913)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHH
Confidence            77777777788888888888877764  456666766666666677888888888777775 233345677778888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHH
Q 004362          545 HKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKL  624 (759)
Q Consensus       545 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  624 (759)
                      ++.+.|...|..-.+. +|..+..|..+...-.+.|.+-+|..++++..-.  .|.+...|...++.-.+.|+.+.|..+
T Consensus       699 ~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlk--NPk~~~lwle~Ir~ElR~gn~~~a~~l  775 (913)
T KOG0495|consen  699 ENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK--NPKNALLWLESIRMELRAGNKEQAELL  775 (913)
T ss_pred             HHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc--CCCcchhHHHHHHHHHHcCCHHHHHHH
Confidence            8888888887777765 5666777777777777888888888888888777  788888888888888888888888888


Q ss_pred             HHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCC
Q 004362          625 FYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIV  704 (759)
Q Consensus       625 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  704 (759)
                      ..++++. ++.+...|..-++..-+.++-..+...+++     ..-|......+...+....+.++|.++|.+.+.  +.
T Consensus       776 makALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkk-----ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk--~d  847 (913)
T KOG0495|consen  776 MAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKK-----CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVK--KD  847 (913)
T ss_pred             HHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHh-----ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc--cC
Confidence            8777765 455567777777766666665555555554     333555555566666777788888888888876  55


Q ss_pred             Cc---hHHHHHhc--cccccccchHHHHHHHhcCCCchHHHHHHHhhhhh
Q 004362          705 PE---VVNTIFEA--DKREVASPKIVVEDLLKKSHITYYAYELLFDGIRD  749 (759)
Q Consensus       705 p~---~~~~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  749 (759)
                      ||   .|.-++..  .+|.-++-..++.+.....|.....|.-.+...++
T Consensus       848 ~d~GD~wa~fykfel~hG~eed~kev~~~c~~~EP~hG~~W~avSK~i~n  897 (913)
T KOG0495|consen  848 PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAEPTHGELWQAVSKDIKN  897 (913)
T ss_pred             CccchHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCcHHHHHhhhHHh
Confidence            65   44433333  77777888888888888888777777766655443

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

Probab=99.92  E-value=1.5e-18  Score=175.27  Aligned_cols=336  Identities=15%  Similarity=0.109  Sum_probs=188.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHH
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNIL  121 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  121 (759)
                      ..-..++.+...|++++|..++.++++++|.  ...+|..|+.+|-.+|+.+++...+-.+...+ +.|...|..+....
T Consensus       141 ~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~--~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls  217 (895)
T KOG2076|consen  141 QLLGEANNLFARGDLEEAEEILMEVIKQDPR--NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLS  217 (895)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhCcc--chhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            3344455555667777777777777777776  66777777777777777777777665554333 44556677777777


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhH----HHHHHHHHhcCCh
Q 004362          122 VEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAY----CTLIAGFYEENHN  197 (759)
Q Consensus       122 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~  197 (759)
                      .+.|++.+|.-+|.+.++.. +++....---...|-+.|+...|..-|.++.....+.|..-.    -.++..+...++.
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            77777777777777777754 334444444555667777777777777777666422222222    2234445556666


Q ss_pred             hHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHH----------------------
Q 004362          198 VEAYELFDEMLGMG-ISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTF----------------------  254 (759)
Q Consensus       198 ~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----------------------  254 (759)
                      +.|++.++.....+ -..+...++.++..+.+...++.+.............+|..-|                      
T Consensus       297 e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~  376 (895)
T KOG2076|consen  297 ERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSY  376 (895)
T ss_pred             HHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCc
Confidence            77777776665521 1223345666666677777777776666655542111221111                      


Q ss_pred             ----HHHHHHHHhcCCHHHHHHHHHHHhhCC--CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHH
Q 004362          255 ----NMFIQGLCRKGAISEAISLLDSLGRED--LTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVI  328 (759)
Q Consensus       255 ----~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  328 (759)
                          ..++-++.+....+....+..-+...+  +..+...|.-+..++...|.+.+|+.+|..+......-+...|-.+.
T Consensus       377 ~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a  456 (895)
T KOG2076|consen  377 DLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLA  456 (895)
T ss_pred             cchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHH
Confidence                011112222222222222222222222  22344455556666666666666666666666543333444566666


Q ss_pred             HHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          329 DGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKA  382 (759)
Q Consensus       329 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  382 (759)
                      .+|...|.++.|.+.|+.++... +.+......|...+.+.|+.++|.+.+..+
T Consensus       457 ~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~  509 (895)
T KOG2076|consen  457 RCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQI  509 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcc
Confidence            66666666666666666665542 123344445555566666666666666553

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

Probab=99.92  E-value=3.1e-20  Score=200.06  Aligned_cols=431  Identities=11%  Similarity=-0.045  Sum_probs=292.8

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 004362          288 TYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLC  367 (759)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  367 (759)
                      .+......+.+.|++++|+..|++....  .|+...|..+..+|.+.|+++.|++.++.+++.+ +.+...+..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            3556667788888999999998888764  5667778888888888889999988888888764 225567778888888


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 004362          368 QDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANN  447 (759)
Q Consensus       368 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  447 (759)
                      ..|++++|+..|..+...+...+.. ...++..+..    ..+........+.. +++...+..+.. +...........
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~  278 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPA  278 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchh
Confidence            8889888888887665543221221 2222222211    12223333332221 112222222222 221111111111


Q ss_pred             HHHHHHHCCCCCC-HhhHHHHHHHH---HhcCCHHHHHHHHHHHHHCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          448 LVNDAISKGYIPD-IFTFNTLIDGY---CKQLKMEIAIEILNTMWSHG-VTP-DVITYNSLLNGLCKAAKSEDVMETFKT  521 (759)
Q Consensus       448 ~~~~~~~~~~~~~-~~~~~~l~~~~---~~~~~~~~A~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  521 (759)
                      -+......  .+. ...+..+...+   ...+++++|.+.|+.....+ ..| ....+..+..++...|++++|+..|++
T Consensus       279 ~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~k  356 (615)
T TIGR00990       279 GLEDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSK  356 (615)
T ss_pred             hhhccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            11111111  111 11111111111   23468889999999988764 223 456677888888889999999999999


Q ss_pred             HHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc
Q 004362          522 MIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT  601 (759)
Q Consensus       522 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  601 (759)
                      .++.. +.+...|..++..+...|++++|...++++++. .+.+..++..++.++...|++++|+..|+++...  .|++
T Consensus       357 al~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~  432 (615)
T TIGR00990       357 SIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKL-NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDF  432 (615)
T ss_pred             HHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccC
Confidence            88763 224567888888899999999999999999876 3556788888999999999999999999999988  7888


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH-H-----
Q 004362          602 TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST-I-----  675 (759)
Q Consensus       602 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~-~-----  675 (759)
                      ...+..++.++...|++++|+..++++++.. +.++..++.++.++...|++++|+..|+++++  +.|+... +     
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~--l~p~~~~~~~~~~~  509 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE--LEKETKPMYMNVLP  509 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCccccccccHHH
Confidence            8889999999999999999999999988652 33478889999999999999999999999998  6664211 1     


Q ss_pred             -HHHHHHH-HhcCcHHHHHHHHHHHHHCCCCCch---HHHHHhc--cccccccchHHHHHHHhcCCCchHH
Q 004362          676 -GRVINCL-CVDHRVHEAVGFVHLMVQKGIVPEV---VNTIFEA--DKREVASPKIVVEDLLKKSHITYYA  739 (759)
Q Consensus       676 -~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~  739 (759)
                       ......+ ...|++++|.++++++..  +.|+.   +..+...  ..|++++|...++++.+........
T Consensus       510 l~~~a~~~~~~~~~~~eA~~~~~kAl~--l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e~  578 (615)
T TIGR00990       510 LINKALALFQWKQDFIEAENLCEKALI--IDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGEL  578 (615)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHHH
Confidence             1111222 346999999999999887  45663   2333333  7899999999999998887664443

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

Probab=99.92  E-value=1.3e-19  Score=195.24  Aligned_cols=253  Identities=13%  Similarity=0.083  Sum_probs=129.3

Q ss_pred             CCHHHHHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 004362          405 GLILQALQLMNEMSESG-CCP-DMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIE  482 (759)
Q Consensus       405 ~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  482 (759)
                      +++++|.+.|+.....+ ..| ....+..+...+...|++++|...++..+... +.....|..+...+...|++++|..
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            45556666666555442 112 22344444455555566666666665555442 2233445555555555666666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004362          483 ILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGL  562 (759)
Q Consensus       483 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  562 (759)
                      .|+++.+.. +.+...|..+..++...|++++|+..|++.++.. +.+...+..++.++...|++++|+..+++.++. .
T Consensus       387 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~  463 (615)
T TIGR00990       387 DFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-F  463 (615)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-C
Confidence            666555542 2234555555555555566666666665555542 223444455555555556666666666555543 3


Q ss_pred             CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhH-------HHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004362          563 TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATY-------NIMINAFSEKLNFYMAEKLFYEMSEKGCPP  635 (759)
Q Consensus       563 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  635 (759)
                      +.+...+..+..++...|++++|++.|+++...  .|.+...+       +.....+...|++++|+++++++++.  .|
T Consensus       464 P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l--~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l--~p  539 (615)
T TIGR00990       464 PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL--EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII--DP  539 (615)
T ss_pred             CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CC
Confidence            334555555555555566666666666555554  22211111       11111222345566666666555533  23


Q ss_pred             C-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          636 D-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       636 ~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      + ..++..++.++...|++++|+.+|+++++
T Consensus       540 ~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       540 ECDIAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             CcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3 34455555556666666666666666555

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

Probab=99.91  E-value=5.3e-18  Score=171.39  Aligned_cols=660  Identities=12%  Similarity=0.031  Sum_probs=423.4

Q ss_pred             cCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHH
Q 004362           16 HQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEA   95 (759)
Q Consensus        16 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   95 (759)
                      ..|+.++|.+++..+.++.+.  .+..|..|+.+|-..|+.+.+...+-.+-..+|.  +.+.|..+.....++|+++.|
T Consensus       151 arg~~eeA~~i~~EvIkqdp~--~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~--d~e~W~~ladls~~~~~i~qA  226 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQDPR--NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK--DYELWKRLADLSEQLGNINQA  226 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhCcc--chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC--ChHHHHHHHHHHHhcccHHHH
Confidence            579999999999999998654  6778899999999999999999999888888888  889999999999999999999


Q ss_pred             HHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCChhhHHHHHhh
Q 004362           96 VDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDV----YTFVIRIKSFCRTRRPHVALRLLKN  171 (759)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~  171 (759)
                      .-+|.++.... +++......-...|-+.|+...|...|.++.....+.|.    ..--.+++.+...++.+.|.+.++.
T Consensus       227 ~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  227 RYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999999776 566666666788899999999999999999986521121    1222346677888888999999998


Q ss_pred             chhCC-CCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh----------------------hH----HHHHH
Q 004362          172 MPSQG-FEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIA----------------------TF----NKLIH  224 (759)
Q Consensus       172 ~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------------------~~----~~l~~  224 (759)
                      ..+.. -..+...++.++..+.+...++.+......+......+|..                      .|    ..++-
T Consensus       306 ~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~i  385 (895)
T KOG2076|consen  306 ALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMI  385 (895)
T ss_pred             HHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhh
Confidence            87732 13455678899999999999999988887776521111111                      11    12233


Q ss_pred             HHHhcCChhHHHHHHHHHhhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCCh
Q 004362          225 TLCKKGNVRESEKLFNKVLKRG--VSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKV  302 (759)
Q Consensus       225 ~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  302 (759)
                      ++.+.+..+....+........  +..+...|.-+..+|...|.+..|+.+|..+.......+...|-.+..+|...|.+
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            3445555555555666666655  44456788899999999999999999999998775555677899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhC--------CCCCCcccHHHHHHHHHhcCCHHH
Q 004362          303 VEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFK--------GFVPDEFTYCSLINGLCQDGDVDR  374 (759)
Q Consensus       303 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~  374 (759)
                      ++|.+.|+..+... +-+...-..+...+.+.|+.++|.+.++.+...        +..|+..........+.+.|+.++
T Consensus       466 e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~  544 (895)
T KOG2076|consen  466 EEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREE  544 (895)
T ss_pred             HHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHH
Confidence            99999999999862 224445566777889999999999999986522        223333344445566677777776


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH-----
Q 004362          375 AMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLV-----  449 (759)
Q Consensus       375 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-----  449 (759)
                      -...-..++...      ....++.     -+..++...  .....+......+...++.+-.+.++......-.     
T Consensus       545 fi~t~~~Lv~~~------~~~~~~f-----~~~~k~r~~--~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~  611 (895)
T KOG2076|consen  545 FINTASTLVDDF------LKKRYIF-----PRNKKKRRR--AIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTE  611 (895)
T ss_pred             HHHHHHHHHHHH------HHHHHhc-----chHHHHHHH--hhccccccccchhHHHHHHHHhccCchHHhhhcccchhh
Confidence            555444444311      0000000     000000000  0000001112222223333333333222111111     


Q ss_pred             -HHHHHCCCCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHH----HHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          450 -NDAISKGYIPDI--FTFNTLIDGYCKQLKMEIAIEILNTMWSHGV-TPDVI----TYNSLLNGLCKAAKSEDVMETFKT  521 (759)
Q Consensus       450 -~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~  521 (759)
                       ......+...+.  ..+..++..+++.+.+++|+.+...+....+ .-+..    .-...+.+....+++..|...++.
T Consensus       612 ~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~  691 (895)
T KOG2076|consen  612 FRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRS  691 (895)
T ss_pred             hhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence             111111211111  2344556677788888888888777765421 11222    223344556677888888888888


Q ss_pred             HHHc-CC--CCC-hhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccC
Q 004362          522 MIEK-RC--VPN-IITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK  597 (759)
Q Consensus       522 ~~~~-~~--~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  597 (759)
                      |+.. +.  .|. ...|+...+.....++----.+.+..+.......++............++.+..|+..|-++...  
T Consensus       692 ~i~~~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~--  769 (895)
T KOG2076|consen  692 VITQFQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQ--  769 (895)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHh--
Confidence            7765 11  122 22344344455555544333444444433222222333333344555677888888888887777  


Q ss_pred             CCCchhhHHHHHHHHH----------hcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 004362          598 ISHTTATYNIMINAFS----------EKLNFYMAEKLFYEMSEKGCPP-DNYTYRIMIDSFCKTGGINSGYCLLLENIDK  666 (759)
Q Consensus       598 ~~~~~~~~~~l~~~~~----------~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  666 (759)
                      .|++|..-..++-++.          ++-..-.+..++++..+..... ...++..++.+|-..|-.--|..+|+++++ 
T Consensus       770 ~pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~-  848 (895)
T KOG2076|consen  770 NPDSPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLE-  848 (895)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhC-
Confidence            6766666555554443          2234556666666665543222 367788888999999999999999999887 


Q ss_pred             CCCCC-------------HHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 004362          667 GFIPS-------------LSTIGRVINCLCVDHRVHEAVGFVHLM  698 (759)
Q Consensus       667 g~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~  698 (759)
                       +.|.             ....+.+.-.|...|+..-|..++.+-
T Consensus       849 -~~p~~~~~~~~d~~dLrkeAA~NL~LIY~~SGn~~lArqil~ky  892 (895)
T KOG2076|consen  849 -VSPKDVTDPKEDNYDLRKEAAYNLHLIYKKSGNMQLARQILEKY  892 (895)
T ss_pred             -CCccccccccCCcccHHHHHHhhhhhhhccCCcHHHHHHHHHhh
Confidence             4331             122233444445778998888887653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=1.9e-20  Score=200.35  Aligned_cols=335  Identities=9%  Similarity=0.016  Sum_probs=172.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh
Q 004362          324 YNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQ  403 (759)
Q Consensus       324 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  403 (759)
                      ...++..+.+.|+++.|..+++..+..... +......++.+....|+++.|...++++....+. +...+..+...+..
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHH
Confidence            334445555556666666666655554322 2333444445555566666666666666555443 44555555555566


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 004362          404 QGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEI  483 (759)
Q Consensus       404 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  483 (759)
                      .|++++|...++++.... +.+...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++|...
T Consensus       123 ~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~  199 (656)
T PRK15174        123 SKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDL  199 (656)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHH
Confidence            666666666666655532 123444555555555566666666655555443211 22222222 224555566666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHH----HHHHHHHHHH
Q 004362          484 LNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITE----AFNLLEEMEN  559 (759)
Q Consensus       484 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~  559 (759)
                      ++.+.+....++...+..+..++...|++++|+..++++.... +.+...+..++.++...|++++    |...++++.+
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~  278 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ  278 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh
Confidence            5555544322233333333445555556666666555555542 2234445555555555555553    4555555555


Q ss_pred             CCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-h
Q 004362          560 KGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDN-Y  638 (759)
Q Consensus       560 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~  638 (759)
                      . .|.+...+..++..+...|++++|+..++++...  .|.+...+..++.++...|++++|+..|+++.+.  .|+. .
T Consensus       279 l-~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~  353 (656)
T PRK15174        279 F-NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSK  353 (656)
T ss_pred             h-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchH
Confidence            4 2334455555555555555566665555555555  4555555555555555555566665555555543  3332 2


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          639 TYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       639 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      .+..++.++...|++++|+..|+++++  ..|+
T Consensus       354 ~~~~~a~al~~~G~~deA~~~l~~al~--~~P~  384 (656)
T PRK15174        354 WNRYAAAALLQAGKTSEAESVFEHYIQ--ARAS  384 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH--hChh
Confidence            223334455555555666655555555  4444

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

Probab=99.91  E-value=1.3e-16  Score=154.91  Aligned_cols=622  Identities=11%  Similarity=0.009  Sum_probs=491.6

Q ss_pred             hCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHH
Q 004362           52 FHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVH  131 (759)
Q Consensus        52 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  131 (759)
                      ..++...|+.+++...+.+|.  .++.|..-++.--..|++..|..+..+=.+.. +.+...|..-+    +....+.|.
T Consensus       263 dl~DikKaR~llKSvretnP~--hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~c-prSeDvWLeai----RLhp~d~aK  335 (913)
T KOG0495|consen  263 DLEDIKKARLLLKSVRETNPK--HPPGWIASARLEEVAGKLSVARNLIMKGCEEC-PRSEDVWLEAI----RLHPPDVAK  335 (913)
T ss_pred             cHHHHHHHHHHHHHHHhcCCC--CCchHHHHHHHHHHhhHHHHHHHHHHHHHhhC-CchHHHHHHHH----hcCChHHHH
Confidence            345778899999999999988  78888888888899999999999887766433 55666675544    445667788


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004362          132 KVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMG  211 (759)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  211 (759)
                      .+.-..++.- +.++..|...+..   ..+...=.+++....+. +|.++..|-..+.    ..+.++|..++.+..+- 
T Consensus       336 ~vvA~Avr~~-P~Sv~lW~kA~dL---E~~~~~K~RVlRKALe~-iP~sv~LWKaAVe----lE~~~darilL~rAvec-  405 (913)
T KOG0495|consen  336 TVVANAVRFL-PTSVRLWLKAADL---ESDTKNKKRVLRKALEH-IPRSVRLWKAAVE----LEEPEDARILLERAVEC-  405 (913)
T ss_pred             HHHHHHHHhC-CCChhhhhhHHhh---hhHHHHHHHHHHHHHHh-CCchHHHHHHHHh----ccChHHHHHHHHHHHHh-
Confidence            8877777642 3344445433322   22333445666666665 3566777766543    45666788888888765 


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH----hhCCCCCCcc
Q 004362          212 ISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSL----GREDLTPDVV  287 (759)
Q Consensus       212 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~~~~~~~~~  287 (759)
                      ++.+..    |..++.+...++.|..+++...+. ++.+..+|.+-...--.+|+.+.+.+++++-    ...|+..+..
T Consensus       406 cp~s~d----LwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rd  480 (913)
T KOG0495|consen  406 CPQSMD----LWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRD  480 (913)
T ss_pred             ccchHH----HHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHH
Confidence            222332    445667777889999999998775 6778889988888888899999998888763    4457778888


Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC--hhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 004362          288 TYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPD--GFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLING  365 (759)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  365 (759)
                      .|..-...|-..|..-.+..+.......|+.-.  ..||..-.+.|.+.+.++-+..+|..+++- ++.+...|...+..
T Consensus       481 qWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~  559 (913)
T KOG0495|consen  481 QWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMF  559 (913)
T ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHH
Confidence            888888888888999999999888887776543  358888899999999999999999998876 24466777777777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 004362          366 LCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDA  445 (759)
Q Consensus       366 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  445 (759)
                      --..|..+.-..+++++...-++ ....|-.....+-..|+...|..++.+..+.... +...|...+.......+++.|
T Consensus       560 ek~hgt~Esl~Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~era  637 (913)
T KOG0495|consen  560 EKSHGTRESLEALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERA  637 (913)
T ss_pred             HHhcCcHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHH
Confidence            77789999999999999988665 6777878888888899999999999999987533 677888899999999999999


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          446 NNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEK  525 (759)
Q Consensus       446 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  525 (759)
                      ..+|.+....  .|+..+|..-+....-.++.++|.+++++.++. ++.-...|..+.+.+-+.++.+.|.+.|..-.+.
T Consensus       638 R~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~  714 (913)
T KOG0495|consen  638 RDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK  714 (913)
T ss_pred             HHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc
Confidence            9999998765  678888888777777889999999999999886 2333667888889999999999999999877665


Q ss_pred             CCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhH
Q 004362          526 RCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATY  605 (759)
Q Consensus       526 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  605 (759)
                       .+-.+..|..+...-.+.|++-.|..++++..-. -|.+...|...+.+-.+.|+.+.|..+..++.+.  .|.+...|
T Consensus       715 -cP~~ipLWllLakleEk~~~~~rAR~ildrarlk-NPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LW  790 (913)
T KOG0495|consen  715 -CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK-NPKNALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLW  790 (913)
T ss_pred             -CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc-CCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhH
Confidence             2334556777777778889999999999999876 3668889999999999999999999999999998  89999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHh
Q 004362          606 NIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-STIGRVINCLCV  684 (759)
Q Consensus       606 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~  684 (759)
                      ..-+....+.++-..++..+++.     ..|+.....++..+....+++.|+..|.++++  ..|+. .+|..++.....
T Consensus       791 aEaI~le~~~~rkTks~DALkkc-----e~dphVllaia~lfw~e~k~~kar~Wf~Ravk--~d~d~GD~wa~fykfel~  863 (913)
T KOG0495|consen  791 AEAIWLEPRPQRKTKSIDALKKC-----EHDPHVLLAIAKLFWSEKKIEKAREWFERAVK--KDPDNGDAWAWFYKFELR  863 (913)
T ss_pred             HHHHHhccCcccchHHHHHHHhc-----cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc--cCCccchHHHHHHHHHHH
Confidence            99999998888877777766654     56778888888999999999999999999999  77875 445556666688


Q ss_pred             cCcHHHHHHHHHHHHHCCCCCchHHHHHhc
Q 004362          685 DHRVHEAVGFVHLMVQKGIVPEVVNTIFEA  714 (759)
Q Consensus       685 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~~  714 (759)
                      .|.-++-.+++.+...  ..|.....|...
T Consensus       864 hG~eed~kev~~~c~~--~EP~hG~~W~av  891 (913)
T KOG0495|consen  864 HGTEEDQKEVLKKCET--AEPTHGELWQAV  891 (913)
T ss_pred             hCCHHHHHHHHHHHhc--cCCCCCcHHHHH
Confidence            9998988999988876  567644444433

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=1.4e-19  Score=193.73  Aligned_cols=383  Identities=10%  Similarity=0.021  Sum_probs=282.0

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCC--CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCCh
Q 004362          260 GLCRKGAISEAISLLDSLGRED--LTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMI  337 (759)
Q Consensus       260 ~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  337 (759)
                      .+.+..+++..--+|..-.+..  -..+......++..+.+.|++++|..+++........ +...+..++......|++
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~   92 (656)
T PRK15174         14 TLLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQP   92 (656)
T ss_pred             hhhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCH
Confidence            3446667777666666544321  0122333445566777889999999998888877433 344555566667778999


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          338 SSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEM  417 (759)
Q Consensus       338 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  417 (759)
                      +.|...++.+.... +.+...+..+...+...|++++|...++++....+. +...+..+...+...|++++|...++.+
T Consensus        93 ~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~-~~~a~~~la~~l~~~g~~~eA~~~~~~~  170 (656)
T PRK15174         93 DAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSG-NSQIFALHLRTLVLMDKELQAISLARTQ  170 (656)
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            99999999888764 335667778888888899999999999988887544 6677888888888889999999888887


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004362          418 SESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVI  497 (759)
Q Consensus       418 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  497 (759)
                      ...... +...+..+ ..+...|++++|...++.+......++......+...+...|++++|...++++.... +.+..
T Consensus       171 ~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~  247 (656)
T PRK15174        171 AQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAA  247 (656)
T ss_pred             HHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHH
Confidence            765322 22233233 3477888999999888888776433444455556677888899999999999888764 33577


Q ss_pred             HHHHHHHHHHhcCCHHH----HHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHH
Q 004362          498 TYNSLLNGLCKAAKSED----VMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLI  573 (759)
Q Consensus       498 ~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  573 (759)
                      .+..+...+...|++++    |...|++..+.. +.+...+..++..+...|++++|...++++... .+.+...+..+.
T Consensus       248 ~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l-~P~~~~a~~~La  325 (656)
T PRK15174        248 LRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT-HPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHH
Confidence            77788888888888875    788888888764 335667888888888899999999999988876 344566777788


Q ss_pred             HHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCCh
Q 004362          574 NGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGI  653 (759)
Q Consensus       574 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  653 (759)
                      .++...|++++|+..|+++...  .|.+...+..++.++...|++++|+..|+++.+.  .|+..           ...+
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~--~P~~~-----------~~~~  390 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA--RASHL-----------PQSF  390 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--Chhhc-----------hhhH
Confidence            8888899999999999888877  6666666666778888889999999999988865  45532           3555


Q ss_pred             HHHHHHHHHHHh
Q 004362          654 NSGYCLLLENID  665 (759)
Q Consensus       654 ~~A~~~~~~~~~  665 (759)
                      ++|...+.++++
T Consensus       391 ~ea~~~~~~~~~  402 (656)
T PRK15174        391 EEGLLALDGQIS  402 (656)
T ss_pred             HHHHHHHHHHHH
Confidence            678888888776

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=3.7e-20  Score=189.89  Aligned_cols=297  Identities=14%  Similarity=0.096  Sum_probs=214.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HhhHHHHHHHHHhcCCH
Q 004362          401 LSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPD---IFTFNTLIDGYCKQLKM  477 (759)
Q Consensus       401 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~  477 (759)
                      +...|++++|...|+++.+.+ +.+..++..+...+...|++++|..+++.+......++   ..++..++..|...|++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            344555566666666655542 12334555555555666666666666665554321111   23456667777777777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh----hcHHHHHHHHHhcCCHHHHHHH
Q 004362          478 EIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNI----ITYSILGESLCKAHKITEAFNL  553 (759)
Q Consensus       478 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~  553 (759)
                      +.|..+|+++.+.. +++..++..++..+...|++++|++.++.+.+.+..+..    ..+..++..+...|++++|...
T Consensus       124 ~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        124 DRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            77777777777642 335667777777778888888888888877765432211    1345567777888899999999


Q ss_pred             HHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          554 LEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT-TATYNIMINAFSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       554 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  632 (759)
                      ++++.+.. +.+...+..++..|.+.|++++|.+.|+++...  .|++ ..++..++.+|...|++++|...++++.+. 
T Consensus       203 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-  278 (389)
T PRK11788        203 LKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ--DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE-  278 (389)
T ss_pred             HHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            88888752 445667778888899999999999999998876  4433 456788889999999999999999998865 


Q ss_pred             CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cCcHHHHHHHHHHHHHCCCCCc
Q 004362          633 CPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCV---DHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       633 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                       .|+...+..++..+.+.|++++|..+++++++  ..|+...+..++.....   .|+.++|+.++++|.++++.|+
T Consensus       279 -~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~--~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~  352 (389)
T PRK11788        279 -YPGADLLLALAQLLEEQEGPEAAQALLREQLR--RHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRK  352 (389)
T ss_pred             -CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCC
Confidence             57766678888999999999999999999998  78998888877777653   5689999999999998777766

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=2.6e-18  Score=188.35  Aligned_cols=421  Identities=10%  Similarity=-0.031  Sum_probs=234.7

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHH
Q 004362          218 TFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLC  297 (759)
Q Consensus       218 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  297 (759)
                      ...-.+......|+.++|++++....... +.+...+..+...+...|++++|.+++++..... +.+...+..+...+.
T Consensus        17 ~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~   94 (765)
T PRK10049         17 QIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLA   94 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            33444445555555555555555554321 2233345555555555555555555555544432 223334444444555


Q ss_pred             hCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHH
Q 004362          298 KNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMA  377 (759)
Q Consensus       298 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  377 (759)
                      ..|++++|...++++.... +.+.. +..+..++...|+.++|...++++.+... .+...+..+...+...+..+.|+.
T Consensus        95 ~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~~e~Al~  171 (765)
T PRK10049         95 DAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRLSAPALG  171 (765)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCChHHHHH
Confidence            5555555555555555441 11222 44444444555555555555555544421 122333334444444444444544


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-----hcCCh---HHHHHHH
Q 004362          378 VYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLC-----KMGCV---SDANNLV  449 (759)
Q Consensus       378 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-----~~~~~---~~a~~~~  449 (759)
                      .++.+..   .|+..  .. +       .                   .......+....     ..+++   ++|+..+
T Consensus       172 ~l~~~~~---~p~~~--~~-l-------~-------------------~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~  219 (765)
T PRK10049        172 AIDDANL---TPAEK--RD-L-------E-------------------ADAAAELVRLSFMPTRSEKERYAIADRALAQY  219 (765)
T ss_pred             HHHhCCC---CHHHH--HH-H-------H-------------------HHHHHHHHHhhcccccChhHHHHHHHHHHHHH
Confidence            4433322   11100  00 0       0                   000011111111     11122   5566666


Q ss_pred             HHHHHC-CCCCCHh-hHH----HHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          450 NDAISK-GYIPDIF-TFN----TLIDGYCKQLKMEIAIEILNTMWSHGVT-PDVITYNSLLNGLCKAAKSEDVMETFKTM  522 (759)
Q Consensus       450 ~~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  522 (759)
                      +.+.+. ...|+.. .+.    ..+..+...|++++|+..|+.+.+.+.+ |+. ....+..+|...|++++|+..|+++
T Consensus       220 ~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~  298 (765)
T PRK10049        220 DALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTEL  298 (765)
T ss_pred             HHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            666643 1122211 111    1122344667778888888877765422 221 1222456677778888888888777


Q ss_pred             HHcCCCC---ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------Ccc---HHHHHHHHHHHHccCChhhH
Q 004362          523 IEKRCVP---NIITYSILGESLCKAHKITEAFNLLEEMENKGL-----------TLD---TVAFGTLINGFCNSGDLDGA  585 (759)
Q Consensus       523 ~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~A  585 (759)
                      .+.....   .......+..++...|++++|..+++.+.....           .|+   ...+..++..+...|++++|
T Consensus       299 l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA  378 (765)
T PRK10049        299 FYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQA  378 (765)
T ss_pred             hhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHH
Confidence            6542111   123345556667777888888888877776411           122   23455667788888999999


Q ss_pred             HHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 004362          586 YQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENI  664 (759)
Q Consensus       586 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  664 (759)
                      ++.++++...  .|.+...+..++.++...|++++|++.++++++.  .|+ ...+..++..+...|++++|...+++++
T Consensus       379 ~~~l~~al~~--~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll  454 (765)
T PRK10049        379 EMRARELAYN--APGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVLTDDVV  454 (765)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            9999998888  7888888999999999999999999999998865  465 6677777778888899999999999998


Q ss_pred             hCCCCCCHHHHHHHHHHH
Q 004362          665 DKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       665 ~~g~~p~~~~~~~l~~~~  682 (759)
                      +  ..|++.....+-..+
T Consensus       455 ~--~~Pd~~~~~~~~~~~  470 (765)
T PRK10049        455 A--REPQDPGVQRLARAR  470 (765)
T ss_pred             H--hCCCCHHHHHHHHHH
Confidence            8  778877665554444

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=8.9e-20  Score=187.08  Aligned_cols=304  Identities=13%  Similarity=0.147  Sum_probs=233.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHh
Q 004362          362 LINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPD---MWTYNIVINGLCK  438 (759)
Q Consensus       362 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~  438 (759)
                      ....+...|++++|...|.++.+.++. +..++..+...+...|++++|..+++.+...+..++   ...+..+...|..
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            344556778888888888888877543 566777888888888888888888888776532221   2456777788888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHH
Q 004362          439 MGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD----VITYNSLLNGLCKAAKSED  514 (759)
Q Consensus       439 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~  514 (759)
                      .|++++|..+|+.+.+.. +.+..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..++..+...|++++
T Consensus       120 ~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  198 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDA  198 (389)
T ss_pred             CCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHH
Confidence            888888888888887653 44667788888888889999999999988887643322    1234566777888899999


Q ss_pred             HHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHH
Q 004362          515 VMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMED  594 (759)
Q Consensus       515 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  594 (759)
                      |...|+++.+.. +.+...+..++..+...|++++|..+++++...+......++..++.+|...|++++|...++++..
T Consensus       199 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        199 ARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             HHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999988764 3345677788889999999999999999998753322345678888999999999999999999988


Q ss_pred             ccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCC
Q 004362          595 QYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK---TGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       595 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      .  .|+. ..+..++..+...|++++|..+++++.+.  .|+..+++.++..+..   .|+.++++..++++++.++.|+
T Consensus       278 ~--~p~~-~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~  352 (389)
T PRK11788        278 E--YPGA-DLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRK  352 (389)
T ss_pred             h--CCCc-hHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCC
Confidence            7  4544 45588899999999999999999998865  6888888877776654   5689999999999987666554


Q ss_pred             HH
Q 004362          672 LS  673 (759)
Q Consensus       672 ~~  673 (759)
                      +.
T Consensus       353 p~  354 (389)
T PRK11788        353 PR  354 (389)
T ss_pred             CC
Confidence            43

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.88  E-value=4.6e-18  Score=186.45  Aligned_cols=441  Identities=12%  Similarity=0.048  Sum_probs=296.3

Q ss_pred             HHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhC
Q 004362          166 LRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKR  245 (759)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  245 (759)
                      +..+++ ...+ +.+.....-.+.+....|+.++|++++.+..... +.+...+..+...+...|++++|..++++.++.
T Consensus         2 ~~~~~~-~~~~-~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~   78 (765)
T PRK10049          2 LSWLRQ-ALKS-ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL   78 (765)
T ss_pred             chhhhh-hhcc-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345555 3222 5566666667777888999999999999998632 345556888899999999999999999999887


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHH
Q 004362          246 GVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYN  325 (759)
Q Consensus       246 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  325 (759)
                      . +.+...+..++..+...|++++|+..++++.... +.+.. +..+..++...|+.++|+..++++.+.... +...+.
T Consensus        79 ~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~  154 (765)
T PRK10049         79 E-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPT  154 (765)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHH
Confidence            3 3356677788899999999999999999998773 44555 888888999999999999999999987432 455566


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC
Q 004362          326 AVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQG  405 (759)
Q Consensus       326 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  405 (759)
                      .+...+...+..+.|.+.++.+..   .|+..  . -+       +...+.....-              .+.......+
T Consensus       155 ~la~~l~~~~~~e~Al~~l~~~~~---~p~~~--~-~l-------~~~~~~~~~r~--------------~~~~~~~~~~  207 (765)
T PRK10049        155 EYVQALRNNRLSAPALGAIDDANL---TPAEK--R-DL-------EADAAAELVRL--------------SFMPTRSEKE  207 (765)
T ss_pred             HHHHHHHHCCChHHHHHHHHhCCC---CHHHH--H-HH-------HHHHHHHHHHh--------------hcccccChhH
Confidence            677788888999999998876653   22200  0 00       00000000000              0000001111


Q ss_pred             CH---HHHHHHHHHHHhC-CCCCCHH-HH----HHHHHHHHhcCChHHHHHHHHHHHHCCCC-CCHhhHHHHHHHHHhcC
Q 004362          406 LI---LQALQLMNEMSES-GCCPDMW-TY----NIVINGLCKMGCVSDANNLVNDAISKGYI-PDIFTFNTLIDGYCKQL  475 (759)
Q Consensus       406 ~~---~~a~~~~~~~~~~-~~~~~~~-~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~  475 (759)
                      ++   ++|+..++.+... ...|+.. .+    ...+..+...|++++|+..|+.+.+.+.+ |+. ....+...|...|
T Consensus       208 r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g  286 (765)
T PRK10049        208 RYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLH  286 (765)
T ss_pred             HHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcC
Confidence            22   4555555555532 1112111 11    01122334556666777777666655321 111 1122355666677


Q ss_pred             CHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------CCCh---hcHHHHH
Q 004362          476 KMEIAIEILNTMWSHGVTP---DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRC-----------VPNI---ITYSILG  538 (759)
Q Consensus       476 ~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~---~~~~~l~  538 (759)
                      ++++|+..|+++.+.....   .......+..++...|++++|..+++.+.....           .|+.   ..+..++
T Consensus       287 ~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a  366 (765)
T PRK10049        287 QPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLS  366 (765)
T ss_pred             CcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHH
Confidence            7777777777665542111   123344455566677777777777777665421           1221   2455677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCH
Q 004362          539 ESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNF  618 (759)
Q Consensus       539 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  618 (759)
                      ..+...|++++|+..++++... .|.+...+..++.++...|++++|++.++++...  .|++...+...+..+...|++
T Consensus       367 ~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~  443 (765)
T PRK10049        367 QVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEW  443 (765)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCH
Confidence            8888999999999999999886 5667888999999999999999999999999998  788999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 004362          619 YMAEKLFYEMSEKGCPPDNYTYRIMIDS  646 (759)
Q Consensus       619 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~  646 (759)
                      ++|..+++++++.  .|+......+-..
T Consensus       444 ~~A~~~~~~ll~~--~Pd~~~~~~~~~~  469 (765)
T PRK10049        444 RQMDVLTDDVVAR--EPQDPGVQRLARA  469 (765)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            9999999999976  5765444444433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.87  E-value=9.7e-17  Score=171.84  Aligned_cols=454  Identities=10%  Similarity=0.012  Sum_probs=261.5

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCH
Q 004362          190 GFYEENHNVEAYELFDEMLGMGISPDI--ATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAI  267 (759)
Q Consensus       190 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  267 (759)
                      ...+.|++..|++.|++..+.  .|+.  ..+ .++..+...|+.++|+..+++.... ..........+...+...|++
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 IRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCH
Confidence            344555555666655555544  2221  122 4445555555555555555555411 111222222234455555555


Q ss_pred             HHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHH
Q 004362          268 SEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDA  347 (759)
Q Consensus       268 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  347 (759)
                      ++|+++++++.+.. +.+...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.++++
T Consensus       119 d~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        119 DQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            55555555555443 223344444445555555555555555555443  223333322222222233333355555555


Q ss_pred             HhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 004362          348 IFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMW  427 (759)
Q Consensus       348 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  427 (759)
                      .... +.+...+..+...+.+.|-...|.++..+-...  . +...+..| .       .+.+.+..+-    +..++..
T Consensus       196 l~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~--f-~~~~~~~l-~-------~~~~a~~vr~----a~~~~~~  259 (822)
T PRK14574        196 VRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL--V-SAEHYRQL-E-------RDAAAEQVRM----AVLPTRS  259 (822)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc--c-CHHHHHHH-H-------HHHHHHHHhh----ccccccc
Confidence            5442 223344444445555555554444443321110  0 11110000 0       0111111100    0000000


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCC-HhhH----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 004362          428 TYNIVINGLCKMGCVSDANNLVNDAISK-GYIPD-IFTF----NTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNS  501 (759)
Q Consensus       428 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~-~~~~----~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  501 (759)
                      -       -.+.--.+.|+.-++.+... +..|. ...|    .-.+-++...+++.++++.|+.+...+.+....+-..
T Consensus       260 ~-------~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a  332 (822)
T PRK14574        260 E-------TERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRW  332 (822)
T ss_pred             c-------hhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHH
Confidence            0       00001234455555555542 11122 1222    2334466788899999999999998776545557788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCC-----CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-------------C
Q 004362          502 LLNGLCKAAKSEDVMETFKTMIEKRC-----VPNIITYSILGESLCKAHKITEAFNLLEEMENKGL-------------T  563 (759)
Q Consensus       502 l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------~  563 (759)
                      +..+|...+++++|..+|+.+.....     .++......|.-++...+++++|..+++.+.+...             .
T Consensus       333 ~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn  412 (822)
T PRK14574        333 AASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPN  412 (822)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCC
Confidence            88999999999999999999876531     22333356788888999999999999999987311             1


Q ss_pred             ccH-HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHH
Q 004362          564 LDT-VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYR  641 (759)
Q Consensus       564 ~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~  641 (759)
                      ||- .....++..+.-.|++.+|.+.++.+...  .|.+..+...++.++...|++.+|.+.++.+..  +.|+ ..+..
T Consensus       413 ~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~~~~  488 (822)
T PRK14574        413 DDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLILER  488 (822)
T ss_pred             ccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHHHHH
Confidence            121 23445567788899999999999999888  899999999999999999999999999988774  4666 67778


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          642 IMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVI  679 (759)
Q Consensus       642 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  679 (759)
                      ..+.++...|++.+|..+....++  ..|++.....+-
T Consensus       489 ~~~~~al~l~e~~~A~~~~~~l~~--~~Pe~~~~~~l~  524 (822)
T PRK14574        489 AQAETAMALQEWHQMELLTDDVIS--RSPEDIPSQELD  524 (822)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHh--hCCCchhHHHHH
Confidence            888899999999999999999999  788877655544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.86  E-value=4.5e-16  Score=166.80  Aligned_cols=437  Identities=13%  Similarity=0.072  Sum_probs=268.1

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH
Q 004362           44 KYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVE  123 (759)
Q Consensus        44 ~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  123 (759)
                      ..-+-+..+.|++++|+..|+++.+.+|.  +......++..+...|+.++|+..+++..... +........+...+..
T Consensus        38 y~~aii~~r~Gd~~~Al~~L~qaL~~~P~--~~~av~dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~  114 (822)
T PRK14574         38 YDSLIIRARAGDTAPVLDYLQEESKAGPL--QSGQVDDWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRN  114 (822)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhhCcc--chhhHHHHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHH
Confidence            33444567999999999999999999887  54333388888889999999999999988211 2233334444668888


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHH
Q 004362          124 YGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYEL  203 (759)
Q Consensus       124 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  203 (759)
                      .|++++|+++|+++.+.. +.++..+..++..+...++.++|++.++.+....  |+...+..++..+...++..+|++.
T Consensus       115 ~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        115 EKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             cCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHH
Confidence            899999999999999875 3356777788888999999999999999998875  5555565554455456666679999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHH--HHHHHHHHhcC------------CHHH
Q 004362          204 FDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTF--NMFIQGLCRKG------------AISE  269 (759)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g------------~~~~  269 (759)
                      ++++.+.. +-+...+..+..++.+.|-...|.++...-... +.+....+  ...+.-.++.+            -.+.
T Consensus       192 ~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~  269 (822)
T PRK14574        192 SSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADK  269 (822)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHH
Confidence            99999874 225666777888888999988888777653221 11111111  00001111111            1233


Q ss_pred             HHHHHHHHhhC-CCCCC-cchH----HHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHH
Q 004362          270 AISLLDSLGRE-DLTPD-VVTY----NTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKI  343 (759)
Q Consensus       270 a~~~~~~~~~~-~~~~~-~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  343 (759)
                      |+.-++.+... +..|. ...|    .-.+-++...+++.++++.|+.+...+.+....+-..+.++|...+++++|..+
T Consensus       270 ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l  349 (822)
T PRK14574        270 ALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPI  349 (822)
T ss_pred             HHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHH
Confidence            44444444431 11121 1111    122344556677777777777777666554445666667777777777777777


Q ss_pred             HHHHHhCCC-----CCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------CCCH---HhHHHHHHHHHhc
Q 004362          344 LNDAIFKGF-----VPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGL-----------KPSI---VLYNTLIKGLSQQ  404 (759)
Q Consensus       344 ~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----------~~~~---~~~~~l~~~~~~~  404 (759)
                      ++.+.....     +++......|..++...+++++|..+++.+.+..+           .|++   .....++..+.-.
T Consensus       350 ~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~  429 (822)
T PRK14574        350 LSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVAL  429 (822)
T ss_pred             HHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHc
Confidence            777655321     11222235566667777777777777777665311           1111   1222334445555


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 004362          405 GLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEIL  484 (759)
Q Consensus       405 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  484 (759)
                      |++.+|.+.++.+.... +-|......+...+...|.+.+|+..++...... +.+..+....+..+...+++.+|..+.
T Consensus       430 gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~-P~~~~~~~~~~~~al~l~e~~~A~~~~  507 (822)
T PRK14574        430 NDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESLA-PRSLILERAQAETAMALQEWHQMELLT  507 (822)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC-CccHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            66666666666665542 3355555555666666666666666665544442 334444455555555566666666666


Q ss_pred             HHHHHC
Q 004362          485 NTMWSH  490 (759)
Q Consensus       485 ~~~~~~  490 (759)
                      +.+...
T Consensus       508 ~~l~~~  513 (822)
T PRK14574        508 DDVISR  513 (822)
T ss_pred             HHHHhh
Confidence            655554

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

Probab=99.83  E-value=6.9e-17  Score=150.01  Aligned_cols=482  Identities=13%  Similarity=0.105  Sum_probs=317.2

Q ss_pred             CCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHH-HHHHHHHhcCChhHHHHHHHHHhhCCCCCCH----HH
Q 004362          179 PNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFN-KLIHTLCKKGNVRESEKLFNKVLKRGVSPNL----FT  253 (759)
Q Consensus       179 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~  253 (759)
                      ....+...|...|.......+|+..|+-+.+....|+...+. .+...+.+..++.+|.++++..+..-...+.    .+
T Consensus       199 ltfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~riki  278 (840)
T KOG2003|consen  199 LTFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKI  278 (840)
T ss_pred             chHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHH
Confidence            344455566777877888899999999998888778765543 3446677888999999999988876322222    33


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcH--------H
Q 004362          254 FNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSY--------N  325 (759)
Q Consensus       254 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~  325 (759)
                      .+.+.-.+.+.|+++.|+..|+.+...  .|+..+-..|+-++..-|+.++..+.|.+|......||..-|        .
T Consensus       279 l~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~  356 (840)
T KOG2003|consen  279 LNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDD  356 (840)
T ss_pred             HhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcch
Confidence            444445678899999999999998766  677777666666777789999999999999865323322211        1


Q ss_pred             HHHHHHHHcCCh--------hHHHHHHH---HHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhH
Q 004362          326 AVIDGYCKAGMI--------SSADKILN---DAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLY  394 (759)
Q Consensus       326 ~ll~~~~~~~~~--------~~a~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  394 (759)
                      .++.-..+...+        ..|++.+-   +++..-+.|+-.      .     | .+-..+.++......+..+..  
T Consensus       357 ~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa------~-----g-~dwcle~lk~s~~~~la~dle--  422 (840)
T KOG2003|consen  357 NLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFA------A-----G-CDWCLESLKASQHAELAIDLE--  422 (840)
T ss_pred             HHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchh------c-----c-cHHHHHHHHHhhhhhhhhhhh--
Confidence            222222221111        11111111   111111111100      0     0 111112211111110000100  


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHH
Q 004362          395 NTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCK--MGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYC  472 (759)
Q Consensus       395 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  472 (759)
                      -.-...+.+.|+++.|+++++-+.+...+.-...-+.+-..+..  -.++..|.++-+..+... ..++...+.-.....
T Consensus       423 i~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f  501 (840)
T KOG2003|consen  423 INKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAF  501 (840)
T ss_pred             hhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceee
Confidence            01123477899999999999888776433222222323222222  345667777766655432 223333333334445


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHH
Q 004362          473 KQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFN  552 (759)
Q Consensus       473 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  552 (759)
                      ..|++++|.+.|++.+.....-....|| +...+-..|+.++|+++|-++... +..+...+..+...|....+...|++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            6899999999999998763222222233 333467889999999999887654 23477888889999999999999999


Q ss_pred             HHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          553 LLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       553 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  632 (759)
                      ++.+.... +|.|+.++..+...|-+.|+-..|.+.+-.-..-  .|.+..+...++.-|....-+++|+.+|+++.  -
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry--fp~nie~iewl~ayyidtqf~ekai~y~ekaa--l  654 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY--FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--L  654 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc--cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--h
Confidence            99998877 7889999999999999999999999988766655  78899999999999999999999999999987  4


Q ss_pred             CCCCHhhHHHHHHHH-HhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcC
Q 004362          633 CPPDNYTYRIMIDSF-CKTGGINSGYCLLLENIDKGFIPSLS-TIGRVINCLCVDH  686 (759)
Q Consensus       633 ~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g  686 (759)
                      +.|+..-|..++..| .++|+|++|..+|+...+  -.|.+. .+..++..+...|
T Consensus       655 iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr--kfpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  655 IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR--KFPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCccchHHHHHHHHHhcccc
Confidence            689999998888644 678999999999999887  445444 4444444433444

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.83  E-value=1.3e-14  Score=136.00  Aligned_cols=473  Identities=12%  Similarity=0.051  Sum_probs=307.8

Q ss_pred             CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 004362          180 NAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQ  259 (759)
Q Consensus       180 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  259 (759)
                      +...|......-...+++..|..+|++.+... ..+...|...+..-.+++.+..|..++++.+..-+..| ..|.-.+.
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~y  149 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHH
Confidence            34445554444455666667777777766543 22445555556666666777777777777665422212 23444444


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhH
Q 004362          260 GLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISS  339 (759)
Q Consensus       260 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  339 (759)
                      +--..|++..|.++|+....-  .|+...|++.+..-.+-+.++.|..+|++.+-.  .|+..+|......-.+.|....
T Consensus       150 mEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~  225 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVAL  225 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHH
Confidence            444567777777777776544  677777777777777777777777777776653  4667777666666667777777


Q ss_pred             HHHHHHHHHhC-C-CCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHhHHHHHHHHHhcCCH---HHHHH-
Q 004362          340 ADKILNDAIFK-G-FVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS-IVLYNTLIKGLSQQGLI---LQALQ-  412 (759)
Q Consensus       340 a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~---~~a~~-  412 (759)
                      +..+|+.++.. | -..+...+.+....-.++..++.|.-+|+-.+..-++.. ...|..+...--+-|+.   ++++- 
T Consensus       226 aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~  305 (677)
T KOG1915|consen  226 ARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVG  305 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhh
Confidence            77777776653 1 011223444444445556777888888877776533321 22333333322233443   33321 


Q ss_pred             ----HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHh-hHHHHHH--------HHHhcCCHHH
Q 004362          413 ----LMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIF-TFNTLID--------GYCKQLKMEI  479 (759)
Q Consensus       413 ----~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~--------~~~~~~~~~~  479 (759)
                          -++.++..+ +.|-.+|...++.-...|+.+...++|+.++..-.+.... .|...|-        .-....+.+.
T Consensus       306 KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~er  384 (677)
T KOG1915|consen  306 KRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVER  384 (677)
T ss_pred             hhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence                234444443 3466677888888888889999999998888763222221 1221111        1125678889


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHH----HHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHH
Q 004362          480 AIEILNTMWSHGVTPDVITYNSLLNG----LCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLE  555 (759)
Q Consensus       480 A~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  555 (759)
                      +.++|+..++. ++...+|+.-+-..    -.++.+...|.+++...+  |..|-..+|...+..-.+.++++.+..+++
T Consensus       385 tr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYE  461 (677)
T KOG1915|consen  385 TRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYE  461 (677)
T ss_pred             HHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHH
Confidence            99999988884 45555565544433    346778888888888776  457788888888888888999999999999


Q ss_pred             HHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004362          556 EMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP  635 (759)
Q Consensus       556 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  635 (759)
                      ..+.-+ |.+..+|...+..-...|+.+.|..+|..+............|...+..-...|.++.|..+|+++++.  .+
T Consensus       462 kfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~  538 (677)
T KOG1915|consen  462 KFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQ  538 (677)
T ss_pred             HHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cc
Confidence            998863 557788888888888899999999999998877544444566777777778889999999999999876  56


Q ss_pred             CHhhHHHHHHHHH-----hcC-----------ChHHHHHHHHHHHh
Q 004362          636 DNYTYRIMIDSFC-----KTG-----------GINSGYCLLLENID  665 (759)
Q Consensus       636 ~~~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~  665 (759)
                      ...+|.+.+.--.     ..|           +...|..+|+++..
T Consensus       539 h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  539 HVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             cchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence            6667777665332     334           56778888888765

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

Probab=99.79  E-value=1.4e-15  Score=141.41  Aligned_cols=439  Identities=13%  Similarity=0.071  Sum_probs=269.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchH-HHHHHHHHhCCChHHHHHHHHHHHHCCCCCChh----cHHHHHHH
Q 004362          256 MFIQGLCRKGAISEAISLLDSLGREDLTPDVVTY-NTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGF----SYNAVIDG  330 (759)
Q Consensus       256 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~ll~~  330 (759)
                      .|.+-|.......+|+..++-+.+...-|+.-.. ..+...+.+...+.+|+++|+..+..-...+..    ..+.+.-.
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            3444455555555566655555544433433222 123344555556666666666555441111111    22223334


Q ss_pred             HHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC------------CCHHhHHHHH
Q 004362          331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLK------------PSIVLYNTLI  398 (759)
Q Consensus       331 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------------~~~~~~~~l~  398 (759)
                      +.+.|+++.|+..|+.....  .|+..+-..|+-++...|+-++..+.|.+++.....            |+....+.-+
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            45556666666666665544  344444444444555556666666666666543211            1111121111


Q ss_pred             H-----HHHhcC--CHHHHHHHHHHHHhCCCCCCHH-----H----------------HHHHHHHHHhcCChHHHHHHHH
Q 004362          399 K-----GLSQQG--LILQALQLMNEMSESGCCPDMW-----T----------------YNIVINGLCKMGCVSDANNLVN  450 (759)
Q Consensus       399 ~-----~~~~~~--~~~~a~~~~~~~~~~~~~~~~~-----~----------------~~~l~~~~~~~~~~~~a~~~~~  450 (759)
                      .     -.-+..  +-++++-.--+++.--+.|+-.     .                -..-...+.+.|+++.|.++++
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            1     111110  1111111111111111111100     0                0011224678999999999998


Q ss_pred             HHHHCCCCCCHhhHHHHHHHHHh--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 004362          451 DAISKGYIPDIFTFNTLIDGYCK--QLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCV  528 (759)
Q Consensus       451 ~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  528 (759)
                      -+.+.....-...-+.|-..+.-  -.++..|.+.-+..+... .-+......-.......|++++|.+.|++.+..+..
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            88776433333333333333332  346777777776666432 113333322233334579999999999999876422


Q ss_pred             CChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHH
Q 004362          529 PNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIM  608 (759)
Q Consensus       529 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  608 (759)
                       ....+..++-.+...|+.++|+++|-.+... ...+..++..+...|....+...|++++-++...  .|.++.+...+
T Consensus       523 -c~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl--ip~dp~ilskl  598 (840)
T KOG2003|consen  523 -CTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL--IPNDPAILSKL  598 (840)
T ss_pred             -HHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc--CCCCHHHHHHH
Confidence             2334445566678899999999999887654 3457788889999999999999999999999888  99999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCc
Q 004362          609 INAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL-CVDHR  687 (759)
Q Consensus       609 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-~~~g~  687 (759)
                      +..|-+.|+-..|.+.+-.--. -++-+..+...|+.-|....-+++|+.+|+++.-  +.|+...|..++..| .+.|+
T Consensus       599 ~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgn  675 (840)
T KOG2003|consen  599 ADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGN  675 (840)
T ss_pred             HHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhccc
Confidence            9999999999999887655443 3566788888888888899999999999999988  889999998777666 68899


Q ss_pred             HHHHHHHHHHHHHCCCCCc
Q 004362          688 VHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       688 ~~~A~~~~~~~~~~~~~p~  706 (759)
                      +.+|+++|+.+.++  .|+
T Consensus       676 yqka~d~yk~~hrk--fpe  692 (840)
T KOG2003|consen  676 YQKAFDLYKDIHRK--FPE  692 (840)
T ss_pred             HHHHHHHHHHHHHh--Ccc
Confidence            99999999999873  454

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.79  E-value=3.4e-13  Score=126.64  Aligned_cols=461  Identities=12%  Similarity=0.061  Sum_probs=338.1

Q ss_pred             HHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 004362           61 NLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNK  140 (759)
Q Consensus        61 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  140 (759)
                      +.|+..+..+.-  +...|..-+.--..++++..|..+|+++.... ..+...|.-.+..-.++++...|..+|++.+..
T Consensus        60 kefEd~irrnR~--~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~  136 (677)
T KOG1915|consen   60 KEFEDQIRRNRL--NMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI  136 (677)
T ss_pred             HHHHHHHHHHHH--HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh
Confidence            345555554433  55677777888888999999999999998654 566777888888888999999999999999875


Q ss_pred             CCCCC-HHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhH
Q 004362          141 GIVPD-VYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATF  219 (759)
Q Consensus       141 ~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  219 (759)
                      -  |- ...|...+..--..|+...|+++|+...+-  .|+..+|++.|..-.+-+..+.|..+|++..-.  .|++.+|
T Consensus       137 l--PRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~w  210 (677)
T KOG1915|consen  137 L--PRVDQLWYKYIYMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNW  210 (677)
T ss_pred             c--chHHHHHHHHHHHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHH
Confidence            2  43 234555555566779999999999988764  699999999999999999999999999998764  6899999


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--cchHHHHHHH
Q 004362          220 NKLIHTLCKKGNVRESEKLFNKVLKR-GV-SPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPD--VVTYNTLMCG  295 (759)
Q Consensus       220 ~~l~~~~~~~g~~~~a~~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~  295 (759)
                      ......-.+.|+...+..+++.+++. |- ..+...+.+....-.++..++.|.-+|.-....- +.+  ...|......
T Consensus       211 ikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~f  289 (677)
T KOG1915|consen  211 IKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAF  289 (677)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHH
Confidence            98888888999999999999988765 11 1122345555555566788899999988877542 222  3445555555


Q ss_pred             HHhCCChHHHHHH--------HHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCc--ccHHHHHHH
Q 004362          296 LCKNSKVVEAEYY--------LHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDE--FTYCSLING  365 (759)
Q Consensus       296 ~~~~~~~~~a~~~--------~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~  365 (759)
                      --+.|+.....+.        |+.++..+ +.|-.+|-..++.-...|+.+...++|++++..- +|-.  ..|...|-.
T Consensus       290 EKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYL  367 (677)
T KOG1915|consen  290 EKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYL  367 (677)
T ss_pred             HHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHH
Confidence            4455665444332        34455443 4466778888888888899999999999998763 3321  122222211


Q ss_pred             --------HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHH----HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          366 --------LCQDGDVDRAMAVYVKALEKGLKPSIVLYNT----LIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVI  433 (759)
Q Consensus       366 --------~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  433 (759)
                              -....+.+.+.++|+..++. ++....++.-    ...--.++.++..|.+++...+  |..|...++...|
T Consensus       368 WinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YI  444 (677)
T KOG1915|consen  368 WINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYI  444 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHH
Confidence                    13467899999999998874 2223344433    3333456788899999988776  4578888999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCH
Q 004362          434 NGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHG-VTPDVITYNSLLNGLCKAAKS  512 (759)
Q Consensus       434 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~  512 (759)
                      ..-.+.++++.+..+++..+.-+ +.+..+|......-...|+.+.|..+|.-+++.. .......|.+.|..-...|.+
T Consensus       445 elElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~  523 (677)
T KOG1915|consen  445 ELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEF  523 (677)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchH
Confidence            99899999999999999999876 4577888888888888999999999999888752 122345677777777888999


Q ss_pred             HHHHHHHHHHHHcCCCCChhcHHHHHH
Q 004362          513 EDVMETFKTMIEKRCVPNIITYSILGE  539 (759)
Q Consensus       513 ~~a~~~~~~~~~~~~~~~~~~~~~l~~  539 (759)
                      +.|..+|+++++..  +...+|..++.
T Consensus       524 ekaR~LYerlL~rt--~h~kvWisFA~  548 (677)
T KOG1915|consen  524 EKARALYERLLDRT--QHVKVWISFAK  548 (677)
T ss_pred             HHHHHHHHHHHHhc--ccchHHHhHHH
Confidence            99999999998863  34445555543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.77  E-value=8.5e-14  Score=128.91  Aligned_cols=239  Identities=18%  Similarity=0.235  Sum_probs=110.5

Q ss_pred             CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHH
Q 004362          283 TPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSL  362 (759)
Q Consensus       283 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  362 (759)
                      +.+..++..||.++++-...+.|.+++++......+.+..+||.+|.+-.-..    ..+++.+|....+.||..++|++
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHH
Confidence            34445555555555555555555555555554444445555555544322211    14444555555555555555555


Q ss_pred             HHHHHhcCCHHHH----HHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHH-HHHHHHHHHhC----CCC----CCHHHH
Q 004362          363 INGLCQDGDVDRA----MAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQ-ALQLMNEMSES----GCC----PDMWTY  429 (759)
Q Consensus       363 ~~~~~~~~~~~~A----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~~----~~~~~~  429 (759)
                      +.+..+.|+++.|    .+++.+|.+.|+.|+..+|..+|..+.+.++..+ +..++.++...    .++    -+...+
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF  359 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFF  359 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHH
Confidence            5555555544332    3344444555555555555555555554444322 33333333221    111    123344


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCC----CCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004362          430 NIVINGLCKMGCVSDANNLVNDAISKG----YIPD---IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSL  502 (759)
Q Consensus       430 ~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  502 (759)
                      ...+..|.+..+.+.|.++..-+....    +.|+   ..-|..+..+.++....+.-...|+.|.-.-.-|+..+...+
T Consensus       360 ~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~  439 (625)
T KOG4422|consen  360 QSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHL  439 (625)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHH
Confidence            444555555555555555444333210    1111   112333444445555555555555555544444455555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc
Q 004362          503 LNGLCKAAKSEDVMETFKTMIEK  525 (759)
Q Consensus       503 ~~~~~~~~~~~~a~~~~~~~~~~  525 (759)
                      +++..-.+.++-.-++|..+...
T Consensus       440 lrA~~v~~~~e~ipRiw~D~~~~  462 (625)
T KOG4422|consen  440 LRALDVANRLEVIPRIWKDSKEY  462 (625)
T ss_pred             HHHHhhcCcchhHHHHHHHHHHh
Confidence            55555555555555555554443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.77  E-value=1e-13  Score=128.38  Aligned_cols=455  Identities=16%  Similarity=0.202  Sum_probs=291.2

Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHH--HcCChhHH-HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCh
Q 004362           86 YGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILV--EYGYFSQV-HKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRP  162 (759)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  162 (759)
                      ...+|...++.-+|++|...|.+-+...-..+++.-+  .+.+..-+ ++.|-.|...| +.+..+|        +.|..
T Consensus       125 mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW--------K~G~v  195 (625)
T KOG4422|consen  125 MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW--------KSGAV  195 (625)
T ss_pred             HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc--------ccccH
Confidence            3567777888888888887776666666555555433  33333322 34444444433 2222232        33433


Q ss_pred             hhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 004362          163 HVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKV  242 (759)
Q Consensus       163 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  242 (759)
                        |.-+|+..+     ....++..+|.++++--..++|.++|++......+.+..+||.+|.+-+-..    ..+++.+|
T Consensus       196 --AdL~~E~~P-----KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EM  264 (625)
T KOG4422|consen  196 --ADLLFETLP-----KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEM  264 (625)
T ss_pred             --HHHHHhhcC-----CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHH
Confidence              334444433     3567899999999999999999999999988777889999999987655332    27899999


Q ss_pred             hhCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHH-HHHHHHHHHHC--
Q 004362          243 LKRGVSPNLFTFNMFIQGLCRKGAISE----AISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVE-AEYYLHKMVNE--  315 (759)
Q Consensus       243 ~~~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~--  315 (759)
                      ....+.||..|+|+++++..+.|+++.    |.+++.+|++.|+.|...+|..+|..+.+.++..+ +..++.++...  
T Consensus       265 isqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~lt  344 (625)
T KOG4422|consen  265 ISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLT  344 (625)
T ss_pred             HHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhc
Confidence            999999999999999999999998765    45778888999999999999999999988887755 45555555432  


Q ss_pred             --CCCC----ChhcHHHHHHHHHHcCChhHHHHHHHHHHhCC----CCCC---cccHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          316 --GLEP----DGFSYNAVIDGYCKAGMISSADKILNDAIFKG----FVPD---EFTYCSLINGLCQDGDVDRAMAVYVKA  382 (759)
Q Consensus       316 --~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~  382 (759)
                        .++|    |...|...+..|.+..+.+.|.++..-.....    +.|+   .+-|..+....++....+.....|+.+
T Consensus       345 GK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~l  424 (625)
T KOG4422|consen  345 GKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDL  424 (625)
T ss_pred             cCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence              2222    34456778888889999999988877665431    1222   234567778888888899999999999


Q ss_pred             HHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHh
Q 004362          383 LEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIF  462 (759)
Q Consensus       383 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  462 (759)
                      ...-.-|+..+...++++....+.++-.-+++.++...|...+.....-++..+++                ....|+..
T Consensus       425 VP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~----------------~k~hp~tp  488 (625)
T KOG4422|consen  425 VPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLAR----------------DKLHPLTP  488 (625)
T ss_pred             ccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhc----------------CCCCCCCh
Confidence            88777788888888999888888888888888888877654444433333333332                22222222


Q ss_pred             hHHHHHHHHHhc-CCHHHH-HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhcHH---H
Q 004362          463 TFNTLIDGYCKQ-LKMEIA-IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKR-CVPNIITYS---I  536 (759)
Q Consensus       463 ~~~~l~~~~~~~-~~~~~A-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~---~  536 (759)
                      .-..+-....+. -++.++ ...-.++.+...  .....+.++..+.+.|..++|.+++..+.+.+ -.|.....+   -
T Consensus       489 ~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~--~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~E  566 (625)
T KOG4422|consen  489 EREQLQVAFAKCAADIKEAYESQPIRQRAQDW--PATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAE  566 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHhccC--ChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHH
Confidence            111111111111 111111 222233444333  33344555555667777777777777775442 223333333   4


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN  578 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  578 (759)
                      ++..-...++...|..+++-+...+.+.-...-+.+...|.-
T Consensus       567 l~d~a~~~~spsqA~~~lQ~a~~~n~~~~E~La~RI~e~f~i  608 (625)
T KOG4422|consen  567 LMDSAKVSNSPSQAIEVLQLASAFNLPICEGLAQRIMEDFAI  608 (625)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCchhhhHHHHHHHHhcCc
Confidence            444455666777777777777655433222233444444433

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.76  E-value=1.9e-11  Score=119.51  Aligned_cols=313  Identities=13%  Similarity=0.046  Sum_probs=198.1

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC------HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HhhHHHHHHHHHhc
Q 004362          404 QGLILQALQLMNEMSESGCCPD------MWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPD---IFTFNTLIDGYCKQ  474 (759)
Q Consensus       404 ~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  474 (759)
                      .|+..+-...+.+..+. +.|.      ...|..+...|...|+++.|..+|++..+..++.-   ..+|.....+-.+.
T Consensus       360 e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh  438 (835)
T KOG2047|consen  360 EGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRH  438 (835)
T ss_pred             cCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhh
Confidence            45555566666665543 2221      23455666666677777777777776665433221   34455555555566


Q ss_pred             CCHHHHHHHHHHHHHCCC-----------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHH
Q 004362          475 LKMEIAIEILNTMWSHGV-----------------TPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSIL  537 (759)
Q Consensus       475 ~~~~~A~~~~~~~~~~~~-----------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  537 (759)
                      .+++.|.++.++.....-                 ..+...|...+..--..|-++....+|+++++..+. ++......
T Consensus       439 ~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~Ny  517 (835)
T KOG2047|consen  439 ENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINY  517 (835)
T ss_pred             hhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHH
Confidence            667777776666543210                 013345666666666678888899999999987543 44444445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCc-cHHHHHHHHHHHHc---cCChhhHHHHHHHHHHccCCCCc-h-hhHHHHHHH
Q 004362          538 GESLCKAHKITEAFNLLEEMENKGLTL-DTVAFGTLINGFCN---SGDLDGAYQLFRRMEDQYKISHT-T-ATYNIMINA  611 (759)
Q Consensus       538 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~-~-~~~~~l~~~  611 (759)
                      +..+....-++++.++|++-+..-..| -...|+..+.-+.+   .-+++.|..+|+++.+.  .||. . .+|...+..
T Consensus       518 AmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~--Cpp~~aKtiyLlYA~l  595 (835)
T KOG2047|consen  518 AMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDG--CPPEHAKTIYLLYAKL  595 (835)
T ss_pred             HHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHH
Confidence            555667778899999999887762222 33567766655433   34689999999999996  4443 2 333334444


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---HhcC
Q 004362          612 FSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL---CVDH  686 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~---~~~g  686 (759)
                      --+.|-...|+++|+++... +++.  ...|+..+.--...=-......+|+++++  .-|+...-...+..-   .+.|
T Consensus       596 EEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe--~Lp~~~~r~mclrFAdlEtklG  672 (835)
T KOG2047|consen  596 EEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIE--SLPDSKAREMCLRFADLETKLG  672 (835)
T ss_pred             HHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHH--hCChHHHHHHHHHHHHHhhhhh
Confidence            45678999999999998754 4544  45677777543333345667889999999  678766554444333   6889


Q ss_pred             cHHHHHHHHHHHHHCCCCC----chHHHHHhc--cccccccchH
Q 004362          687 RVHEAVGFVHLMVQKGIVP----EVVNTIFEA--DKREVASPKI  724 (759)
Q Consensus       687 ~~~~A~~~~~~~~~~~~~p----~~~~~~~~~--~~~~~~~a~~  724 (759)
                      ..+.|..++.--.+ =.+|    +.|.+|-..  ++|+-+--+.
T Consensus       673 EidRARaIya~~sq-~~dPr~~~~fW~twk~FEvrHGnedT~ke  715 (835)
T KOG2047|consen  673 EIDRARAIYAHGSQ-ICDPRVTTEFWDTWKEFEVRHGNEDTYKE  715 (835)
T ss_pred             hHHHHHHHHHhhhh-cCCCcCChHHHHHHHHHHHhcCCHHHHHH
Confidence            99999998876544 1334    388888555  8998443333

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.75  E-value=1.4e-13  Score=128.96  Aligned_cols=382  Identities=12%  Similarity=0.064  Sum_probs=262.8

Q ss_pred             CCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhH--H
Q 004362          318 EPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLY--N  395 (759)
Q Consensus       318 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~--~  395 (759)
                      ..|...+-...-.+-+.|..+.|+..+...+..    -+..|.+.+....-..+.+.+..+    .... ..+....  -
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~----~P~~W~AWleL~~lit~~e~~~~l----~~~l-~~~~h~M~~~  231 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR----YPWFWSAWLELSELITDIEILSIL----VVGL-PSDMHWMKKF  231 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc----CCcchHHHHHHHHhhchHHHHHHH----HhcC-cccchHHHHH
Confidence            335444444445556677888888888777643    233333333322222233322221    1111 1121111  1


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC--CCHhhHHHHHHHHHh
Q 004362          396 TLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYI--PDIFTFNTLIDGYCK  473 (759)
Q Consensus       396 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~  473 (759)
                      -+..++....+.+++..-.+.....|++-+...-+....+.-...+++.|+.+|+++.+..+-  .|..+|..++  |.+
T Consensus       232 F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~  309 (559)
T KOG1155|consen  232 FLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVK  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHH
Confidence            233455555678888888888888887766666666666666788899999999998887311  2456666655  333


Q ss_pred             cCCHHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHH
Q 004362          474 QLKMEIAIEILN-TMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFN  552 (759)
Q Consensus       474 ~~~~~~A~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  552 (759)
                      ..+-.  +..+. ...+.+ +--+.|...+.+-|.-.++.++|+.+|++.++.+ +-....|+.++.-|....+...|+.
T Consensus       310 ~~~sk--Ls~LA~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  310 NDKSK--LSYLAQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             hhhHH--HHHHHHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHH
Confidence            32221  11111 111111 1245577778888888899999999999999875 2355688899999999999999999


Q ss_pred             HHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          553 LLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       553 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  632 (759)
                      -++++++. .|.|-..|..+..+|...+...=|+-+|+++...  .|.|...|..|+.+|.+.++.++|++.|+++...+
T Consensus       386 sYRrAvdi-~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~  462 (559)
T KOG1155|consen  386 SYRRAVDI-NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG  462 (559)
T ss_pred             HHHHHHhc-CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc
Confidence            99999987 4678899999999999999999999999999888  89999999999999999999999999999998765


Q ss_pred             CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHH-HhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          633 CPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDK----GF-IPSLSTIGRVINCL-CVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       633 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~-~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                       ..+...+..|+..|-+.++.++|..+|++-++.    |. .|+.......+..+ .+.+++++|..+..+....     
T Consensus       463 -dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~-----  536 (559)
T KOG1155|consen  463 -DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG-----  536 (559)
T ss_pred             -ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC-----
Confidence             446788999999999999999999999988762    32 33333334445555 6889999998877776542     


Q ss_pred             hHHHHHhccccccccchHHHHHHHhc
Q 004362          707 VVNTIFEADKREVASPKIVVEDLLKK  732 (759)
Q Consensus       707 ~~~~~~~~~~~~~~~a~~~~~~~~~~  732 (759)
                               ....++|+.+++++.+.
T Consensus       537 ---------~~e~eeak~LlReir~~  553 (559)
T KOG1155|consen  537 ---------ETECEEAKALLREIRKI  553 (559)
T ss_pred             ---------CchHHHHHHHHHHHHHh
Confidence                     22446777777776653

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.75  E-value=2.7e-13  Score=127.10  Aligned_cols=379  Identities=11%  Similarity=0.035  Sum_probs=275.6

Q ss_pred             CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcc--cHH
Q 004362          283 TPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEF--TYC  360 (759)
Q Consensus       283 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~  360 (759)
                      ..|...+-...-.+.+.|....|++.|......    -+..|.+.+....-..+.+.+..+    .. +.+.+..  .--
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~----~P~~W~AWleL~~lit~~e~~~~l----~~-~l~~~~h~M~~~  231 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR----YPWFWSAWLELSELITDIEILSIL----VV-GLPSDMHWMKKF  231 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc----CCcchHHHHHHHHhhchHHHHHHH----Hh-cCcccchHHHHH
Confidence            455555555555666788999999999888754    345566555554444444333222    21 1222221  112


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHh
Q 004362          361 SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCC--PDMWTYNIVINGLCK  438 (759)
Q Consensus       361 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~  438 (759)
                      -+..++....+.+++..-.......|++.+...-+....+.-...++++|+.+|+++.+...-  -|..+|+.++..-..
T Consensus       232 F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~  311 (559)
T KOG1155|consen  232 FLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhh
Confidence            344566666788888888888888888877766666666777889999999999999987321  156677777644322


Q ss_pred             cCChHHHHHHHHH-HHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004362          439 MGCVSDANNLVND-AISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVME  517 (759)
Q Consensus       439 ~~~~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  517 (759)
                      ....    ..+.+ ..... +-.+.|...+.+-|+-.++.++|...|++.++.+.. ....|+.+..-|....+...|++
T Consensus       312 ~skL----s~LA~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  312 KSKL----SYLAQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             hHHH----HHHHHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHH
Confidence            2211    11211 11111 234567777888899999999999999999997532 57789999999999999999999


Q ss_pred             HHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccC
Q 004362          518 TFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK  597 (759)
Q Consensus       518 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  597 (759)
                      .|++.++-+ +.|-..|..++++|.-.+.+.-|.-.|+++... -|.|+..|.++..+|.+.++.++|++.|.++...  
T Consensus       386 sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~-kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~--  461 (559)
T KOG1155|consen  386 SYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL-KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILL--  461 (559)
T ss_pred             HHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhc--
Confidence            999999875 458889999999999999999999999999987 5779999999999999999999999999999987  


Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----C-CCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          598 ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK----G-CPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       598 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~-~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      ...+..++..++..|-+.++..+|.+.|++.++.    | +.|. ..+...|..-+.+.+++++|..+..+...  ..|.
T Consensus       462 ~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~--~~~e  539 (559)
T KOG1155|consen  462 GDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK--GETE  539 (559)
T ss_pred             cccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc--CCch
Confidence            3336688999999999999999999999988763    2 2232 23333466677889999999998888777  3555


Q ss_pred             HHHHHHHHHHH
Q 004362          672 LSTIGRVINCL  682 (759)
Q Consensus       672 ~~~~~~l~~~~  682 (759)
                      ......++..+
T Consensus       540 ~eeak~LlRei  550 (559)
T KOG1155|consen  540 CEEAKALLREI  550 (559)
T ss_pred             HHHHHHHHHHH
Confidence            54444444433

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.74  E-value=2.7e-14  Score=134.56  Aligned_cols=220  Identities=14%  Similarity=0.112  Sum_probs=178.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHH
Q 004362          471 YCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEA  550 (759)
Q Consensus       471 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  550 (759)
                      +.-.|+.-.|..-|+..++....+ ...|--+..+|....+.++.+..|+...+.+ +-++.+|..-++.+.-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHH
Confidence            345788899999999999874333 2337777788999999999999999999876 44788999999999999999999


Q ss_pred             HHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          551 FNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       551 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      ..=|++.++. -|.+...|..+.-+..+.+.++++...|+....+  .|..+..|+..+.++..+++++.|.+.|+.+++
T Consensus       414 ~aDF~Kai~L-~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  414 IADFQKAISL-DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHhhc-ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            9999999886 2445666777777788999999999999999999  888999999999999999999999999999985


Q ss_pred             cCCCCC---------HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCcHHHHHHHHHHHHH
Q 004362          631 KGCPPD---------NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL-CVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       631 ~~~~p~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~  700 (759)
                      .  .|+         +.+...++..-. .+++..|+.+++++++  ++|.....+.-+..+ ...|+.++|+++|++...
T Consensus       491 L--E~~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  491 L--EPREHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             h--ccccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            4  555         112222222223 3899999999999999  999877666555555 899999999999999764

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.74  E-value=6.7e-11  Score=115.83  Aligned_cols=610  Identities=11%  Similarity=0.097  Sum_probs=313.4

Q ss_pred             CHHHHHHHHHHHHhCC-ChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh--------cCChhHHHHHHHHhhhCCCCC
Q 004362           39 TLLTYKYMIDKLGFHG-NFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGR--------RGKVQEAVDVFERMDFYNCEP  109 (759)
Q Consensus        39 ~~~~~~~l~~~l~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~~  109 (759)
                      +..+|...+..  ++| -..+-..+|+++.+..|.  +-.+|..-++.-..        ..-++..-.+|++....- ..
T Consensus        26 svk~W~RYIe~--k~~sp~k~~~~lYERal~~lp~--sykiW~~YL~~R~~~vk~~~~T~~~~~~vn~c~er~lv~m-Hk  100 (835)
T KOG2047|consen   26 SVKCWLRYIEH--KAGSPDKQRNLLYERALKELPG--SYKIWYDYLKARRAQVKHLCPTDPAYESVNNCFERCLVFM-HK  100 (835)
T ss_pred             hHHHHHHHHHH--HccCChHHHHHHHHHHHHHCCC--chHHHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHH-hc
Confidence            44445444432  222 234455566666666666  55555554422111        122333444444433111 23


Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHH
Q 004362          110 TVLSYNTIMNILVEYGYFSQVHKVYMRMRNK-GIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLI  188 (759)
Q Consensus       110 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~  188 (759)
                      -+..|-..+..+.++|+...-...|++.+.. .+.....+|...+...-..+-++.+..+++...+..    +..-+..|
T Consensus       101 mpRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~----P~~~eeyi  176 (835)
T KOG2047|consen  101 MPRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVA----PEAREEYI  176 (835)
T ss_pred             CCHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcC----HHHHHHHH
Confidence            4456777777778888888888888887654 223345567777777777777778888888777653    44567777


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCC------CCCChhhHHHHHHHHHhcCCh---hHHHHHHHHHhhCCCCCC--HHHHHHH
Q 004362          189 AGFYEENHNVEAYELFDEMLGMG------ISPDIATFNKLIHTLCKKGNV---RESEKLFNKVLKRGVSPN--LFTFNMF  257 (759)
Q Consensus       189 ~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~--~~~~~~l  257 (759)
                      ..+...+++++|.+.+.......      .+.+...|..+-...++..+.   -....+++.++..  -+|  ...|++|
T Consensus       177 e~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SL  254 (835)
T KOG2047|consen  177 EYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSL  254 (835)
T ss_pred             HHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHH
Confidence            77788888888888887776431      122333455554544443322   2233444444332  233  3467888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCCh----------------------HHHHHHHHHHHHC
Q 004362          258 IQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKV----------------------VEAEYYLHKMVNE  315 (759)
Q Consensus       258 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------------------~~a~~~~~~~~~~  315 (759)
                      .+.|++.|.+++|..++++....  ..++..++.+.++|+.....                      +-...-|+.+...
T Consensus       255 AdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~r  332 (835)
T KOG2047|consen  255 ADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNR  332 (835)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhc
Confidence            88888888888888888876644  33444455555555432111                      1111112222211


Q ss_pred             CC-----------CCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCC------cccHHHHHHHHHhcCCHHHHHHH
Q 004362          316 GL-----------EPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPD------EFTYCSLINGLCQDGDVDRAMAV  378 (759)
Q Consensus       316 ~~-----------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~A~~~  378 (759)
                      ..           +-+...|..-+  -...|+..+....+.++++. +.|.      ...|..+...|-..|+++.|+.+
T Consensus       333 r~~~lNsVlLRQn~~nV~eW~kRV--~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvi  409 (835)
T KOG2047|consen  333 RPLLLNSVLLRQNPHNVEEWHKRV--KLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVI  409 (835)
T ss_pred             cchHHHHHHHhcCCccHHHHHhhh--hhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHH
Confidence            00           00111111111  11234444444555554432 1111      12344455555555666666666


Q ss_pred             HHHHHHcCCCCC---HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 004362          379 YVKALEKGLKPS---IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISK  455 (759)
Q Consensus       379 ~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  455 (759)
                      |++..+...+--   ..+|......-.+..+++.|+++++.....   |....     ..+...+.+-.+.         
T Consensus       410 feka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~v---P~~~~-----~~~yd~~~pvQ~r---------  472 (835)
T KOG2047|consen  410 FEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHV---PTNPE-----LEYYDNSEPVQAR---------  472 (835)
T ss_pred             HHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcC---CCchh-----hhhhcCCCcHHHH---------
Confidence            655554422211   122333333333445555555555544432   11110     0111111111100         


Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh-cH
Q 004362          456 GYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNII-TY  534 (759)
Q Consensus       456 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~  534 (759)
                       +..+...|...++.-...|-++....+|+++++..+- ++.........+-.+.-++++.++|++-+..-..|+.. .|
T Consensus       473 -lhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW  550 (835)
T KOG2047|consen  473 -LHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIW  550 (835)
T ss_pred             -HHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHH
Confidence             0113445666666666777788888888888776543 33333333334455566778888887766653344432 34


Q ss_pred             HHHHHHHH-h--cCCHHHHHHHHHHHHHCCCCccHHH--HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          535 SILGESLC-K--AHKITEAFNLLEEMENKGLTLDTVA--FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       535 ~~l~~~~~-~--~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +..+..+. +  ....+.|..+|+++++ +.||...-  |......-.+.|....|+.+|+++...-....-...|+..+
T Consensus       551 ~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I  629 (835)
T KOG2047|consen  551 NTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYI  629 (835)
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            33333332 2  2357888888888887 46654332  23333333456777888888888766522222234455444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHH---HHHHHHhcCChHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHh
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRI---MIDSFCKTGGINSGYCLLLENIDKGFIP--SLSTIGRVINCLCV  684 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~---l~~~~~~~g~~~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~  684 (759)
                      .--...=-...-..+|+++++.  -||...-..   ....-.+.|..+.|..++.-..+. .+|  +...|..+-..=.+
T Consensus       630 ~kaae~yGv~~TR~iYekaIe~--Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~-~dPr~~~~fW~twk~FEvr  706 (835)
T KOG2047|consen  630 KKAAEIYGVPRTREIYEKAIES--LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQI-CDPRVTTEFWDTWKEFEVR  706 (835)
T ss_pred             HHHHHHhCCcccHHHHHHHHHh--CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhc-CCCcCChHHHHHHHHHHHh
Confidence            3222222233456677777754  455433322   233456678888888887776652 344  34445555444467


Q ss_pred             cCc
Q 004362          685 DHR  687 (759)
Q Consensus       685 ~g~  687 (759)
                      .|+
T Consensus       707 HGn  709 (835)
T KOG2047|consen  707 HGN  709 (835)
T ss_pred             cCC
Confidence            777

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.73  E-value=4.5e-13  Score=129.10  Aligned_cols=510  Identities=12%  Similarity=0.017  Sum_probs=310.3

Q ss_pred             CHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 004362          145 DVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIH  224 (759)
Q Consensus       145 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  224 (759)
                      +..-+..+.+-+....++..|.-+-+++...+  .|+..---++..+.-.+++.+|..+...-.-.  ..|..+......
T Consensus        15 s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~--~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~   90 (611)
T KOG1173|consen   15 SLEKYRRLVRDALMQHRYKTALFWADKVAGLT--NDPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAK   90 (611)
T ss_pred             cHHHHHHHHHHHHHHHhhhHHHHHHHHHHhcc--CChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHH
Confidence            34455566666666667777777666666554  33444444556666666777766665554322  335556666666


Q ss_pred             HHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHH
Q 004362          225 TLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVE  304 (759)
Q Consensus       225 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  304 (759)
                      .+.+..+++.|..++....   +..++..+..-- + ...-..+.+.    +...  +......+-.-...|......++
T Consensus        91 ~l~~lk~~~~al~vl~~~~---~~~~~f~yy~~~-~-~~~l~~n~~~----~~~~--~~~essic~lRgk~y~al~n~~~  159 (611)
T KOG1173|consen   91 CLVKLKEWDQALLVLGRGH---VETNPFSYYEKD-A-ANTLELNSAG----EDLM--INLESSICYLRGKVYVALDNREE  159 (611)
T ss_pred             HHHHHHHHHHHHHHhcccc---hhhcchhhcchh-h-hceeccCccc----cccc--ccchhceeeeeeehhhhhccHHH
Confidence            6667777777776665321   011111110000 0 0000000111    0000  01111111112234555667788


Q ss_pred             HHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCC----CCcccHHHHHHHHHhcCCHHHHHHHHH
Q 004362          305 AEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFV----PDEFTYCSLINGLCQDGDVDRAMAVYV  380 (759)
Q Consensus       305 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~  380 (759)
                      |...|.+....    |...+..+...-. . ..-.+.+.++.+......    .+......+.....-...-+.....-.
T Consensus       160 ar~~Y~~Al~~----D~~c~Ea~~~lvs-~-~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~  233 (611)
T KOG1173|consen  160 ARDKYKEALLA----DAKCFEAFEKLVS-A-HMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNE  233 (611)
T ss_pred             HHHHHHHHHhc----chhhHHHHHHHHH-H-HhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCc
Confidence            88888777654    4444433322111 1 111121222222211100    011111111111100000000000000


Q ss_pred             HHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 004362          381 KALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPD  460 (759)
Q Consensus       381 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  460 (759)
                      +..-.+..-++.....-.+-+....++.+..++.+.+.+.. ++....+..-|.++...|+..+-..+-.++++. .|..
T Consensus       234 ~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~  311 (611)
T KOG1173|consen  234 DESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSK  311 (611)
T ss_pred             hhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCC
Confidence            01111223355666666677778889999999999888763 445555555666777888888877777777776 3557


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHH
Q 004362          461 IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES  540 (759)
Q Consensus       461 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  540 (759)
                      +.+|-++.--|...|+.++|.+.|.+....+.. -...|-.+...|+-.|..++|+..|....+. ++-....+..++--
T Consensus       312 a~sW~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgme  389 (611)
T KOG1173|consen  312 ALSWFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGME  389 (611)
T ss_pred             CcchhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHH
Confidence            788888888888889999999999888765322 2457888888899999999999988888775 23344456667777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccC-----CCCchhhHHHHHHHHHhc
Q 004362          541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK-----ISHTTATYNIMINAFSEK  615 (759)
Q Consensus       541 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~  615 (759)
                      |.+.++.+.|..+|.++... .|.|+...+.+.-.....+.+.+|..+|+.....-.     .+....++++++++|.+.
T Consensus       390 y~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl  468 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKL  468 (611)
T ss_pred             HHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHH
Confidence            88899999999999998876 566888888887777788899999999988873211     122445688999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLC  683 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~  683 (759)
                      +.+++|+..+++.+... +.+..++.+++-.|...|+++.|+..|.+++-  +.|++.....++....
T Consensus       469 ~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  469 NKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAI  533 (611)
T ss_pred             hhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHH
Confidence            99999999999988763 55688999999999999999999999999998  8899887777766543

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.72  E-value=3.4e-13  Score=129.92  Aligned_cols=274  Identities=8%  Similarity=-0.016  Sum_probs=224.2

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004362          423 CPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSL  502 (759)
Q Consensus       423 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  502 (759)
                      .-+......-..-|...+++.+..++.+.+.+.. ++....+..-|.++...|+..+-..+-.++.+. .+....+|-++
T Consensus       241 ~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aV  318 (611)
T KOG1173|consen  241 AENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAV  318 (611)
T ss_pred             hhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhH
Confidence            3355555666667788999999999999988874 556666766777888999988888888888886 34468899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCCh
Q 004362          503 LNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDL  582 (759)
Q Consensus       503 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  582 (759)
                      .-.|.-.|+..+|.++|.+....+ +.=...|..++.+++..|..++|...+..+-+. ++-....+.-+.--|.+.+++
T Consensus       319 g~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccH
Confidence            999999999999999999887653 123457999999999999999999999998886 343444445555678889999


Q ss_pred             hhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCC----CCHhhHHHHHHHHHhcCChHHH
Q 004362          583 DGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK--GCP----PDNYTYRIMIDSFCKTGGINSG  656 (759)
Q Consensus       583 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~----p~~~~~~~l~~~~~~~g~~~~A  656 (759)
                      +.|.++|.++...  .|.|+..++.++.+....+.+.+|..+|+..+..  .+.    --..+++.|+.+|.+.+.+++|
T Consensus       397 kLAe~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  397 KLAEKFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            9999999999998  8999999999999999999999999999987732  011    1245789999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          657 YCLLLENIDKGFIPSLSTIGR-VINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       657 ~~~~~~~~~~g~~p~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      +..+++++.  +.|.+..... +.-.+...|+.+.|++.|.+.+.  ++|+
T Consensus       475 I~~~q~aL~--l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~  521 (611)
T KOG1173|consen  475 IDYYQKALL--LSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPD  521 (611)
T ss_pred             HHHHHHHHH--cCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCc
Confidence            999999999  8887666554 44455789999999999999987  7888

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.71  E-value=8.2e-17  Score=155.55  Aligned_cols=261  Identities=15%  Similarity=0.105  Sum_probs=112.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004362          431 IVINGLCKMGCVSDANNLVNDAISKG-YIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKA  509 (759)
Q Consensus       431 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  509 (759)
                      .+...+.+.|++++|.++++...... .+.+...|..+.......++++.|.+.++++...+.. ++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            44667778888888888886554443 2345555666666777888899999999988876433 45556666666 688


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCccHHHHHHHHHHHHccCChhhHHHH
Q 004362          510 AKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENK-GLTLDTVAFGTLINGFCNSGDLDGAYQL  588 (759)
Q Consensus       510 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~  588 (759)
                      +++++|.+++....+..  +++..+..++..+...++++++..+++.+... ..+.+...|..++..+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            89999998888776653  46667777888888999999999999998754 2356778888899999999999999999


Q ss_pred             HHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 004362          589 FRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGF  668 (759)
Q Consensus       589 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  668 (759)
                      |+++.+.  .|++......+++.+...|+.+++.++++...+.. +.|+..|..++.+|...|+.++|+.+++++.+  .
T Consensus       169 ~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~--~  243 (280)
T PF13429_consen  169 YRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALK--L  243 (280)
T ss_dssp             HHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHH--H
T ss_pred             HHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccc--c
Confidence            9999998  89899999999999999999999999998887763 56678888999999999999999999999998  7


Q ss_pred             CCCHHHH-HHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          669 IPSLSTI-GRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       669 ~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      .|+++.+ ..+...+...|+.++|..+++++..
T Consensus       244 ~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  244 NPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             STT-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccccc
Confidence            7865555 5677777899999999999988754

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.70  E-value=4.8e-14  Score=132.89  Aligned_cols=227  Identities=10%  Similarity=0.061  Sum_probs=186.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChh
Q 004362          504 NGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLD  583 (759)
Q Consensus       504 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  583 (759)
                      ..+.-.|+.-.|.+-|+..++....+ ...|..+..+|....+.++....|++..+.+ +.++.+|..-..++.-.++++
T Consensus       334 tF~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e  411 (606)
T KOG0547|consen  334 TFHFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYE  411 (606)
T ss_pred             hhhhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHH
Confidence            34556789999999999999875333 3338899999999999999999999999873 557778888888888899999


Q ss_pred             hHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHH
Q 004362          584 GAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLEN  663 (759)
Q Consensus       584 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  663 (759)
                      +|..-|++....  .|.+...|..+..+..+.++++++...|++..++ +|.-+.+|+..+.++...++++.|.+.|+.+
T Consensus       412 ~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~a  488 (606)
T KOG0547|consen  412 EAIADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKA  488 (606)
T ss_pred             HHHHHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHH
Confidence            999999999999  8999999999999999999999999999999987 4555999999999999999999999999999


Q ss_pred             HhCCCCCC------HHHHH--HHHHHHHhcCcHHHHHHHHHHHHHCCCCCc---hHHHHHhc--cccccccchHHHHHHH
Q 004362          664 IDKGFIPS------LSTIG--RVINCLCVDHRVHEAVGFVHLMVQKGIVPE---VVNTIFEA--DKREVASPKIVVEDLL  730 (759)
Q Consensus       664 ~~~g~~p~------~~~~~--~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~~~--~~~~~~~a~~~~~~~~  730 (759)
                      ++  +.|.      +....  .-+-.+...++.+.|.++++++.+  ++|.   ..-++...  ..|+.++|..+|++..
T Consensus       489 i~--LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  489 IE--LEPREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             Hh--hccccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            99  8886      22221  122222356999999999999998  7787   23333333  8899999999999987


Q ss_pred             hcCCCchHH
Q 004362          731 KKSHITYYA  739 (759)
Q Consensus       731 ~~~~~~~~~  739 (759)
                      .+...-.+.
T Consensus       565 ~lArt~~E~  573 (606)
T KOG0547|consen  565 QLARTESEM  573 (606)
T ss_pred             HHHHhHHHH
Confidence            766655543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.69  E-value=1.5e-13  Score=138.89  Aligned_cols=283  Identities=12%  Similarity=0.092  Sum_probs=155.7

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHhcCChHHH
Q 004362          369 DGDVDRAMAVYVKALEKGLKPSIVL-YNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYN--IVINGLCKMGCVSDA  445 (759)
Q Consensus       369 ~~~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  445 (759)
                      .|+++.|.+......+...  ++.. +-....+..+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~~--~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAE--QPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhccc--chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            5666666666555444311  1222 222233335666677777777666654  33332222  224456666777777


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-------HHHHHHHHHHhcCCHHHHHHH
Q 004362          446 NNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVI-------TYNSLLNGLCKAAKSEDVMET  518 (759)
Q Consensus       446 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~  518 (759)
                      ...++.+.+.. +.++.....+...|.+.|++++|.+++..+.+.+..++..       +|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            77777666654 3355666666667777777777777777776654332211       122222222233334444555


Q ss_pred             HHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCC
Q 004362          519 FKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKI  598 (759)
Q Consensus       519 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  598 (759)
                      |+.+.+. .+.++.....++..+...|+.++|..++++..+.  +++.....  +.+....++.+++.+..+...+.  .
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~~--l~~~l~~~~~~~al~~~e~~lk~--~  324 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLVL--LIPRLKTNNPEQLEKVLRQQIKQ--H  324 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHH--HHhhccCCChHHHHHHHHHHHhh--C
Confidence            5554332 2335555666666666666666666666666653  33443221  22223446666666666666665  5


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          599 SHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       599 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      |+++..+..++..+...+++++|.+.|+++.+.  .|+..++..+..++.+.|+.++|..++++.+.
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            666666666666666666666666666666643  46666656666666666666666666666554

>TIGR00540 hemY_coli hemY protein

Probab=99.68  E-value=2e-13  Score=138.87  Aligned_cols=128  Identities=11%  Similarity=-0.014  Sum_probs=67.8

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhH--HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H--hh
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATY--NIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-N--YT  639 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~--~~  639 (759)
                      +...+..++..+...|+.++|.+.+++..+.  .|++....  ..........++.+.+.+.+++..+.  .|+ +  ..
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~l  337 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCI  337 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHH
Confidence            4555555555555555555555555555554  33333211  11111222334555556666555543  233 4  44


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHH--HHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 004362          640 YRIMIDSFCKTGGINSGYCLLLE--NIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLM  698 (759)
Q Consensus       640 ~~~l~~~~~~~g~~~~A~~~~~~--~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  698 (759)
                      ..++++.|.+.|++++|.++|++  +.+  ..|++..+.++...+.+.|+.++|.+++++.
T Consensus       338 l~sLg~l~~~~~~~~~A~~~le~a~a~~--~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       338 NRALGQLLMKHGEFIEAADAFKNVAACK--EQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHhHHhh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55666666666666666666663  333  5566665555655556666666666666654

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=99.68  E-value=2.2e-13  Score=137.68  Aligned_cols=283  Identities=10%  Similarity=0.003  Sum_probs=219.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHH--HHHHHHHhcCCHHHH
Q 004362          404 QGLILQALQLMNEMSESGCCPDMWT-YNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFN--TLIDGYCKQLKMEIA  480 (759)
Q Consensus       404 ~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~A  480 (759)
                      .|+++.|.+.+....+..  +++.. +..........|+++.+...+.++.+.  .|+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            699999998888766542  22333 333344557899999999999999876  44543332  346788899999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh-------cHHHHHHHHHhcCCHHHHHHH
Q 004362          481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNII-------TYSILGESLCKAHKITEAFNL  553 (759)
Q Consensus       481 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~  553 (759)
                      ...++++.+.. +-+......+...|.+.|++++|.+++..+.+.+..++..       ++..++.......+.+...++
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999999875 3367788889999999999999999999999875443221       223333333444556667777


Q ss_pred             HHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004362          554 LEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGC  633 (759)
Q Consensus       554 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  633 (759)
                      ++.+.+. .+.++.....++..+...|+.++|.+.+++..+.   ++++...  +..+....++.+++++..++..+.. 
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-  324 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-  324 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-
Confidence            7776554 4668888899999999999999999999999875   4444332  2333345599999999999999763 


Q ss_pred             CCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          634 PPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       634 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      |.|+..+..++..|...|++++|..+|+++++  ..|+...+..+...+.+.|+.++|..++++...
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44477888999999999999999999999999  889999988888888999999999999998765

>TIGR00540 hemY_coli hemY protein

Probab=99.68  E-value=3.3e-13  Score=137.30  Aligned_cols=294  Identities=13%  Similarity=0.078  Sum_probs=213.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 004362          366 LCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDA  445 (759)
Q Consensus       366 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  445 (759)
                      ....|+++.|.+.+.+..+..+. +...+-....+..+.|+++.|...+.+..+....+...........+...|+++.|
T Consensus        94 a~~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        94 KLAEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HHhCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            35689999999999888776433 23333445566778899999999999987653222223344457778889999999


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHH---HhcCCHHHHHHHHHH
Q 004362          446 NNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITY-NSLLNGL---CKAAKSEDVMETFKT  521 (759)
Q Consensus       446 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~-~~l~~~~---~~~~~~~~a~~~~~~  521 (759)
                      ...++.+.+.. +.++.+...+...+...|+++.|.+.+..+.+.++. +...+ ..-..++   ...+..+++.+.+..
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            99999998875 446778888899999999999999999999988654 33333 2222222   333333444445555


Q ss_pred             HHHcCC---CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH--HHHccCChhhHHHHHHHHHHcc
Q 004362          522 MIEKRC---VPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN--GFCNSGDLDGAYQLFRRMEDQY  596 (759)
Q Consensus       522 ~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~  596 (759)
                      +.+...   +.+...+..++..+...|+.++|.+++++..+.. +.+......++.  .....++.+.+.+.++...+. 
T Consensus       251 ~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~-pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~-  328 (409)
T TIGR00540       251 WWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL-GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN-  328 (409)
T ss_pred             HHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC-CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh-
Confidence            555421   1377788888899999999999999999999863 223221111222  223457888899999998888 


Q ss_pred             CCCCch--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          597 KISHTT--ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       597 ~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                       .|+++  .....+++.+.+.|++++|.+.|++.......|+...+..++..+.+.|+.++|.+++++.+.
T Consensus       329 -~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       329 -VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             -CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             78888  888899999999999999999999533334478888888999999999999999999998765

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.

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.67  E-value=3e-14  Score=140.21  Aligned_cols=286  Identities=12%  Similarity=0.074  Sum_probs=195.9

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CCCHhhHHHHHHHHHhcCCHHHHHHH
Q 004362          406 LILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGY--IPDIFTFNTLIDGYCKQLKMEIAIEI  483 (759)
Q Consensus       406 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~  483 (759)
                      +..+|+..|..+... +.-..+....+.++|...+++++|..+|+.+.+...  ..+..+|.+.+.-+-   + +-++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq---~-~v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQ---D-EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHH---h-hHHHHH
Confidence            467788888775443 333456667777888888888888888888776521  124455555543321   1 122222


Q ss_pred             H-HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004362          484 L-NTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGL  562 (759)
Q Consensus       484 ~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  562 (759)
                      + +.+.+.. +-.+.+|.++..+|.-+++.+.|++.|++.++.+ +-...+|+.++.-+.....+|.|...|+.++.. .
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~-~  485 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGV-D  485 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcC-C
Confidence            2 3333332 3357788888888888888888888888887753 115567777777777778888888888887764 2


Q ss_pred             CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHH
Q 004362          563 TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRI  642 (759)
Q Consensus       563 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  642 (759)
                      +-+-.+|..+...|.+.++++.|.-.|+++.+.  .|.+......++..+.+.|+.++|+.+++++...+ +.|+.+-..
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~  562 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYH  562 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHH
Confidence            334556677777888888888888888888877  77777777888888888888888888888887553 335666666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          643 MIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVIN-CLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       643 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      -+..+...+++++|+..++++.+  +.|+......++. .+-+.|+.+.|+.-|--|.+  ++|.
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~--ldpk  623 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALD--LDPK  623 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhc--CCCc
Confidence            66677778888888888888887  7787665554444 44567888888887777766  4554

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.66  E-value=6.2e-16  Score=149.42  Aligned_cols=262  Identities=14%  Similarity=0.116  Sum_probs=101.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhc
Q 004362          396 TLIKGLSQQGLILQALQLMNEMSESGCCP-DMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQ  474 (759)
Q Consensus       396 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  474 (759)
                      .+...+.+.|++++|++++++......+| +...|..+...+...++++.|...++.+...+. .++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccc-ccc
Confidence            34555666777777777775544332123 333334444455567777777777777766542 245555566655 577


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhcHHHHHHHHHhcCCHHHHHHH
Q 004362          475 LKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKR-CVPNIITYSILGESLCKAHKITEAFNL  553 (759)
Q Consensus       475 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  553 (759)
                      +++++|.+++....+.  .++...+...+..+...++++++..+++.+.... .+++...|..++..+.+.|++++|...
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7777777777766554  2455666677777777788888888877766542 234566777777888888888888888


Q ss_pred             HHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004362          554 LEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGC  633 (759)
Q Consensus       554 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  633 (759)
                      ++++++. .|.+......++..+...|+.+++.++++.....  .|+++..+..++.++...|+.++|+.+++++.+.. 
T Consensus       169 ~~~al~~-~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-  244 (280)
T PF13429_consen  169 YRKALEL-DPDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-  244 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-
T ss_pred             HHHHHHc-CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhcccccccccccccccccccc-
Confidence            8888875 3446777778888888888888888888887776  46777788888888888888888888888887653 


Q ss_pred             CCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          634 PPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       634 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +.|+.+...++.++...|+.++|..+.+++.+
T Consensus       245 p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             TT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccccc
Confidence            44677778888888888888888888777654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.65  E-value=1e-10  Score=117.41  Aligned_cols=125  Identities=12%  Similarity=0.034  Sum_probs=85.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHH
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP-DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-STIGRVINC  681 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~  681 (759)
                      .|...+..+...++.++|...+.++...  .| .+..|...+..+...|.+.+|...|..++.  ++|+. .....+...
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~  727 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAEL  727 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHH
Confidence            3445566677777777777777776633  34 366777777777778888888888888877  77764 444556666


Q ss_pred             HHhcCcHHHHHH--HHHHHHHCCCCCc---hHHHHHhc--cccccccchHHHHHHHhcCC
Q 004362          682 LCVDHRVHEAVG--FVHLMVQKGIVPE---VVNTIFEA--DKREVASPKIVVEDLLKKSH  734 (759)
Q Consensus       682 ~~~~g~~~~A~~--~~~~~~~~~~~p~---~~~~~~~~--~~~~~~~a~~~~~~~~~~~~  734 (759)
                      +.+.|+..-|..  ++..+++  ++|+   .|..+...  +.|+.++|-.+|+-+.....
T Consensus       728 lle~G~~~la~~~~~L~dalr--~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~  785 (799)
T KOG4162|consen  728 LLELGSPRLAEKRSLLSDALR--LDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEE  785 (799)
T ss_pred             HHHhCCcchHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhcc
Confidence            677777666666  7777776  4444   56555555  77777888888877776543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.65  E-value=5.6e-11  Score=119.29  Aligned_cols=240  Identities=16%  Similarity=0.086  Sum_probs=140.9

Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHH
Q 004362          211 GISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYN  290 (759)
Q Consensus       211 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  290 (759)
                      .+..|...|..+.-+....|++..+.+.|++.+.- .......|..+...|...|....|..+++........|+..+--
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            34557777777777788888888888888887654 33356678888888888888888888887765443224333322


Q ss_pred             HHH-HHHH-hCCChHHHHHHHHHHHHC--CC--CCChhcHHHHHHHHHHc-----------CChhHHHHHHHHHHhCCCC
Q 004362          291 TLM-CGLC-KNSKVVEAEYYLHKMVNE--GL--EPDGFSYNAVIDGYCKA-----------GMISSADKILNDAIFKGFV  353 (759)
Q Consensus       291 ~l~-~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~ll~~~~~~-----------~~~~~a~~~~~~~~~~~~~  353 (759)
                      .++ ..|. +.+..++++++-.+....  +.  ......|..+.-+|...           ....++.+.+++..+.+..
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            222 3333 356666766666665542  10  11223333333333221           1234566667777665422


Q ss_pred             CCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          354 PDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVI  433 (759)
Q Consensus       354 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  433 (759)
                       |+.+...+.--|+..++++.|.+..++..+.+..-+...|..|.-.+...+++.+|+.+.+.....- ..|......-+
T Consensus       477 -dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-~~N~~l~~~~~  554 (799)
T KOG4162|consen  477 -DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-GDNHVLMDGKI  554 (799)
T ss_pred             -CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-hhhhhhchhhh
Confidence             4444444455566677788888888888777666677778777777777788888887777665541 11221111122


Q ss_pred             HHHHhcCChHHHHHHHHHHH
Q 004362          434 NGLCKMGCVSDANNLVNDAI  453 (759)
Q Consensus       434 ~~~~~~~~~~~a~~~~~~~~  453 (759)
                      ..-...++.+++......+.
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L  574 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKL  574 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHH
Confidence            22223555555555544443

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.65  E-value=5.1e-14  Score=138.57  Aligned_cols=289  Identities=13%  Similarity=0.069  Sum_probs=235.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChHHHHHH
Q 004362          371 DVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGC--CPDMWTYNIVINGLCKMGCVSDANNL  448 (759)
Q Consensus       371 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~  448 (759)
                      +..+|...|..+...... .......+..+|...+++++|.++|+.+.+...  .-+..+|.+.+..+-   +.-+.-.+
T Consensus       334 ~~~~A~~~~~klp~h~~n-t~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq---~~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYN-TGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQ---DEVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHH---hhHHHHHH
Confidence            467889999886555333 446677888999999999999999999887521  125567776665432   22222233


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004362          449 VNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTP-DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRC  527 (759)
Q Consensus       449 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  527 (759)
                      -++++... +..+.+|.++..+|.-+++.+.|++.|++.++.  .| ...+|+.+..-+.....+|.|...|+..+... 
T Consensus       410 aq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-  485 (638)
T KOG1126|consen  410 AQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-  485 (638)
T ss_pred             HHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-
Confidence            34444443 557899999999999999999999999999986  45 67788888888888999999999999988653 


Q ss_pred             CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHH
Q 004362          528 VPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNI  607 (759)
Q Consensus       528 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  607 (759)
                      +-+-..|..++..|.+.++++.|.-.|+.+.+.+ |.+......+...+.+.|+.++|+++|+++...  .|.++..-..
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~l--d~kn~l~~~~  562 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHL--DPKNPLCKYH  562 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhc--CCCCchhHHH
Confidence            2245577888999999999999999999999863 456677778888999999999999999999998  8899999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                      .+..+...+++++|+..++++.+.  .|+ ...+..++..|.+.|+.+.|+.-|.-|.+  ++|....
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~--ldpkg~~  626 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALD--LDPKGAQ  626 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhc--CCCccch
Confidence            999999999999999999999965  565 78888899999999999999999999998  8886554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.64  E-value=1.9e-10  Score=118.39  Aligned_cols=666  Identities=10%  Similarity=-0.002  Sum_probs=353.8

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcC
Q 004362           46 MIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYG  125 (759)
Q Consensus        46 l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  125 (759)
                      .+.+|.+. +...|.+.|-++...++.  -.++|..|+..|...-+...|.++|+++-+.+ ..+..++......|++..
T Consensus       465 ~a~~~~rK-~~~~al~ali~alrld~~--~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~  540 (1238)
T KOG1127|consen  465 VALGCMRK-NSALALHALIRALRLDVS--LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEES  540 (1238)
T ss_pred             HHHHHhhh-hHHHHHHHHHHHHhcccc--hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccc
Confidence            44444443 488889999999988888  88999999999998889999999999998765 567888999999999999


Q ss_pred             ChhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHH
Q 004362          126 YFSQVHKVYMRMRNKG-IVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELF  204 (759)
Q Consensus       126 ~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  204 (759)
                      +++.|..+.-...+.. ...-...|..+.-.|...++...|...|+...+.+ |.|...|..+..+|..+|++..|+++|
T Consensus       541 ~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF  619 (1238)
T KOG1127|consen  541 TWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVF  619 (1238)
T ss_pred             cHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhh
Confidence            9999999855444322 01123344555666788899999999999999887 778999999999999999999999999


Q ss_pred             HHHHhCCCCCChhhHHHH--HHHHHhcCChhHHHHHHHHHhhCC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHH-
Q 004362          205 DEMLGMGISPDIATFNKL--IHTLCKKGNVRESEKLFNKVLKRG------VSPNLFTFNMFIQGLCRKGAISEAISLLD-  275 (759)
Q Consensus       205 ~~~~~~~~~~~~~~~~~l--~~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~-  275 (759)
                      .+....  .|+. +|...  ....+..|.+.++...+..++..-      ...-..++..+...+...|-..++...++ 
T Consensus       620 ~kAs~L--rP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~ek  696 (1238)
T KOG1127|consen  620 TKASLL--RPLS-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEK  696 (1238)
T ss_pred             hhhHhc--CcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence            998765  4433 23322  233456799999999988876531      11111222223333333333333333333 


Q ss_pred             ------HHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCCh---h---HHHHH
Q 004362          276 ------SLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMI---S---SADKI  343 (759)
Q Consensus       276 ------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~---~---~a~~~  343 (759)
                            -........+...|-.+.++|.          +|.... .+ .|+......+..-....+..   +   .+.+.
T Consensus       697 sie~f~~~l~h~~~~~~~~Wi~asdac~----------~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c  764 (1238)
T KOG1127|consen  697 SIESFIVSLIHSLQSDRLQWIVASDACY----------IFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYEC  764 (1238)
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHhHHHH----------HHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHH
Confidence                  3332222223333333332221          111111 00 11111111111111111111   1   01111


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHh--------cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHH
Q 004362          344 LNDAIFKGFVPDEFTYCSLINGLCQ--------DGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMN  415 (759)
Q Consensus       344 ~~~~~~~~~~~~~~~~~~l~~~~~~--------~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  415 (759)
                      +-...+  ...+..+|..++..|.+        ..+...|+.++.+.++..-. +...|+.|.-. ...|++.-+..-|-
T Consensus       765 ~~~hls--l~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~an-n~~~WnaLGVl-sg~gnva~aQHCfI  840 (1238)
T KOG1127|consen  765 GIAHLS--LAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCAN-NEGLWNALGVL-SGIGNVACAQHCFI  840 (1238)
T ss_pred             hhHHHH--HhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhc-cHHHHHHHHHh-hccchhhhhhhhhh
Confidence            111111  11234444444443333        11234567777776665433 56667666554 44466666666555


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH--HH--HCC
Q 004362          416 EMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNT--MW--SHG  491 (759)
Q Consensus       416 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~--~~--~~~  491 (759)
                      +-.... +-+..+|..+...+....+++.|...|....... +.+...|-.........|+.-++..+|.-  ..  ..|
T Consensus       841 ks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~g  918 (1238)
T KOG1127|consen  841 KSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEG  918 (1238)
T ss_pred             hhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhcccc
Confidence            444432 2345566666666777777777777777766552 22344443333334455666666666554  11  112


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---------cCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC--
Q 004362          492 VTPDVITYNSLLNGLCKAAKSEDVMETFKTMIE---------KRCVPNIITYSILGESLCKAHKITEAFNLLEEMENK--  560 (759)
Q Consensus       492 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--  560 (759)
                      --|+..-|..........|+.++-+...+.+-.         .+.+.....|...+......+.+..|.+...+.+..  
T Consensus       919 ka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe  998 (1238)
T KOG1127|consen  919 KAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLE  998 (1238)
T ss_pred             ccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            233433343333334455555544333322211         123334556666666666666666666665554421  


Q ss_pred             ---CCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCC
Q 004362          561 ---GLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG-CPPD  636 (759)
Q Consensus       561 ---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~  636 (759)
                         ....+...-..+.+.++..|.++.|...+......  .  +..+.. ..-...-.|+++++.+.|+++..-. -..|
T Consensus       999 ~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~e--v--dEdi~g-t~l~lFfkndf~~sl~~fe~aLsis~se~d 1073 (1238)
T KOG1127|consen  999 LKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWME--V--DEDIRG-TDLTLFFKNDFFSSLEFFEQALSISNSESD 1073 (1238)
T ss_pred             HHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchh--H--HHHHhh-hhHHHHHHhHHHHHHHHHHHHhhhcccccc
Confidence               11112222234445556666666655544333211  0  101100 0011133567777777777766321 1122


Q ss_pred             -HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHH---hcCcHHHHHHHHHHHHH---CCCCCchH
Q 004362          637 -NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIP-SLSTIGRVINCLC---VDHRVHEAVGFVHLMVQ---KGIVPEVV  708 (759)
Q Consensus       637 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~---~~g~~~~A~~~~~~~~~---~~~~p~~~  708 (759)
                       ......++.+....+..+.|...+-+...  +.| +..+...+...+.   ......-+.+-+.+...   ....|...
T Consensus      1074 ~vvLl~kva~~~g~~~~k~~A~~lLfe~~~--ls~~~~~sll~L~A~~ild~da~~ssaileel~kl~k~e~~~~~~~ll 1151 (1238)
T KOG1127|consen 1074 KVVLLCKVAVCMGLARQKNDAQFLLFEVKS--LSKVQASSLLPLPAVYILDADAHGSSAILEELEKLLKLEWFCWPPGLL 1151 (1238)
T ss_pred             hhhhhHHHHHHHhhcccchHHHHHHHHHHH--hCccchhhHHHHHHHHHHhhhhhhhHHHHHHHHHhhhhHHhccChhHH
Confidence             22334444455566666777766666655  333 3333333322221   11112222222222211   11222233


Q ss_pred             HHHHhccccccccchHHHHHHHhcCCCchHHHHHHH
Q 004362          709 NTIFEADKREVASPKIVVEDLLKKSHITYYAYELLF  744 (759)
Q Consensus       709 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  744 (759)
                      ...+-...|+-.-.++.+++.+-..|-....|.+|.
T Consensus      1152 ~e~i~~~~~r~~~vk~~~qr~~h~~P~~~~~WslL~ 1187 (1238)
T KOG1127|consen 1152 KELIYALQGRSVAVKKQIQRAVHSNPGDPALWSLLS 1187 (1238)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHhcCCCChHHHHHHH
Confidence            333334555555566667777777776666677666

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.64  E-value=6.1e-11  Score=120.50  Aligned_cols=654  Identities=15%  Similarity=0.115  Sum_probs=344.2

Q ss_pred             hhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcC-CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCC
Q 004362           31 KREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDV-DDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEP  109 (759)
Q Consensus        31 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  109 (759)
                      .+..|..|+..+|..++.-|+..|+.+.|. +|..+.... |.  +..++..+..+...+++.+.+.           .|
T Consensus        16 ~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv--~e~vf~~lv~sh~~And~Enpk-----------ep   81 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPV--REGVFRGLVASHKEANDAENPK-----------EP   81 (1088)
T ss_pred             HHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccc--cchhHHHHHhcccccccccCCC-----------CC
Confidence            345688899999999999999999999998 888777666 44  7778999999988899887765           57


Q ss_pred             CHHHHHHHHHHHHHcCChhH---HHHHHHHHHH----CCCC-CCHHHH-------------HHHHHHHHccCChhhHHHH
Q 004362          110 TVLSYNTIMNILVEYGYFSQ---VHKVYMRMRN----KGIV-PDVYTF-------------VIRIKSFCRTRRPHVALRL  168 (759)
Q Consensus       110 ~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~----~~~~-~~~~~~-------------~~l~~~~~~~~~~~~A~~~  168 (759)
                      .+.+|+.+..+|...|+...   +.+.+.....    .|+- |....+             ...+......|-.+.+.++
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             chhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            88899999999999998754   3332222221    1211 111111             1112222334455555666


Q ss_pred             HhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCC
Q 004362          169 LKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVS  248 (759)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  248 (759)
                      +..++...... +...  .+.-+.....  ...++........-.|++.+|..++....-.|+.+.|..++.+|.+.|++
T Consensus       162 l~~~Pvsa~~~-p~~v--fLrqnv~~nt--pvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfp  236 (1088)
T KOG4318|consen  162 LAKVPVSAWNA-PFQV--FLRQNVVDNT--PVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFP  236 (1088)
T ss_pred             HhhCCcccccc-hHHH--HHHHhccCCc--hHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCC
Confidence            65555432111 1111  2333322222  22233322222111578889999999888999999999999999999988


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHH
Q 004362          249 PNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVI  328 (759)
Q Consensus       249 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  328 (759)
                      .+...|..|+-+   .++...+..++..|...|+.|+..|+...+-.+..+|....+..        | .+....+.+-+
T Consensus       237 ir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e--------~-sq~~hg~tAav  304 (1088)
T KOG4318|consen  237 IRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEE--------G-SQLAHGFTAAV  304 (1088)
T ss_pred             cccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccc--------c-cchhhhhhHHH
Confidence            888877777655   77778888888888888999999998877776666555222211        1 11222222222


Q ss_pred             HHHHHcCChhHHHHHHHH------------HHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CC-CCHHh
Q 004362          329 DGYCKAGMISSADKILND------------AIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKG--LK-PSIVL  393 (759)
Q Consensus       329 ~~~~~~~~~~~a~~~~~~------------~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~-~~~~~  393 (759)
                      ..-+-.|  ..|.+.++.            ..-.|......+|...+. ...+|.-+...++-..+..--  .. .++..
T Consensus       305 rsaa~rg--~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a  381 (1088)
T KOG4318|consen  305 RSAACRG--LLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDA  381 (1088)
T ss_pred             HHHHhcc--cHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHH
Confidence            2222223  112221111            111122222222222222 222455455555444443211  01 12233


Q ss_pred             HHHHHHHHHhcC----------------------CHHHHHHHHHHHHhCCCCCCHH------------------------
Q 004362          394 YNTLIKGLSQQG----------------------LILQALQLMNEMSESGCCPDMW------------------------  427 (759)
Q Consensus       394 ~~~l~~~~~~~~----------------------~~~~a~~~~~~~~~~~~~~~~~------------------------  427 (759)
                      +..++.-|.+.-                      ......++....     .||..                        
T Consensus       382 ~~~~lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~l-----rkns~lr~lv~Lss~Eler~he~~~~~~h  456 (1088)
T KOG4318|consen  382 FGALLRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENL-----RKNSFLRQLVGLSSTELERSHEPWPLIAH  456 (1088)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHh-----CcchHHHHHhhhhHHHHhcccccchhhhh
Confidence            333333333211                      111111111111     12211                        


Q ss_pred             ----HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHH
Q 004362          428 ----TYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSH--GVTPDVITYNS  501 (759)
Q Consensus       428 ----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~  501 (759)
                          .-+.++-.|++.-+..+++..-+.....-   -...|..|+..+......+.|.....+....  .+..|..-+..
T Consensus       457 ~irdi~~ql~l~l~se~n~lK~l~~~ekye~~l---f~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~  533 (1088)
T KOG4318|consen  457 LIRDIANQLHLTLNSEYNKLKILCDEEKYEDLL---FAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTS  533 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHH
Confidence                11112222332222333332222222111   1245667777777777777777777766532  12234445666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCC-CC-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc
Q 004362          502 LLNGLCKAAKSEDVMETFKTMIEKRC-VP-NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS  579 (759)
Q Consensus       502 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  579 (759)
                      +.+...+.+...++..+++++.+.-. .| ...++..+.......|+.+...++++-+...|+..+    ..++....+.
T Consensus       534 l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~et----gPl~~vhLrk  609 (1088)
T KOG4318|consen  534 LQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSET----GPLWMVHLRK  609 (1088)
T ss_pred             HHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhhc----ccceEEEeec
Confidence            77777777777777777777766411 11 133455566666777777777777777776655432    2333444556


Q ss_pred             CChhhHHHHHHHHHHccCCCCchhhHHHHHHH---------------------HHhcCCHHHHHHHHHHH---HHcC---
Q 004362          580 GDLDGAYQLFRRMEDQYKISHTTATYNIMINA---------------------FSEKLNFYMAEKLFYEM---SEKG---  632 (759)
Q Consensus       580 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~---------------------~~~~g~~~~A~~~~~~~---~~~~---  632 (759)
                      ++...|.+.++.....+  .+.+.....+-++                     |.+.|++.+|-.+.+.=   .+.+   
T Consensus       610 dd~s~a~ea~e~~~qky--k~~P~~~e~lcrlv~ke~td~~qk~mDls~~iq~f~k~g~~~~a~di~etpG~r~r~~RDr  687 (1088)
T KOG4318|consen  610 DDQSAAQEAPEPEEQKY--KPYPKDLEGLCRLVYKETTDSPQKTMDLSIPIQKFEKLGSCVDAGDITETPGVRCRNGRDR  687 (1088)
T ss_pred             cchhhhhhcchHHHHHh--cCChHHHHHHHHHHHhhccccHHHHHhhcchhHHHHhcccccchhhccccCcccccCCCcc
Confidence            66666666666655542  2222222222222                     23334443333333210   0000   


Q ss_pred             ------CCC-C--------HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CcHHHHHHH
Q 004362          633 ------CPP-D--------NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVD---HRVHEAVGF  694 (759)
Q Consensus       633 ------~~p-~--------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~---g~~~~A~~~  694 (759)
                            +.| .        .....-|+..|.+.|+++.|..+|.++.   +.|+..+...+...+.+.   -+..++..-
T Consensus       688 ~~de~e~~~lEll~elt~~lg~~dRLL~sy~~~g~~erA~glwnK~Q---V~k~~~~l~~LAsIlr~~n~evdvPe~q~e  764 (1088)
T KOG4318|consen  688 DTDEGEIVPLELLLELTHELGKNDRLLQSYLEEGRIERASGLWNKDQ---VSKSPMKLFHLASILRRMNEEVDVPEIQAE  764 (1088)
T ss_pred             ccccCccccHHHHHHHHhHhHHHHHHHHHHHhhhHHHHHHhHHhhCc---CCcchHHHHHHHHHHHhhchhccchhHHHH
Confidence                  000 0        0012235567777788888888777765   456666666666666322   245555555


Q ss_pred             HHHHHHCC-CCCchHHH-----HHhccccccccchHHHHHHHhcCCC
Q 004362          695 VHLMVQKG-IVPEVVNT-----IFEADKREVASPKIVVEDLLKKSHI  735 (759)
Q Consensus       695 ~~~~~~~~-~~p~~~~~-----~~~~~~~~~~~a~~~~~~~~~~~~~  735 (759)
                      .++..... ..|..-+.     .+.......+-|+.++++..+..++
T Consensus       765 ~ekas~~~~~f~ttt~~~~~~a~~a~q~~qkkaAkk~f~r~eeq~~v  811 (1088)
T KOG4318|consen  765 TEKASELRTLFPTTTCYYEGYAFFATQTEQKKAAKKCFERLEEQLTV  811 (1088)
T ss_pred             HHHHHhcccccccchHhhhhhHHHHhhHHHHHHHHHHHHHHHHccCC
Confidence            55554421 12221111     1112333445677777777776444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.63  E-value=8.1e-11  Score=106.75  Aligned_cols=472  Identities=12%  Similarity=0.052  Sum_probs=251.0

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004362          190 GFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISE  269 (759)
Q Consensus       190 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  269 (759)
                      -+....++..|+.+++.-...+-.-...+-.-+...+.+.|++++|...+..+... -.++...+..|..++.-.|.+.+
T Consensus        31 dfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~Y~e  109 (557)
T KOG3785|consen   31 DFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQYIE  109 (557)
T ss_pred             HHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHHHHH
Confidence            34445566666666555443321111112222234445666666666666666553 23344445455555555666666


Q ss_pred             HHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHh
Q 004362          270 AISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIF  349 (759)
Q Consensus       270 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  349 (759)
                      |..+-...     +.++..-..|...-.+.++-++-..+-+.+.+.     ..--.++.........+.+|++++.+++.
T Consensus       110 A~~~~~ka-----~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~  179 (557)
T KOG3785|consen  110 AKSIAEKA-----PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQ  179 (557)
T ss_pred             HHHHHhhC-----CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            66655443     222223333334444555555554444444321     11112233333344456777777777665


Q ss_pred             CCCCCCcccHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 004362          350 KGFVPDEFTYC-SLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWT  428 (759)
Q Consensus       350 ~~~~~~~~~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  428 (759)
                      .+  |+-...+ .+.-+|.+..-++-+.++++-.+..-+. ++...|.......+.=+-..|..-...+...+...    
T Consensus       180 dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pd-StiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----  252 (557)
T KOG3785|consen  180 DN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPD-STIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----  252 (557)
T ss_pred             cC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCC-cHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----
Confidence            42  2222222 2334555666666666666665554222 44444544443333322233334444444332111    


Q ss_pred             HHHHHHHHHh-----cCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004362          429 YNIVINGLCK-----MGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLL  503 (759)
Q Consensus       429 ~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~  503 (759)
                      |- .+.-.++     ..+-+.|++++--+.+.  .|  ..-..|+-.|.++++..+|..+.+++.-.    ++.-|-.-.
T Consensus       253 ~~-f~~~l~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~Pt----tP~EyilKg  323 (557)
T KOG3785|consen  253 YP-FIEYLCRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDPT----TPYEYILKG  323 (557)
T ss_pred             ch-hHHHHHHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCCC----ChHHHHHHH
Confidence            11 1112222     23445666666655543  22  22334555677888888888777665421    222222222


Q ss_pred             HHHHhcCC-------HHHHHHHHHHHHHcCCCC-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHH
Q 004362          504 NGLCKAAK-------SEDVMETFKTMIEKRCVP-NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLING  575 (759)
Q Consensus       504 ~~~~~~~~-------~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  575 (759)
                      ..++..|+       ..-|.+.|+-.-..+..- +..--..+...+.-..++++.+..++.+... +..|......++.+
T Consensus       324 vv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQA  402 (557)
T KOG3785|consen  324 VVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQA  402 (557)
T ss_pred             HHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHH
Confidence            22333332       334455554443333222 2334456666667777888888888888776 33344444567788


Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhH-HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHH-HHHHHhcCCh
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATY-NIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIM-IDSFCKTGGI  653 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l-~~~~~~~g~~  653 (759)
                      ++..|++.+|.++|-++...  .-.+..+| ..++++|.+.|..+-|+.++-++.   -+.+..+...+ ..-|.+.+.+
T Consensus       403 k~atgny~eaEelf~~is~~--~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~---t~~e~fsLLqlIAn~CYk~~eF  477 (557)
T KOG3785|consen  403 KLATGNYVEAEELFIRISGP--EIKNKILYKSMLARCYIRNKKPQLAWDMMLKTN---TPSERFSLLQLIANDCYKANEF  477 (557)
T ss_pred             HHHhcChHHHHHHHhhhcCh--hhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcC---CchhHHHHHHHHHHHHHHHHHH
Confidence            88999999999999777543  22244444 456789999999999988876653   23344444444 4688899998


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCC
Q 004362          654 NSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVP  705 (759)
Q Consensus       654 ~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  705 (759)
                      =-|-+.|..+-.  ++|+++.|.         |+...-..+|+.+....-+|
T Consensus       478 yyaaKAFd~lE~--lDP~pEnWe---------GKRGACaG~f~~l~~~~~~~  518 (557)
T KOG3785|consen  478 YYAAKAFDELEI--LDPTPENWE---------GKRGACAGLFRQLANHKTDP  518 (557)
T ss_pred             HHHHHhhhHHHc--cCCCccccC---------CccchHHHHHHHHHcCCCCC
Confidence            888888888877  788877663         34444445565555433333

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.63  E-value=1.7e-12  Score=116.16  Aligned_cols=304  Identities=15%  Similarity=0.096  Sum_probs=198.1

Q ss_pred             CCCHHHHHHHH-hcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccH--HHHH
Q 004362            4 SVLPKHVAAVV-KHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLE--GVHI   80 (759)
Q Consensus         4 ~l~~~~~~~~l-~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~--~~~~   80 (759)
                      .|+..-+..+. .....+++|++.|-.+.+.++  ....+-..+++.+-+.|..+.|+.+++.+..+..-+...  -+..
T Consensus        34 ~lsr~Yv~GlNfLLs~Q~dKAvdlF~e~l~~d~--~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~  111 (389)
T COG2956          34 RLSRDYVKGLNFLLSNQPDKAVDLFLEMLQEDP--ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQ  111 (389)
T ss_pred             hccHHHHhHHHHHhhcCcchHHHHHHHHHhcCc--hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHH
Confidence            34444455553 245677888888888776532  234455567777778888888888888777665332222  2455


Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHH
Q 004362           81 GVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDV----YTFVIRIKSF  156 (759)
Q Consensus        81 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~  156 (759)
                      .+++-|...|-+|.|..+|..+.+.+ .--..+...++.+|-..++|++|+++-+++.+.+-.+..    ..|.-+...+
T Consensus       112 qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~  190 (389)
T COG2956         112 QLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQA  190 (389)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHH
Confidence            67888888888888888888777533 334456777888888888888888888888776543331    2244445555


Q ss_pred             HccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 004362          157 CRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESE  236 (759)
Q Consensus       157 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  236 (759)
                      ....+.+.|..++.+..+.+ +..+.+--.+.......|+++.|++.++.+.+.++.--+.+...|..+|.+.|+.++..
T Consensus       191 ~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~  269 (389)
T COG2956         191 LASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGL  269 (389)
T ss_pred             hhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHH
Confidence            55677777888888777765 44445555566677778888888888888877654444556677778888888888888


Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHh---CCChHHHHHHHHHHH
Q 004362          237 KLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCK---NSKVVEAEYYLHKMV  313 (759)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~  313 (759)
                      ..+..+.+...  ....-..+........-.+.|...+.+-...  .|+...+..++.....   .|...+.+..+++|.
T Consensus       270 ~fL~~~~~~~~--g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mv  345 (389)
T COG2956         270 NFLRRAMETNT--GADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMV  345 (389)
T ss_pred             HHHHHHHHccC--CccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHH
Confidence            88877776533  3333344444444444555666555554444  6777777777766543   344566666666665


Q ss_pred             HC
Q 004362          314 NE  315 (759)
Q Consensus       314 ~~  315 (759)
                      ..
T Consensus       346 ge  347 (389)
T COG2956         346 GE  347 (389)
T ss_pred             HH
Confidence            43

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.63  E-value=1.4e-09  Score=107.22  Aligned_cols=467  Identities=14%  Similarity=0.139  Sum_probs=293.4

Q ss_pred             CCHHHHHH---HHh--cCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHH
Q 004362            5 VLPKHVAA---VVK--HQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVH   79 (759)
Q Consensus         5 l~~~~~~~---~l~--~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~   79 (759)
                      |+|.+.+-   ++.  ..+.+...+++-+.+++..+-.+  .+....+-.|...|+-++|..........++.  +...|
T Consensus         3 l~~KE~~lF~~~lk~yE~kQYkkgLK~~~~iL~k~~eHg--eslAmkGL~L~~lg~~~ea~~~vr~glr~d~~--S~vCw   78 (700)
T KOG1156|consen    3 LSPKENALFRRALKCYETKQYKKGLKLIKQILKKFPEHG--ESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK--SHVCW   78 (700)
T ss_pred             CChHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhCCccc--hhHHhccchhhcccchHHHHHHHHHHhccCcc--cchhH
Confidence            66766443   333  45788999999999888655444  44455566677889999999999999988877  78899


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 004362           80 IGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRT  159 (759)
Q Consensus        80 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  159 (759)
                      +.++-.+....++++|+++|..+...+ +.|...|.-+.-.-.+.|+++..........+.. +.....|..+..++.-.
T Consensus        79 Hv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~  156 (700)
T KOG1156|consen   79 HVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLL  156 (700)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHH
Confidence            999999999999999999999998665 5666777777666778888988888888888753 22355688888888899


Q ss_pred             CChhhHHHHHhhchhCC-CCCCHHhHHHHHH------HHHhcCChhHHHHHHHHHHhCCCCCChhhH-HHHHHHHHhcCC
Q 004362          160 RRPHVALRLLKNMPSQG-FEPNAVAYCTLIA------GFYEENHNVEAYELFDEMLGMGISPDIATF-NKLIHTLCKKGN  231 (759)
Q Consensus       160 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~  231 (759)
                      |++..|..++++..+.. -.|+...+.-...      .....|.++.|.+.+..-...  ..|-..+ ..-...+.+.++
T Consensus       157 g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~  234 (700)
T KOG1156|consen  157 GEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQ  234 (700)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhh
Confidence            99999999999887763 2466655544333      345567777777766654332  1232222 334567788999


Q ss_pred             hhHHHHHHHHHhhCCCCCCHHHHH-HHHHHHHhcCCHHHHH-HHHHHHhhCCCCCCcch-HHHHHHHHHhCCChHHHHHH
Q 004362          232 VRESEKLFNKVLKRGVSPNLFTFN-MFIQGLCRKGAISEAI-SLLDSLGREDLTPDVVT-YNTLMCGLCKNSKVVEAEYY  308 (759)
Q Consensus       232 ~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~-~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~  308 (759)
                      +++|..++..++..  .||...|. .+..++.+.-+.-++. .+|......  .|.... -..=+.......-.+....+
T Consensus       235 lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdky  310 (700)
T KOG1156|consen  235 LEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKY  310 (700)
T ss_pred             HHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHH
Confidence            99999999999887  45555444 4445554333333333 566655433  221111 11111222122233445556


Q ss_pred             HHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHh----CC----------CCCCcccH--HHHHHHHHhcCCH
Q 004362          309 LHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIF----KG----------FVPDEFTY--CSLINGLCQDGDV  372 (759)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~----------~~~~~~~~--~~l~~~~~~~~~~  372 (759)
                      +..+.+.|+++   ++..+...|-.....+-..++...+..    .|          -+|.+..|  .-++..+-+.|++
T Consensus       311 L~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~  387 (700)
T KOG1156|consen  311 LRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDY  387 (700)
T ss_pred             HHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccH
Confidence            67777777665   333333333222222211222222111    11          13333333  3456677788888


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 004362          373 DRAMAVYVKALEKGLKPS-IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVND  451 (759)
Q Consensus       373 ~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  451 (759)
                      +.|..+++.++..  .|+ +..|-.=.+.+...|.+++|..++++..+.+ .+|...-.--..-..+.++.++|..+...
T Consensus       388 ~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~sk  464 (700)
T KOG1156|consen  388 EVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSK  464 (700)
T ss_pred             HHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHH
Confidence            8888888888775  233 2234344567778888888888888888764 33544433445556678888888888887


Q ss_pred             HHHCCCC--CC---H-hhHH--HHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          452 AISKGYI--PD---I-FTFN--TLIDGYCKQLKMEIAIEILNTMWS  489 (759)
Q Consensus       452 ~~~~~~~--~~---~-~~~~--~l~~~~~~~~~~~~A~~~~~~~~~  489 (759)
                      ..+.|..  .+   . -+|-  .-..+|.+.|++..|++=|..+.+
T Consensus       465 FTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  465 FTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             hhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            7766531  01   0 1111  123456677777777666655544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.62  E-value=8.8e-11  Score=106.53  Aligned_cols=198  Identities=11%  Similarity=0.098  Sum_probs=137.4

Q ss_pred             HHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCCh
Q 004362           48 DKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYF  127 (759)
Q Consensus        48 ~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  127 (759)
                      .-+...+++..|+.+++.....+.. -..++-.+++.++.+.|++++|...+..+.... .++...+..+.-++.-.|.+
T Consensus        30 edfls~rDytGAislLefk~~~~~E-EE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   30 EDFLSNRDYTGAISLLEFKLNLDRE-EEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHhcccchhHHHHHHHhhccchh-hhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            3345778999999999887755533 123566788999999999999999999887644 56777788888888889999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHH
Q 004362          128 SQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEM  207 (759)
Q Consensus       128 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  207 (759)
                      .+|..+-....+     ++-.-..+.+...+.++-++-..+.+.+...     ..--.++.+.....-.+++|+++|.++
T Consensus       108 ~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            999888766543     3444455666667778777777666665432     344456666666666889999999999


Q ss_pred             HhCCCCCChhhHHHHH-HHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 004362          208 LGMGISPDIATFNKLI-HTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQG  260 (759)
Q Consensus       208 ~~~~~~~~~~~~~~l~-~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  260 (759)
                      +..  .|+-...+.-+ -.|.+..-++-+.+++.-.++. ++.++...|..+..
T Consensus       178 L~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn  228 (557)
T KOG3785|consen  178 LQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACN  228 (557)
T ss_pred             Hhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHH
Confidence            876  34544455444 3455677777788888777765 33344444444433

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.61  E-value=9.7e-12  Score=115.21  Aligned_cols=286  Identities=14%  Similarity=0.081  Sum_probs=174.2

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 004362          369 DGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNL  448 (759)
Q Consensus       369 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  448 (759)
                      .|++..|++...+..+.+.. ....|..-..+--+.|+.+.+-.++.+.-+..-.++.....+..+.....|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            45555555555554444333 22333333444445555566655555555542233444444445555556666666655


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          449 VNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDV-------ITYNSLLNGLCKAAKSEDVMETFKT  521 (759)
Q Consensus       449 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~  521 (759)
                      ..++.+.+ +..+........+|.+.|++.....++..+.+.+.-.+.       .+|+.++.-....+..+.-...|+.
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            55555543 334455555556666666666666666666665544332       2455555544444444554556666


Q ss_pred             HHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc
Q 004362          522 MIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT  601 (759)
Q Consensus       522 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  601 (759)
                      .... .+-++.....++.-+.+.|+.++|.++.++..+.+..+.   ...+ -.+.+-++.+.-++..+...+.  .|++
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~~-~~~l~~~d~~~l~k~~e~~l~~--h~~~  327 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCRL-IPRLRPGDPEPLIKAAEKWLKQ--HPED  327 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHHH-HhhcCCCCchHHHHHHHHHHHh--CCCC
Confidence            5544 344566667777777888888888888888877655544   1222 2345667777777777777777  6777


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          602 TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       602 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +..+.+++..|.+++.|.+|.+.|+...+.  .|+..+|..++.++.+.|+..+|....++++.
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            777777888888888888888888777743  67777777788888888888877777777664

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.61  E-value=7.7e-09  Score=102.16  Aligned_cols=464  Identities=13%  Similarity=0.087  Sum_probs=303.6

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHH
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNIL  121 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  121 (759)
                      .|..++..| ..+++..-.+..+.+++..|.  ..+.....+-.+...|+-++|........... ..+.++|+.++-.+
T Consensus        10 lF~~~lk~y-E~kQYkkgLK~~~~iL~k~~e--HgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~   85 (700)
T KOG1156|consen   10 LFRRALKCY-ETKQYKKGLKLIKQILKKFPE--HGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQ   85 (700)
T ss_pred             HHHHHHHHH-HHHHHHhHHHHHHHHHHhCCc--cchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHH
Confidence            445555544 667888889999999998887  67778878888889999999999998877544 56778999999888


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHH
Q 004362          122 VEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAY  201 (759)
Q Consensus       122 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  201 (759)
                      -..+++++|+++|......+ +.|...+.-+.-.-++.|+++.....-.+..+.. +.....|...+.+..-.|++..|.
T Consensus        86 R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   86 RSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             hhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHH
Confidence            88999999999999999865 3467788877777788899988887777777654 455678899999999999999999


Q ss_pred             HHHHHHHhCCC-CCChhhHHHHH------HHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004362          202 ELFDEMLGMGI-SPDIATFNKLI------HTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLL  274 (759)
Q Consensus       202 ~~~~~~~~~~~-~~~~~~~~~l~------~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  274 (759)
                      .+.++..+... .|+...+....      ....+.|.++.|.+.+...... +......-..-...+.+.+++++|..++
T Consensus       164 ~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            99999887642 45655544332      3445678888888887765443 2212223334556788999999999999


Q ss_pred             HHHhhCCCCCCcchHHHHHHHHH-hCCChHHHH-HHHHHHHHCCCCCChhcHHHH-HHHHHHcCChhHHHHHHHHHHhCC
Q 004362          275 DSLGREDLTPDVVTYNTLMCGLC-KNSKVVEAE-YYLHKMVNEGLEPDGFSYNAV-IDGYCKAGMISSADKILNDAIFKG  351 (759)
Q Consensus       275 ~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~  351 (759)
                      ..+...  .||...|......+. +-.+..++. .+|....+.  .|....-..+ +....-..-.+....++....+.|
T Consensus       243 ~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg  318 (700)
T KOG1156|consen  243 RRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKG  318 (700)
T ss_pred             HHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhcC
Confidence            999877  677777666554443 343444444 566665543  1111111111 111111112233445556666666


Q ss_pred             CCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHH----cC----------CCCCHHhHH--HHHHHHHhcCCHHHHHHHHH
Q 004362          352 FVPDEFTYCSLINGLCQDGDVDRAMAVYVKALE----KG----------LKPSIVLYN--TLIKGLSQQGLILQALQLMN  415 (759)
Q Consensus       352 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~----------~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~  415 (759)
                      +++   ++..+...|-.....+-..++.-.+..    .|          -+|....|+  .++..|-..|+++.|...++
T Consensus       319 ~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId  395 (700)
T KOG1156|consen  319 VPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYID  395 (700)
T ss_pred             CCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            543   333344333222111111111111111    00          134444443  45667778899999999999


Q ss_pred             HHHhCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 004362          416 EMSESGCCPDMW-TYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTP  494 (759)
Q Consensus       416 ~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  494 (759)
                      .....  .|+.+ .|..-.+.+...|+++.|..++++..+.. .+|...-.....-..+.++.++|.++.......|.  
T Consensus       396 ~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~--  470 (700)
T KOG1156|consen  396 LAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF--  470 (700)
T ss_pred             HHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc--
Confidence            88875  45543 45555677888999999999999888764 44555555666677788899999998888877653  


Q ss_pred             CHH--------HHHHH--HHHHHhcCCHHHHHHHHHHHHH
Q 004362          495 DVI--------TYNSL--LNGLCKAAKSEDVMETFKTMIE  524 (759)
Q Consensus       495 ~~~--------~~~~l--~~~~~~~~~~~~a~~~~~~~~~  524 (759)
                      +..        .|-.+  ..+|.+.|++..|++-|....+
T Consensus       471 ~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  471 GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            221        22222  3356666677777666655543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.59  E-value=2.4e-09  Score=110.55  Aligned_cols=653  Identities=9%  Similarity=-0.023  Sum_probs=340.6

Q ss_pred             CChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHH
Q 004362           18 KNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVD   97 (759)
Q Consensus        18 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~   97 (759)
                      .+...|+..|=...+..+.  -...|..++.+|...-+...|.+.|+.+...++.  +..........|+...+++.|..
T Consensus       472 K~~~~al~ali~alrld~~--~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat--daeaaaa~adtyae~~~we~a~~  547 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLDVS--LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT--DAEAAAASADTYAEESTWEEAFE  547 (1238)
T ss_pred             hhHHHHHHHHHHHHhcccc--hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch--hhhhHHHHHHHhhccccHHHHHH
Confidence            3467778877777766432  3457788999998888999999999999999987  88888999999999999999998


Q ss_pred             HHHHhhhCCC-CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCC
Q 004362           98 VFERMDFYNC-EPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQG  176 (759)
Q Consensus        98 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  176 (759)
                      +.-+..+... ..-...|..++-.|.+.+++..|+..|+...+.. +-|...|..++.+|...|++..|.++|.+....+
T Consensus       548 I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr  626 (1238)
T KOG1127|consen  548 ICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLR  626 (1238)
T ss_pred             HHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC
Confidence            8544432210 1112345556667888999999999999998865 3478899999999999999999999999887765


Q ss_pred             CCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC------CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhh------
Q 004362          177 FEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMG------ISPDIATFNKLIHTLCKKGNVRESEKLFNKVLK------  244 (759)
Q Consensus       177 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~------  244 (759)
                       |.+...---....-+..|.+.++++.+......-      ...-..++..+...+...|-...+..+++..++      
T Consensus       627 -P~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l  705 (1238)
T KOG1127|consen  627 -PLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSL  705 (1238)
T ss_pred             -cHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence             3333333334445567899999999888876431      111122333333334444444444444443332      


Q ss_pred             -CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCCh---H---HHHHHHHHHHHCCC
Q 004362          245 -RGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKV---V---EAEYYLHKMVNEGL  317 (759)
Q Consensus       245 -~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~---~a~~~~~~~~~~~~  317 (759)
                       .....+...|..+-.+          ..+|-... .+ .|+......+..-.-..+..   +   -+.+.+-.-..  .
T Consensus       706 ~h~~~~~~~~Wi~asda----------c~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l  771 (1238)
T KOG1127|consen  706 IHSLQSDRLQWIVASDA----------CYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--L  771 (1238)
T ss_pred             HHhhhhhHHHHHHHhHH----------HHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--H
Confidence             2212233333322222          22222221 00 11111111111101111111   1   01111111111  1


Q ss_pred             CCChhcHHHHHHHHHH------c--CChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004362          318 EPDGFSYNAVIDGYCK------A--GMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKP  389 (759)
Q Consensus       318 ~~~~~~~~~ll~~~~~------~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  389 (759)
                      ..+..+|..++..|.+      .  .+...|+..+...++.. ..+..+|+.|.-. ...|.+.-|.-+|-+.+...+. 
T Consensus       772 ~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~-  848 (1238)
T KOG1127|consen  772 AIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPT-  848 (1238)
T ss_pred             hhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhcccc-
Confidence            1123444444444433      1  12234555555555432 1133444444433 5556666666666666655444 


Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH--H--CCCCCCHhhHH
Q 004362          390 SIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAI--S--KGYIPDIFTFN  465 (759)
Q Consensus       390 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~--~~~~~~~~~~~  465 (759)
                      ...+|..+...+.+..+++.|...|...+... +.|...|..........|+.-+...+|..-.  .  .|-.++..-|.
T Consensus       849 ~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~  927 (1238)
T KOG1127|consen  849 CHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWL  927 (1238)
T ss_pred             chhheeccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHH
Confidence            55666666666677777777777777666542 2244455444444445566666666655411  1  12223333333


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC---------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCChhcHH
Q 004362          466 TLIDGYCKQLKMEIAIEILNTMWSH---------GVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEK-RCVPNIITYS  535 (759)
Q Consensus       466 ~l~~~~~~~~~~~~A~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~  535 (759)
                      .........|+.++-+...+++...         +.+.+...|...+...-..+.+.+|.+...+++.. ...-+...++
T Consensus       928 c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqyn 1007 (1238)
T KOG1127|consen  928 CATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYN 1007 (1238)
T ss_pred             HHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            3333344455544433333222211         23334556666666666666666666666554421 0011222222


Q ss_pred             ----HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc-hhhHHHHHH
Q 004362          536 ----ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT-TATYNIMIN  610 (759)
Q Consensus       536 ----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~  610 (759)
                          ..+..+...|.++.|..-+.....   ..+..+...-+.. .-.|+++++.+.|+++...-....+ ......++.
T Consensus      1008 vak~~~gRL~lslgefe~A~~a~~~~~~---evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~ 1083 (1238)
T KOG1127|consen 1008 VAKPDAGRLELSLGEFESAKKASWKEWM---EVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAV 1083 (1238)
T ss_pred             hhhhhhhhhhhhhcchhhHhhhhcccch---hHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHH
Confidence                333444455555544433222111   1111111111111 2246777777777777655333323 233344455


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH--HHHHHHH-HhcCc
Q 004362          611 AFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI--GRVINCL-CVDHR  687 (759)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~--~~l~~~~-~~~g~  687 (759)
                      +....+.-+.|..++-+..... +|+......|...+.-..+-.....+.++..+. +......+  -.+...+ .+.|+
T Consensus      1084 ~~g~~~~k~~A~~lLfe~~~ls-~~~~~sll~L~A~~ild~da~~ssaileel~kl-~k~e~~~~~~~ll~e~i~~~~~r 1161 (1238)
T KOG1127|consen 1084 CMGLARQKNDAQFLLFEVKSLS-KVQASSLLPLPAVYILDADAHGSSAILEELEKL-LKLEWFCWPPGLLKELIYALQGR 1161 (1238)
T ss_pred             HHhhcccchHHHHHHHHHHHhC-ccchhhHHHHHHHHHHhhhhhhhHHHHHHHHHh-hhhHHhccChhHHHHHHHHHhhh
Confidence            5556666666666665555442 555555555555444444444444444444331 00011111  1222333 45666


Q ss_pred             HHHHHHHHHHHHH
Q 004362          688 VHEAVGFVHLMVQ  700 (759)
Q Consensus       688 ~~~A~~~~~~~~~  700 (759)
                      -.-..+++++..-
T Consensus      1162 ~~~vk~~~qr~~h 1174 (1238)
T KOG1127|consen 1162 SVAVKKQIQRAVH 1174 (1238)
T ss_pred             hHHHHHHHHHHHh
Confidence            6666666766653

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.59  E-value=6.5e-11  Score=120.28  Aligned_cols=272  Identities=15%  Similarity=0.170  Sum_probs=149.9

Q ss_pred             HHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCC
Q 004362           98 VFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGF  177 (759)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  177 (759)
                      ++..+...|+.|+.++|..+|..|+..|+.+.|- +|.-|.-.+.+.+...++.++......++.+.+.           
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------
Confidence            4455566777888888888888888888888777 7777776666667777788877777777666554           


Q ss_pred             CCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHh-hCCCCCCHHHHHH
Q 004362          178 EPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVL-KRGVSPNLFTFNM  256 (759)
Q Consensus       178 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~  256 (759)
                      .|...+|..|...|...||...    |+...+        ....+...+...|.-.....++..+. ..+.-||..   .
T Consensus        80 ep~aDtyt~Ll~ayr~hGDli~----fe~veq--------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n  144 (1088)
T KOG4318|consen   80 EPLADTYTNLLKAYRIHGDLIL----FEVVEQ--------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---N  144 (1088)
T ss_pred             CCchhHHHHHHHHHHhccchHH----HHHHHH--------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---H
Confidence            3667788888888888887655    222211        01122233333333333333332211 111222322   2


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHh-CCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcC
Q 004362          257 FIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCK-NSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAG  335 (759)
Q Consensus       257 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  335 (759)
                      .+....-.|-++.+++++..++......   .....++-+.. +..+++-....+....   .|++.+|..++......|
T Consensus       145 ~illlv~eglwaqllkll~~~Pvsa~~~---p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag  218 (1088)
T KOG4318|consen  145 AILLLVLEGLWAQLLKLLAKVPVSAWNA---PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAG  218 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHhhCCcccccc---hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcC
Confidence            2333334455555555555544221000   00011222221 1222222222222222   456666666666666667


Q ss_pred             ChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC
Q 004362          336 MISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQG  405 (759)
Q Consensus       336 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  405 (759)
                      +.+.|..++..|...|++.+..-|..|+.+   .++..-+..+++-|.+.|+.|+..|+...+-.+..+|
T Consensus       219 ~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~  285 (1088)
T KOG4318|consen  219 DVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNG  285 (1088)
T ss_pred             chhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcch
Confidence            777777777777766666666655555544   5566666666666666666666666666555555533

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.59  E-value=1e-11  Score=111.35  Aligned_cols=244  Identities=13%  Similarity=0.136  Sum_probs=128.2

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHhcCCHH
Q 004362          440 GCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDV------ITYNSLLNGLCKAAKSE  513 (759)
Q Consensus       440 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~  513 (759)
                      ++.++|...|-+|.+.. +.+..+.-+|.+.|.+.|..+.|+.+.+.+.+.   ||.      .....|..-|...|-+|
T Consensus        49 ~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          49 NQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             cCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            44455555555554432 223333444555555555555555555555442   221      12233444455555555


Q ss_pred             HHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccH----HHHHHHHHHHHccCChhhHHHHH
Q 004362          514 DVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDT----VAFGTLINGFCNSGDLDGAYQLF  589 (759)
Q Consensus       514 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~  589 (759)
                      .|..+|..+.+.+ ..-......++..|-...+|++|+++-+++.+.+-.+..    ..|..+...+....+.+.|...+
T Consensus       125 RAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         125 RAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            5555555555432 112334455555555566666666666555554322211    12344444555556666666666


Q ss_pred             HHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 004362          590 RRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKG  667 (759)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  667 (759)
                      +++.+.  .|....+-..+++++...|+++.|++.++...+.  .|+  +.+...|..+|...|+.++++..+.++.+  
T Consensus       204 ~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ--n~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~--  277 (389)
T COG2956         204 KKALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQ--NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME--  277 (389)
T ss_pred             HHHHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHh--ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--
Confidence            666666  5556666666666666666777666666666655  344  45566666666667777777777666666  


Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHHHH
Q 004362          668 FIPSLSTIGRVINCLCVDHRVHEAVGF  694 (759)
Q Consensus       668 ~~p~~~~~~~l~~~~~~~g~~~~A~~~  694 (759)
                      ..+.......+........-.+.|..+
T Consensus       278 ~~~g~~~~l~l~~lie~~~G~~~Aq~~  304 (389)
T COG2956         278 TNTGADAELMLADLIELQEGIDAAQAY  304 (389)
T ss_pred             ccCCccHHHHHHHHHHHhhChHHHHHH
Confidence            344444444444444333333344443

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.56  E-value=4.4e-11  Score=110.97  Aligned_cols=287  Identities=12%  Similarity=-0.011  Sum_probs=232.5

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 004362          403 QQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIE  482 (759)
Q Consensus       403 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  482 (759)
                      ..|++.+|.+++.+..+.+-. ....|..-.++-...|+.+.+-.++.++.+....++....-.........|+++.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            369999999999998777543 3445666667778899999999999999887446667777788888999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh-------cHHHHHHHHHhcCCHHHHHHHHH
Q 004362          483 ILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNII-------TYSILGESLCKAHKITEAFNLLE  555 (759)
Q Consensus       483 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~  555 (759)
                      -+.++...+. .+.........+|.+.|++.+...+...+.+.+.-.+..       ++..+++-....+..+.-...++
T Consensus       175 ~v~~ll~~~p-r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMTP-RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhCc-CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            9999998753 367788889999999999999999999999987655544       45566666666666666677787


Q ss_pred             HHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004362          556 EMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP  635 (759)
Q Consensus       556 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  635 (759)
                      ...++ .+.++..-.+++.-+.++|+.++|.++.+...+....|.     ....-....-++...-++..++-.+. .+.
T Consensus       254 ~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~-----L~~~~~~l~~~d~~~l~k~~e~~l~~-h~~  326 (400)
T COG3071         254 NQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR-----LCRLIPRLRPGDPEPLIKAAEKWLKQ-HPE  326 (400)
T ss_pred             hccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh-----HHHHHhhcCCCCchHHHHHHHHHHHh-CCC
Confidence            77665 556777888899999999999999999999988743332     12222344567777777777777665 244


Q ss_pred             CHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          636 DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       636 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ++..+.+|+..|.+.+.|.+|..+|+.+++  ..|+..++..+..++.+.|+..+|...+++...
T Consensus       327 ~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         327 DPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             ChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            578999999999999999999999999999  889999999999999999999999999998764

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.51  E-value=9.9e-10  Score=102.02  Aligned_cols=271  Identities=10%  Similarity=0.045  Sum_probs=182.7

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 004362          423 CPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDI-FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNS  501 (759)
Q Consensus       423 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  501 (759)
                      +-|......+...+...|+..+|...|+.....  .|+. .......-.+.+.|+.+....+...+.... ......|-.
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV  305 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFV  305 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhh
Confidence            445556666777777777777777777766544  2221 122222233456677777666666665531 122333433


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCC
Q 004362          502 LLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGD  581 (759)
Q Consensus       502 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  581 (759)
                      -+......++++.|+.+-++.++.+ +-+...+..-+..+...|++++|.-.|+.+... -|-+..+|..++..|...|.
T Consensus       306 ~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L-ap~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  306 HAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQML-APYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhc-chhhHHHHHHHHHHHHhhch
Confidence            3444455667777777777777654 225556666677777888888888888887765 34567788888888888888


Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHH-HHHH-hcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMI-NAFS-EKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYC  658 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~  658 (759)
                      +.+|.-+-......  .|.+..+...++ .++. ...--++|.+++++.+.  +.|+ ....+.+...|...|.+++++.
T Consensus       384 ~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  384 FKEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             HHHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHH
Confidence            88888877777776  566666666664 3333 33345778888887773  4677 6667777778888888888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          659 LLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       659 ~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      ++++.+.  ..||...-..+...+...+.+.+|.+.|..+++  ++|.
T Consensus       460 LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~  503 (564)
T KOG1174|consen  460 LLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPK  503 (564)
T ss_pred             HHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCcc
Confidence            8888887  677777777788888888888888888888877  5564

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.50  E-value=2.5e-09  Score=99.44  Aligned_cols=312  Identities=13%  Similarity=-0.021  Sum_probs=226.1

Q ss_pred             CCCcccHHHHHHHHHh--cCCHHHHHHHHHHHHH-cCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-H
Q 004362          353 VPDEFTYCSLINGLCQ--DGDVDRAMAVYVKALE-KGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMW-T  428 (759)
Q Consensus       353 ~~~~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~  428 (759)
                      +|........+.+++.  .++-..|...+-.+.. .-++.++.....+...+...|+.++|...|++....  .|+.. .
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~  268 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEA  268 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--Chhhhhh
Confidence            3333344444444433  3343444444333322 234557788888999999999999999999988765  23322 2


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004362          429 YNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCK  508 (759)
Q Consensus       429 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  508 (759)
                      .....-.+.+.|+.+....+...+.... ..+...|..-+......++++.|+.+-++.++.+. .+...+-.-...+.+
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~  346 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIA  346 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHh
Confidence            2333344567888888888887776542 23344444444555677889999999988887532 244455555567788


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHH-HHHH-ccCChhhHH
Q 004362          509 AAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLI-NGFC-NSGDLDGAY  586 (759)
Q Consensus       509 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~  586 (759)
                      .|++++|.-.|+..+... +-+...|..++.+|...|++.+|...-+...+. ++.+..++..+. ..+. ...--++|.
T Consensus       347 ~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAK  424 (564)
T KOG1174|consen  347 LERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAK  424 (564)
T ss_pred             ccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHH
Confidence            999999999999988753 346789999999999999999999888888775 555666554442 2222 223367899


Q ss_pred             HHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 004362          587 QLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDK  666 (759)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  666 (759)
                      ++++.....  .|.-..+.+.++..+...|+...++.++++.+..  .||....+.|+..+...+.+++|...|..++. 
T Consensus       425 kf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr-  499 (564)
T KOG1174|consen  425 KFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR-  499 (564)
T ss_pred             HHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh-
Confidence            999999988  8888888999999999999999999999998854  79999999999999999999999999999999 


Q ss_pred             CCCCCHHHHH
Q 004362          667 GFIPSLSTIG  676 (759)
Q Consensus       667 g~~p~~~~~~  676 (759)
                       ++|++....
T Consensus       500 -~dP~~~~sl  508 (564)
T KOG1174|consen  500 -QDPKSKRTL  508 (564)
T ss_pred             -cCccchHHH
Confidence             889866443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.50  E-value=4e-12  Score=113.78  Aligned_cols=232  Identities=9%  Similarity=0.032  Sum_probs=151.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhc
Q 004362          465 NTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKA  544 (759)
Q Consensus       465 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  544 (759)
                      +.+..+|.+.|-+.+|.+.++..+..  .|-+.||..|-.+|.+..+++.|+.++.+-++. .+-+......+...+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            45666777777777777777766664  355566666777777777777777777776665 233444445556666667


Q ss_pred             CCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHH
Q 004362          545 HKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKL  624 (759)
Q Consensus       545 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  624 (759)
                      ++.++|.++|+...+. .+.+.+....+...|.-.++.+-|..+|+++...+  -.++..|++++-++...++++-++.-
T Consensus       304 ~~~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG--~~speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMG--AQSPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HhHHHHHHHHHHHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHhc--CCChHHHhhHHHHHHhhcchhhhHHH
Confidence            7777777777777765 34455555666666666677777777777777663  33566777777777777777777777


Q ss_pred             HHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCcHHHHHHHHHHHHHC
Q 004362          625 FYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL-CVDHRVHEAVGFVHLMVQK  701 (759)
Q Consensus       625 ~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~  701 (759)
                      |++++...-.|+  ..+|..++......||+..|.+.|+-++.  -+|+......-+..+ .+.|+.++|..+++.+.. 
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~--~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s-  457 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT--SDAQHGEALNNLAVLAARSGDILGARSLLNAAKS-  457 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc--cCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhh-
Confidence            777665543344  45677777777777777777777777766  445544333333334 567777777777777665 


Q ss_pred             CCCCc
Q 004362          702 GIVPE  706 (759)
Q Consensus       702 ~~~p~  706 (759)
                       +.|+
T Consensus       458 -~~P~  461 (478)
T KOG1129|consen  458 -VMPD  461 (478)
T ss_pred             -hCcc
Confidence             4454

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.49  E-value=2.6e-12  Score=114.93  Aligned_cols=231  Identities=8%  Similarity=0.014  Sum_probs=201.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc
Q 004362          499 YNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN  578 (759)
Q Consensus       499 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  578 (759)
                      -+.+..+|.+.|-+.+|.+.++..++.  .|.+.||..+..+|.+..++..|..++.+.++. +|.+......+.+.+..
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHH
Confidence            367889999999999999999999886  577889999999999999999999999999987 67777777888999999


Q ss_pred             cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHH
Q 004362          579 SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYC  658 (759)
Q Consensus       579 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  658 (759)
                      .++.++|.++|+.+.+.  .|.+..+...++..|.-.++.+.|+.+|+++++.| ..++..|..++-+|.-.+.++-++.
T Consensus       303 m~~~~~a~~lYk~vlk~--~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG-~~speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKL--HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMG-AQSPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHhHHHHHHHHHHHHhc--CCccceeeeeeeeccccCCChHHHHHHHHHHHHhc-CCChHHHhhHHHHHHhhcchhhhHH
Confidence            99999999999999998  88899999999999999999999999999999988 4578899999999999999999999


Q ss_pred             HHHHHHhCCCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc---hH--HHHHhccccccccchHHHHHHHh
Q 004362          659 LLLENIDKGFIPS--LSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE---VV--NTIFEADKREVASPKIVVEDLLK  731 (759)
Q Consensus       659 ~~~~~~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~--~~~~~~~~~~~~~a~~~~~~~~~  731 (759)
                      .|++++.-.-.|+  ...|+.+.....-.|++.-|...|+-.+..  +|+   ..  ..++.+..|+.++|+.+++.+..
T Consensus       380 sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~--d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  380 SFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTS--DAQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhcc--CcchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            9999987434454  567788887778899999999999998863  444   22  33556699999999999999988


Q ss_pred             cCCCch
Q 004362          732 KSHITY  737 (759)
Q Consensus       732 ~~~~~~  737 (759)
                      ..|...
T Consensus       458 ~~P~m~  463 (478)
T KOG1129|consen  458 VMPDMA  463 (478)
T ss_pred             hCcccc
Confidence            776643

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.47  E-value=2.9e-11  Score=114.67  Aligned_cols=200  Identities=12%  Similarity=0.047  Sum_probs=118.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHH
Q 004362          496 VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLING  575 (759)
Q Consensus       496 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  575 (759)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..++..+...|++++|...+++..+. .+.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTL-NPNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCHHHHHHHHHH
Confidence            3444555555556666666666666655542 223445555566666666666666666666654 23344555566666


Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  655 (759)
                      +...|++++|.+.++++......+.....+..++.++...|++++|...++++.+.. +.+...+..++..+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            666666777776666666543334445556666667777777777777777766542 2235566666667777777777


Q ss_pred             HHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          656 GYCLLLENIDKGFIPSL-STIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      |..+++++++  ..|+. ..+......+...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQ--TYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHH--hCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            7777777766  33432 3333333444566777777776666544

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PRK12370 invasion protein regulator; Provisional

Probab=99.46  E-value=3e-11  Score=127.96  Aligned_cols=216  Identities=15%  Similarity=0.039  Sum_probs=109.2

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004362          441 CVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQ---------LKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAK  511 (759)
Q Consensus       441 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  511 (759)
                      ..++|...|++.++.. +.+...+..+..+|...         +++++|...++++.+.+. .+...+..+..++...|+
T Consensus       276 ~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        276 SLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDH-NNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHccC
Confidence            3456666666666552 22334444444443321         225566666666655432 244555555555556666


Q ss_pred             HHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHH
Q 004362          512 SEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRR  591 (759)
Q Consensus       512 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  591 (759)
                      +++|...|++.++.+ +.+...+..++.++...|++++|...++++.+.. |.+...+..++..+...|++++|+..+++
T Consensus       354 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        354 YIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            666666666665543 2234455555666666666666666666665542 11222222233334445566666666665


Q ss_pred             HHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          592 MEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       592 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +.... .|.++..+..++.++...|++++|...++++...  .|+ ...++.+...|...|  ++|...++++.+
T Consensus       432 ~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        432 LRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            55441 1334445555566666666666666666555432  333 333344444445445  355555555443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.45  E-value=6.5e-11  Score=112.22  Aligned_cols=201  Identities=14%  Similarity=0.103  Sum_probs=161.8

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHH
Q 004362          460 DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGE  539 (759)
Q Consensus       460 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  539 (759)
                      ....+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..++.
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            34566777788888888888888888887653 2356677778888888899999999888888764 335567777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCC-CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCH
Q 004362          540 SLCKAHKITEAFNLLEEMENKG-LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNF  618 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  618 (759)
                      .+...|++++|...++++.+.. .+.....+..+..++...|++++|...+++....  .|.+...+..++.++...|++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHcCCH
Confidence            8888999999999999988642 2334556777888899999999999999999887  677788889999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          619 YMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       619 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ++|...++++.+. .+.+...+..++..+...|+.++|..+.+.+.+
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999998876 244567777788888899999999998888765

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.45  E-value=2.4e-07  Score=96.13  Aligned_cols=535  Identities=12%  Similarity=0.103  Sum_probs=268.9

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCc-cHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSL-LEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNI  120 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  120 (759)
                      -+..+++.|.++|-+.+|++.|..+...-.... +..+-..-...|+..-.++++.+++..|...++..|......+..-
T Consensus       608 Dra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatk  687 (1666)
T KOG0985|consen  608 DRAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATK  687 (1666)
T ss_pred             cHHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            366788889999999999877765443320000 0111112344566677888999999999887777777766666666


Q ss_pred             HHHcCChhHHHHHHHHHHHC-----------CCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhC--------------
Q 004362          121 LVEYGYFSQVHKVYMRMRNK-----------GIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQ--------------  175 (759)
Q Consensus       121 ~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------------  175 (759)
                      |..+=-.+..+++|+....-           ++..|+...-..|++.++.|++.+..++.++-.-.              
T Consensus       688 y~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL  767 (1666)
T KOG0985|consen  688 YHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKL  767 (1666)
T ss_pred             HHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccc
Confidence            66554456666666665431           24456666777888889999888877776543111              


Q ss_pred             -------------CCCCCHHhH------HHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhh-------------HHHHH
Q 004362          176 -------------GFEPNAVAY------CTLIAGFYEENHNVEAYELFDEMLGMGISPDIAT-------------FNKLI  223 (759)
Q Consensus       176 -------------~~~~~~~~~------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~~l~  223 (759)
                                   ++.+|...|      ...|..|.+.-++...-.+.-.++...  -+...             ..-|.
T Consensus       768 ~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~d--C~E~~ik~Li~~v~gq~~~deLv  845 (1666)
T KOG0985|consen  768 TDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVD--CSEDFIKNLILSVRGQFPVDELV  845 (1666)
T ss_pred             cccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCC--CcHHHHHHHHHHHhccCChHHHH
Confidence                         111222211      112333333333333222222222211  11111             11223


Q ss_pred             HHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC-HHHHHH---HHH------HHhhCCC----------C
Q 004362          224 HTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGA-ISEAIS---LLD------SLGREDL----------T  283 (759)
Q Consensus       224 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~a~~---~~~------~~~~~~~----------~  283 (759)
                      .-..+.++..--...++..+..|.. |..++|+|...|...++ ++.-++   .++      -..+++.          .
T Consensus       846 ~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGq  924 (1666)
T KOG0985|consen  846 EEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQ  924 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccC
Confidence            3333445555556666677777765 78888888887775443 222111   011      1111100          0


Q ss_pred             ---------CCcchHHHHHHHHHhCCChHHH-----------HHHHHHHHHCCCC--CChhcHHHHHHHHHHcCChhHHH
Q 004362          284 ---------PDVVTYNTLMCGLCKNSKVVEA-----------EYYLHKMVNEGLE--PDGFSYNAVIDGYCKAGMISSAD  341 (759)
Q Consensus       284 ---------~~~~~~~~l~~~~~~~~~~~~a-----------~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~  341 (759)
                               -....|....+.+.+..+.+--           ..+.++....+++  .|+...+..+.++...+-..+-+
T Consensus       925 cD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLI 1004 (1666)
T KOG0985|consen  925 CDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELI 1004 (1666)
T ss_pred             CcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHH
Confidence                     0011233333444444443322           2344555544332  24555666778888888888888


Q ss_pred             HHHHHHHhCC--CCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004362          342 KILNDAIFKG--FVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSE  419 (759)
Q Consensus       342 ~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  419 (759)
                      +++++++-.+  +..+...-+.|+-...+. +..+..++.+++..-+. |+      +.......+-+++|..+|+..-.
T Consensus      1005 ELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyDa-~~------ia~iai~~~LyEEAF~ifkkf~~ 1076 (1666)
T KOG0985|consen 1005 ELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYDA-PD------IAEIAIENQLYEEAFAIFKKFDM 1076 (1666)
T ss_pred             HHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCCc-hh------HHHHHhhhhHHHHHHHHHHHhcc
Confidence            8888876432  122233344444444443 34455555555543311 11      22333445556677776665432


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004362          420 SGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITY  499 (759)
Q Consensus       420 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  499 (759)
                           +......++.   .-+..+.|.++-++..      .+.+|..+..+-.+.|...+|++.|-+..      |+..|
T Consensus      1077 -----n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyikad------Dps~y 1136 (1666)
T KOG0985|consen 1077 -----NVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKAD------DPSNY 1136 (1666)
T ss_pred             -----cHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhcC------CcHHH
Confidence                 3333333332   2234444444433321      34455566665556666666555543322      44455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc
Q 004362          500 NSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS  579 (759)
Q Consensus       500 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  579 (759)
                      ..++....+.|++++-++++....++.-.|...  ..++-+|++.++..+..+++       .-|+......+.+-|...
T Consensus      1137 ~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~ 1207 (1666)
T KOG0985|consen 1137 LEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEE 1207 (1666)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhh
Confidence            556666666666666666555555543333222  34555555555554433332       123444444455555555


Q ss_pred             CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHH
Q 004362          580 GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFY  626 (759)
Q Consensus       580 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  626 (759)
                      |.++.|.-+|..+.          .|..++..+...|.+..|..-.+
T Consensus      1208 ~~y~aAkl~y~~vS----------N~a~La~TLV~LgeyQ~AVD~aR 1244 (1666)
T KOG0985|consen 1208 KMYEAAKLLYSNVS----------NFAKLASTLVYLGEYQGAVDAAR 1244 (1666)
T ss_pred             hhhHHHHHHHHHhh----------hHHHHHHHHHHHHHHHHHHHHhh
Confidence            55555544443322          23444444444444444444433

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.45  E-value=1.1e-07  Score=98.61  Aligned_cols=246  Identities=14%  Similarity=0.166  Sum_probs=148.0

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCCh
Q 004362          118 MNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHN  197 (759)
Q Consensus       118 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  197 (759)
                      +.+++..|+++++.-..   .+.|..||.   ..+++...+ -.++.+.++...+.+..  +...-++.+...+...+..
T Consensus       488 i~cfAE~Gqf~KiilY~---kKvGyTPdy---mflLq~l~r-~sPD~~~qFa~~l~Q~~--~~~~die~I~DlFme~N~i  558 (1666)
T KOG0985|consen  488 IQCFAETGQFKKIILYA---KKVGYTPDY---MFLLQQLKR-SSPDQALQFAMMLVQDE--EPLADIEQIVDLFMELNLI  558 (1666)
T ss_pred             HHHHHHhcchhHHHHHH---HHcCCCccH---HHHHHHHHc-cChhHHHHHHHHhhccC--CCcccHHHHHHHHHHHHhh
Confidence            44444444444443322   345666763   344554444 56788888777777654  3445566677777777777


Q ss_pred             hHHHHHHHHHHhCCCCCChhhHH-HHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          198 VEAYELFDEMLGMGISPDIATFN-KLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDS  276 (759)
Q Consensus       198 ~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  276 (759)
                      +.+..++-..++.+ .|+..... .++..- -.+    |-++.+.++..+.. +..-+-.+.+.|.+.|-...|++.+.+
T Consensus       559 Qq~TSFLLdaLK~~-~Pd~g~LQTrLLE~N-L~~----aPqVADAILgN~mF-tHyDra~IAqLCEKAGL~qraLehytD  631 (1666)
T KOG0985|consen  559 QQCTSFLLDALKLN-SPDEGHLQTRLLEMN-LVH----APQVADAILGNDMF-THYDRAEIAQLCEKAGLLQRALEHYTD  631 (1666)
T ss_pred             hhhHHHHHHHhcCC-ChhhhhHHHHHHHHH-hcc----chHHHHHHHhcccc-ccccHHHHHHHHHhcchHHHHHHhccc
Confidence            77777777776643 44543332 233221 112    23333344444333 222367788889999999999988777


Q ss_pred             HhhCCCCCCcchH----HHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhC--
Q 004362          277 LGREDLTPDVVTY----NTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFK--  350 (759)
Q Consensus       277 ~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--  350 (759)
                      +...  ....+.-    --.+-.|...-.++.+.+.++.|...++..|..+...+..-|...=..+..+++|+.....  
T Consensus       632 l~DI--KR~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eG  709 (1666)
T KOG0985|consen  632 LYDI--KRVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEG  709 (1666)
T ss_pred             HHHH--HHHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchh
Confidence            6432  1111110    1112334445577888999999998888777777666666666665566667777665432  


Q ss_pred             ---------CCCCCcccHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          351 ---------GFVPDEFTYCSLINGLCQDGDVDRAMAVYVK  381 (759)
Q Consensus       351 ---------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  381 (759)
                               ++..|+.+....|.+.++.|++.+..++-++
T Consensus       710 L~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicre  749 (1666)
T KOG0985|consen  710 LYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRE  749 (1666)
T ss_pred             HHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhc
Confidence                     3455777777888999999998888877654

>PRK12370 invasion protein regulator; Provisional

Probab=99.44  E-value=5.3e-11  Score=126.08  Aligned_cols=216  Identities=11%  Similarity=0.026  Sum_probs=131.5

Q ss_pred             ChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh---------cCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcC
Q 004362           55 NFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGR---------RGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYG  125 (759)
Q Consensus        55 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  125 (759)
                      .+++|...|+++...+|.  +..++..++.+|..         .+++++|...++++.... +.+...+..+..++...|
T Consensus       276 ~~~~A~~~~~~Al~ldP~--~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNMSPN--SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhcCCc--cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            456777778887777777  66666666665542         233667777777776554 456666767777777777


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHH
Q 004362          126 YFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFD  205 (759)
Q Consensus       126 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  205 (759)
                      ++++|...|++.++.+ +.+..++..+..++...|++++|...+++..+.+ |.+...+..++..+...|++++|+..++
T Consensus       353 ~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            7777777777777654 2345566666777777777777777777776664 2233333334444555677777777777


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 004362          206 EMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLG  278 (759)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  278 (759)
                      +......+-+...+..+..++...|++++|...+.++.... +.+....+.+...|+..|  +.|...++.+.
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll  500 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS--ERALPTIREFL  500 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH--HHHHHHHHHHH
Confidence            76654222233345555566667777777777776654431 112333444445555555  35555555544

>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=99.39  E-value=2.2e-08  Score=102.15  Aligned_cols=289  Identities=18%  Similarity=0.209  Sum_probs=149.6

Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc-----
Q 004362          191 FYEENHNVEAYELFDEMLGMGISPDI-ATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRK-----  264 (759)
Q Consensus       191 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  264 (759)
                      +...|++++|++.++.-.+.  -+|. .........+.+.|+.++|..++..+++.++. +...|..+..+..-.     
T Consensus        14 l~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~~~~   90 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQLSD   90 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhccccc
Confidence            34455555555555553332  2232 22333445555556666666666655555321 333333333333111     


Q ss_pred             CCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCCh-HHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHH
Q 004362          265 GAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKV-VEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKI  343 (759)
Q Consensus       265 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  343 (759)
                      .+.+...++++++...  -|.......+.-.+.....+ ..+...+..+...|+++   +|..+-..|..........++
T Consensus        91 ~~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   91 EDVEKLLELYDELAEK--YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccHHHHHHHHHHHHHh--CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHH
Confidence            1345555555555443  22222221111111111112 23344455555555443   344444444433344444444


Q ss_pred             HHHHHhC----C----------CCCCcc--cHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCH
Q 004362          344 LNDAIFK----G----------FVPDEF--TYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLI  407 (759)
Q Consensus       344 ~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  407 (759)
                      +......    +          -+|+..  ++..+...|...|++++|+.++++.++..+. .+..|..-.+.+-+.|++
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCH
Confidence            4443321    0          112221  2344456666777777777777777776443 456666667777777777


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHh--------hHHHHHHHHHhcCCHHH
Q 004362          408 LQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIF--------TFNTLIDGYCKQLKMEI  479 (759)
Q Consensus       408 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------~~~~l~~~~~~~~~~~~  479 (759)
                      .+|.+.++.....+.. |...-+-.+..+.+.|++++|..++....+.+..|...        .......+|.+.|++..
T Consensus       245 ~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~  323 (517)
T PF12569_consen  245 KEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGL  323 (517)
T ss_pred             HHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            7777777777776432 55555666666777777777777777766554322111        11334566777788877


Q ss_pred             HHHHHHHHHH
Q 004362          480 AIEILNTMWS  489 (759)
Q Consensus       480 A~~~~~~~~~  489 (759)
                      |++-|..+.+
T Consensus       324 ALk~~~~v~k  333 (517)
T PF12569_consen  324 ALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHH
Confidence            7777766654

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 [], [].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.39  E-value=3.1e-07  Score=92.11  Aligned_cols=216  Identities=12%  Similarity=0.158  Sum_probs=145.0

Q ss_pred             cCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHH
Q 004362           16 HQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEA   95 (759)
Q Consensus        16 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   95 (759)
                      ..|.++.|+..|-.+.          .....+.+-..+..|..|+.+++.++.+...   ...|..++.-|...|+++.|
T Consensus       718 ~~~q~daainhfiea~----------~~~kaieaai~akew~kai~ildniqdqk~~---s~yy~~iadhyan~~dfe~a  784 (1636)
T KOG3616|consen  718 QIGQLDAAINHFIEAN----------CLIKAIEAAIGAKEWKKAISILDNIQDQKTA---SGYYGEIADHYANKGDFEIA  784 (1636)
T ss_pred             HHHhHHHHHHHHHHhh----------hHHHHHHHHhhhhhhhhhHhHHHHhhhhccc---cccchHHHHHhccchhHHHH
Confidence            4566666666665432          1223444445778899999999888877632   23455678889999999999


Q ss_pred             HHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhC
Q 004362           96 VDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQ  175 (759)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  175 (759)
                      .++|-+..         .++-.|..|.+.|+|++|.++-.+...  .......|.+-..-.-..|++.+|.+++-.+.. 
T Consensus       785 e~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~~-  852 (1636)
T KOG3616|consen  785 EELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIGE-  852 (1636)
T ss_pred             HHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEccC-
Confidence            99986554         255567888999999999888777654  223445566666666777888888887754432 


Q ss_pred             CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHH
Q 004362          176 GFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFN  255 (759)
Q Consensus       176 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  255 (759)
                         |+     ..|..|-+.|..++.+.+.++-...   .-..|...+..-+...|++..|..-|-+.-         -|.
T Consensus       853 ---p~-----~aiqmydk~~~~ddmirlv~k~h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~k  912 (1636)
T KOG3616|consen  853 ---PD-----KAIQMYDKHGLDDDMIRLVEKHHGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFK  912 (1636)
T ss_pred             ---ch-----HHHHHHHhhCcchHHHHHHHHhChh---hhhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHH
Confidence               22     3466778888888888877764321   123345556677778888888887765432         355


Q ss_pred             HHHHHHHhcCCHHHHHHHHHH
Q 004362          256 MFIQGLCRKGAISEAISLLDS  276 (759)
Q Consensus       256 ~l~~~~~~~g~~~~a~~~~~~  276 (759)
                      +.+++|-..+.|++|-++-+.
T Consensus       913 aavnmyk~s~lw~dayriakt  933 (1636)
T KOG3616|consen  913 AAVNMYKASELWEDAYRIAKT  933 (1636)
T ss_pred             HHHHHhhhhhhHHHHHHHHhc
Confidence            667777777888877766544

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.39  E-value=1.2e-10  Score=99.78  Aligned_cols=194  Identities=11%  Similarity=-0.008  Sum_probs=134.4

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHH
Q 004362          533 TYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAF  612 (759)
Q Consensus       533 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  612 (759)
                      +...++-.|...|+...|..-+++.++. -|.+..+|..+...|.+.|+.+.|.+.|+++...  .|.+..+.|+.+..+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~-DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH-DPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHH
Confidence            3445666677778888888888777776 3445667777777788888888888888888777  777777888888888


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHH
Q 004362          613 SEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHE  690 (759)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~  690 (759)
                      +..|++++|...|++++....-|. ..+|..++.+..+.|+.+.|..+|++.++  +.|+ ......+....+..|++-.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~--~dp~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALE--LDPQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHH--hCcCCChHHHHHHHHHHhcccchH
Confidence            888888888888888776533333 56777777777778888888888888887  6665 3444556666677788888


Q ss_pred             HHHHHHHHHHCCCCCchHHHHHhc----cccccccchHHHHHHHhc
Q 004362          691 AVGFVHLMVQKGIVPEVVNTIFEA----DKREVASPKIVVEDLLKK  732 (759)
Q Consensus       691 A~~~~~~~~~~~~~p~~~~~~~~~----~~~~~~~a~~~~~~~~~~  732 (759)
                      |..++++....+. +..-.-|+.-    ..|+.+.+.+.-.++.+.
T Consensus       192 Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         192 ARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            8887777766444 4422222222    556666666655555554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.38  E-value=2e-07  Score=94.68  Aligned_cols=545  Identities=13%  Similarity=0.126  Sum_probs=272.8

Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhH
Q 004362           86 YGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVA  165 (759)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  165 (759)
                      |...|+.|.|.+-.+.+.      +-..|..+.+.|.+.++++-|.-++-.|....                      .|
T Consensus       738 yvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aR----------------------ga  789 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNAR----------------------GA  789 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhh----------------------hH
Confidence            556777777777666554      33457777777777777777766655554310                      01


Q ss_pred             HHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhC
Q 004362          166 LRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKR  245 (759)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  245 (759)
                       +.+++..+.+   + ..-..........|..++|..+|.+-..         |..|=..|-..|.+++|.++-+.--+-
T Consensus       790 -RAlR~a~q~~---~-e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRi  855 (1416)
T KOG3617|consen  790 -RALRRAQQNG---E-EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRI  855 (1416)
T ss_pred             -HHHHHHHhCC---c-chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccce
Confidence             1111112111   1 1111111222345666777777766553         233334555667777777665542221


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHH
Q 004362          246 GVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYN  325 (759)
Q Consensus       246 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  325 (759)
                      .   =..||......+-..++.+.|++.|+...    .|--..+..|.      .++.....+.+.+.      |...|.
T Consensus       856 H---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~----~hafev~rmL~------e~p~~~e~Yv~~~~------d~~L~~  916 (1416)
T KOG3617|consen  856 H---LRNTYYNYAKYLEARRDIEAALEYYEKAG----VHAFEVFRMLK------EYPKQIEQYVRRKR------DESLYS  916 (1416)
T ss_pred             e---hhhhHHHHHHHHHhhccHHHHHHHHHhcC----ChHHHHHHHHH------hChHHHHHHHHhcc------chHHHH
Confidence            1   12345555555566677777777776543    22111111111      11122222222222      445555


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC
Q 004362          326 AVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQG  405 (759)
Q Consensus       326 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  405 (759)
                      -........|+.+.|+.+|..+..         |.++++..|-.|..++|-++-++.-      |......|.+.|-..|
T Consensus       917 WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g  981 (1416)
T KOG3617|consen  917 WWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDG  981 (1416)
T ss_pred             HHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhH
Confidence            566666677788888877776543         4456666677777777777654422      5566667777777778


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-------------HhcC--ChHHHHHHHHHHHHCCCCCCHhhHHHHHHH
Q 004362          406 LILQALQLMNEMSESGCCPDMWTYNIVINGL-------------CKMG--CVSDANNLVNDAISKGYIPDIFTFNTLIDG  470 (759)
Q Consensus       406 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-------------~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  470 (759)
                      ++.+|...|.+.+.         +...|+.|             ...+  +.-.|..+|++.   |.     -....+..
T Consensus       982 ~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmL 1044 (1416)
T KOG3617|consen  982 DVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---GG-----YAHKAVML 1044 (1416)
T ss_pred             HHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHH
Confidence            88887777766543         12222222             1111  222233333332   11     11223345


Q ss_pred             HHhcCCHHHHHHHHHH--------HHH--CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHH
Q 004362          471 YCKQLKMEIAIEILNT--------MWS--HGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGES  540 (759)
Q Consensus       471 ~~~~~~~~~A~~~~~~--------~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  540 (759)
                      |-+.|.+.+|+++--+        ++.  .....|+...+--...+....++++|..++-...+         |...++.
T Consensus      1045 YHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~---------~~~Alql 1115 (1416)
T KOG3617|consen 1045 YHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLARE---------FSGALQL 1115 (1416)
T ss_pred             HHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHHH
Confidence            6666766666654221        111  12234667777777778888888888877765543         2222333


Q ss_pred             HHhcCCHHHHHHHHHHHHHC--CCCcc---HHHHHHHHHHHHccCChhhHHHHHHHHHHcc---------CCCC------
Q 004362          541 LCKAHKITEAFNLLEEMENK--GLTLD---TVAFGTLINGFCNSGDLDGAYQLFRRMEDQY---------KISH------  600 (759)
Q Consensus       541 ~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---------~~~~------  600 (759)
                      |.. .+..-..++-+.|.-.  +.++.   ...+..+...|.++|.+..|-+-|.++-++-         +...      
T Consensus      1116 C~~-~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdKl~AMraLLKSGdt~KI~FFA 1194 (1416)
T KOG3617|consen 1116 CKN-RNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDKLSAMRALLKSGDTQKIRFFA 1194 (1416)
T ss_pred             Hhc-CCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhHHHHHHHHHhcCCcceEEEEe
Confidence            322 2222233333333211  11111   2345667778888888877777665553320         0000      


Q ss_pred             ----chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHH--------hcCChHHHHHHHHH------
Q 004362          601 ----TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFC--------KTGGINSGYCLLLE------  662 (759)
Q Consensus       601 ----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~--------~~g~~~~A~~~~~~------  662 (759)
                          ...+ ..|+.-|.+.-+|..--+.++.+.  ++......+..|+.-|.        ...++++|...+++      
T Consensus      1195 n~sRqkEi-YImAANyLQtlDWq~~pq~mK~I~--tFYTKgqafd~LanFY~~cAqiEiee~q~ydKa~gAl~eA~kCl~ 1271 (1416)
T KOG3617|consen 1195 NTSRQKEI-YIMAANYLQTLDWQDNPQTMKDIE--TFYTKGQAFDHLANFYKSCAQIEIEELQTYDKAMGALEEAAKCLL 1271 (1416)
T ss_pred             ecccccee-eeehhhhhhhcccccChHHHhhhH--hhhhcchhHHHHHHHHHHHHHhhHHHHhhhhHHhHHHHHHHHHHH
Confidence                0011 112223333333333333333333  12222233444443221        12344555444444      


Q ss_pred             -HHhCCCC--------CCHHHHHHHHHHH-HhcCcHHHHHHHHHHHHHCCCCCc------hHHHHHhc--cccccccchH
Q 004362          663 -NIDKGFI--------PSLSTIGRVINCL-CVDHRVHEAVGFVHLMVQKGIVPE------VVNTIFEA--DKREVASPKI  724 (759)
Q Consensus       663 -~~~~g~~--------p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~p~------~~~~~~~~--~~~~~~~a~~  724 (759)
                       +-.++..        .+-..+-..+... .-..+..+.++-...|.+.++.|+      .+..+++.  ...++..|.+
T Consensus      1272 ka~~k~~~~t~l~~Lq~~~a~vk~~l~~~q~~~eD~~~~i~qc~~lleep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyR 1351 (1416)
T KOG3617|consen 1272 KAEQKNMSTTGLDALQEDLAKVKVQLRKLQIMKEDAADGIRQCTTLLEEPILDDIIRCTRLFALLIEDHVSRKNYKPAYR 1351 (1416)
T ss_pred             HHHhhcchHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhCcCCCCcchhHHHHHHHHHHHHhhhhccHHHH
Confidence             3321100        0111111222222 233577778888888888888776      22233444  7788999999


Q ss_pred             HHHHHHhcCCCc
Q 004362          725 VVEDLLKKSHIT  736 (759)
Q Consensus       725 ~~~~~~~~~~~~  736 (759)
                      .++.+.++.|.-
T Consensus      1352 al~el~~k~p~~ 1363 (1416)
T KOG3617|consen 1352 ALTELQKKVPNV 1363 (1416)
T ss_pred             HHHHHhhcCCcc
Confidence            999999987653

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.37  E-value=8.6e-10  Score=94.62  Aligned_cols=206  Identities=13%  Similarity=0.054  Sum_probs=133.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh
Q 004362          464 FNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK  543 (759)
Q Consensus       464 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  543 (759)
                      ...|.-.|...|++..|..-+++.+++.. .+..+|..+...|.+.|+.+.|.+.|+..++.. +-+....+..+.-+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DP-s~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDP-SYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            34455567777777777777777777632 245566677777777777777777777777653 2245566666666677


Q ss_pred             cCCHHHHHHHHHHHHHC-CCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHH
Q 004362          544 AHKITEAFNLLEEMENK-GLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAE  622 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  622 (759)
                      .|++++|...|++.... ....-..+|..+.-+..+.|+.+.|...|++..+.  .|+.+.....++......|++..|.
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHHH
Confidence            77777777777776654 22223445666666666777777777777777766  6666666777777777777777777


Q ss_pred             HHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          623 KLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       623 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      .++++....+ .++...+...+..-...||-+.+-++=..+.+  ..|....+.
T Consensus       194 ~~~~~~~~~~-~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r--~fP~s~e~q  244 (250)
T COG3063         194 LYLERYQQRG-GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR--LFPYSEEYQ  244 (250)
T ss_pred             HHHHHHHhcc-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHH
Confidence            7777766654 36666665556666666776666666666655  556555443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.37  E-value=6.1e-08  Score=94.93  Aligned_cols=225  Identities=13%  Similarity=0.086  Sum_probs=116.2

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH
Q 004362           44 KYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVE  123 (759)
Q Consensus        44 ~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  123 (759)
                      ..-++.....|++++|.+...++....|.  +..++..-+.+..+.++|++|+.+.+.-.... ..++.. -.-.-+..+
T Consensus        16 ~t~ln~~~~~~e~e~a~k~~~Kil~~~pd--d~~a~~cKvValIq~~ky~~ALk~ikk~~~~~-~~~~~~-fEKAYc~Yr   91 (652)
T KOG2376|consen   16 LTDLNRHGKNGEYEEAVKTANKILSIVPD--DEDAIRCKVVALIQLDKYEDALKLIKKNGALL-VINSFF-FEKAYCEYR   91 (652)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHhcCCC--cHhhHhhhHhhhhhhhHHHHHHHHHHhcchhh-hcchhh-HHHHHHHHH
Confidence            33445556777777777777777777766  67777777777777777777775554332100 011111 112233446


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHH-HhcCChhHHHH
Q 004362          124 YGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGF-YEENHNVEAYE  202 (759)
Q Consensus       124 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~  202 (759)
                      .+..++|+..++-.-.    .+..+...-.+.+.+.|++++|..+++.+.+.+. ++   +...+..- ...+   .+..
T Consensus        92 lnk~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~-dd---~d~~~r~nl~a~~---a~l~  160 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS-DD---QDEERRANLLAVA---AALQ  160 (652)
T ss_pred             cccHHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-ch---HHHHHHHHHHHHH---Hhhh
Confidence            7777777777762211    2333555556667777777777777777766541 11   11111110 0000   0111


Q ss_pred             HHHHHHhCCCCCChhhHHHHH---HHHHhcCChhHHHHHHHHHhhCC-------CCC--CHH-----HHHHHHHHHHhcC
Q 004362          203 LFDEMLGMGISPDIATFNKLI---HTLCKKGNVRESEKLFNKVLKRG-------VSP--NLF-----TFNMFIQGLCRKG  265 (759)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~l~---~~~~~~g~~~~a~~~~~~~~~~~-------~~~--~~~-----~~~~l~~~~~~~g  265 (759)
                      . +.+......| ..+|..+.   -.+...|++.+|+++++...+.+       -.-  +..     +-..+.-.+...|
T Consensus       161 ~-~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~G  238 (652)
T KOG2376|consen  161 V-QLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQG  238 (652)
T ss_pred             H-HHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhc
Confidence            1 0111111222 22344333   23445677777777777763211       000  111     1122333455678


Q ss_pred             CHHHHHHHHHHHhhCCCCCCc
Q 004362          266 AISEAISLLDSLGREDLTPDV  286 (759)
Q Consensus       266 ~~~~a~~~~~~~~~~~~~~~~  286 (759)
                      +.++|.+++..+.+.. .+|.
T Consensus       239 qt~ea~~iy~~~i~~~-~~D~  258 (652)
T KOG2376|consen  239 QTAEASSIYVDIIKRN-PADE  258 (652)
T ss_pred             chHHHHHHHHHHHHhc-CCCc
Confidence            8888888888877665 3443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.37  E-value=7.4e-08  Score=94.37  Aligned_cols=446  Identities=15%  Similarity=0.105  Sum_probs=222.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHH--hcC
Q 004362          188 IAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLC--RKG  265 (759)
Q Consensus       188 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g  265 (759)
                      ++.+...+++++|.+...+++..+ +-+...+..-+-+..+.+.+++|+.+.+.-...  ..+...+  +=.+||  +.+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~--fEKAYc~Yrln   93 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFF--FEKAYCEYRLN   93 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhh--HHHHHHHHHcc
Confidence            344455666666666666666554 223444555555566666666666443321110  1011110  123333  566


Q ss_pred             CHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHH-HHcCChhHHHHHH
Q 004362          266 AISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGY-CKAGMISSADKIL  344 (759)
Q Consensus       266 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~-~~~~~~~~a~~~~  344 (759)
                      ..++|+..++...    +.+..+...-...+.+.+++++|.++|+.+.+.+.+ +   +...+++- ...+-.-.+. +.
T Consensus        94 k~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d---~d~~~r~nl~a~~a~l~~~-~~  164 (652)
T KOG2376|consen   94 KLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-D---QDEERRANLLAVAAALQVQ-LL  164 (652)
T ss_pred             cHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-h---HHHHHHHHHHHHHHhhhHH-HH
Confidence            6666666666322    222224444445666677777777777776655322 1   11111110 0000000110 11


Q ss_pred             HHHHhCCCCCCcccHHH---HHHHHHhcCCHHHHHHHHHHHHHcC-------CCCCH-------HhHHHHHHHHHhcCCH
Q 004362          345 NDAIFKGFVPDEFTYCS---LINGLCQDGDVDRAMAVYVKALEKG-------LKPSI-------VLYNTLIKGLSQQGLI  407 (759)
Q Consensus       345 ~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~A~~~~~~~~~~~-------~~~~~-------~~~~~l~~~~~~~~~~  407 (759)
                      +   .....| ..+|..   ....++..|++..|++++......+       -.-+.       ..--.|...+...|+.
T Consensus       165 q---~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  165 Q---SVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             H---hccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence            1   111111 222222   3334555677777777776662211       00000       0112234445567888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHH----HHHHHHHHhcCChHH--HHHHHHHHHHC-----------CCCCCHhhHHHHHHH
Q 004362          408 LQALQLMNEMSESGCCPDMWTY----NIVINGLCKMGCVSD--ANNLVNDAISK-----------GYIPDIFTFNTLIDG  470 (759)
Q Consensus       408 ~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~--a~~~~~~~~~~-----------~~~~~~~~~~~l~~~  470 (759)
                      .+|..++...+.... +|....    |.++. .....++.+  ++..++.....           ........-+.++.+
T Consensus       241 ~ea~~iy~~~i~~~~-~D~~~~Av~~NNLva-~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l  318 (652)
T KOG2376|consen  241 AEASSIYVDIIKRNP-ADEPSLAVAVNNLVA-LSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLAL  318 (652)
T ss_pred             HHHHHHHHHHHHhcC-CCchHHHHHhcchhh-hccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888877777643 233221    22221 111111111  11111111110           000011111233333


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHH
Q 004362          471 YCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLC--KAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKIT  548 (759)
Q Consensus       471 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  548 (759)
                      |.  +..+.+.++.......  .|.. .+..++..+.  +...+..+.+++....+....-.......+++.....|+++
T Consensus       319 ~t--nk~~q~r~~~a~lp~~--~p~~-~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~  393 (652)
T KOG2376|consen  319 FT--NKMDQVRELSASLPGM--SPES-LFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPE  393 (652)
T ss_pred             Hh--hhHHHHHHHHHhCCcc--CchH-HHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHH
Confidence            33  3334444443333221  2333 3344443332  22356778888777766532222445666777788999999


Q ss_pred             HHHHHHH--------HHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccC-----CCCchhhHHHHHHHHHhc
Q 004362          549 EAFNLLE--------EMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK-----ISHTTATYNIMINAFSEK  615 (759)
Q Consensus       549 ~a~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~  615 (759)
                      .|.+++.        .+.+.+  ..+.+...+...+.+.++-+.|..++..+...+.     .+.-..++...+..-.+.
T Consensus       394 ~A~~il~~~~~~~~ss~~~~~--~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~  471 (652)
T KOG2376|consen  394 VALEILSLFLESWKSSILEAK--HLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRH  471 (652)
T ss_pred             HHHHHHHHHhhhhhhhhhhhc--cChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhc
Confidence            9999999        444433  3455566777888888888888888777765321     122223344445555677


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLE  662 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  662 (759)
                      |+-++|..+++++.+.. ++|..+...++.+|+.. |.+.|..+-..
T Consensus       472 G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  472 GNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             CchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            99999999999999753 66788888888888764 56666665444

>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=99.35  E-value=3.2e-08  Score=100.93  Aligned_cols=128  Identities=16%  Similarity=0.115  Sum_probs=65.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhC
Q 004362          220 NKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKN  299 (759)
Q Consensus       220 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  299 (759)
                      ..+...|...|++++|.+.++..++..+ ..+..|..-.+.+-+.|++.+|.+.++.....+ ..|...-+.....+.+.
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~htP-t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa  275 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIEHTP-TLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRA  275 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHC
Confidence            3334445555666666666666555521 124455555555556666666666665555443 33444444455555566


Q ss_pred             CChHHHHHHHHHHHHCCCCCChhc--------HHHHHHHHHHcCChhHHHHHHHHHHh
Q 004362          300 SKVVEAEYYLHKMVNEGLEPDGFS--------YNAVIDGYCKAGMISSADKILNDAIF  349 (759)
Q Consensus       300 ~~~~~a~~~~~~~~~~~~~~~~~~--------~~~ll~~~~~~~~~~~a~~~~~~~~~  349 (759)
                      |++++|.+++......+..|....        ......+|.+.|++..|++.|..+.+
T Consensus       276 ~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  276 GRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             CCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            666666666555554433221111        12234455566666666555554443

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 [], [].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.35  E-value=1.6e-07  Score=94.07  Aligned_cols=370  Identities=16%  Similarity=0.121  Sum_probs=208.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC
Q 004362          187 LIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGA  266 (759)
Q Consensus       187 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  266 (759)
                      .|..|....+|++++.+-+..   |.+.-...-.+.++++...|+-+.|-++-    .+    +.. -.+.|+.|.+.|.
T Consensus       563 aigmy~~lhkwde~i~lae~~---~~p~~eklk~sy~q~l~dt~qd~ka~elk----~s----dgd-~laaiqlyika~~  630 (1636)
T KOG3616|consen  563 AIGMYQELHKWDEAIALAEAK---GHPALEKLKRSYLQALMDTGQDEKAAELK----ES----DGD-GLAAIQLYIKAGK  630 (1636)
T ss_pred             HHHHHHHHHhHHHHHHHHHhc---CChHHHHHHHHHHHHHHhcCchhhhhhhc----cc----cCc-cHHHHHHHHHcCC
Confidence            344555555566665544321   11111112233344445555555444321    11    111 1245667777777


Q ss_pred             HHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHH
Q 004362          267 ISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILND  346 (759)
Q Consensus       267 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  346 (759)
                      +..|.+....-.  .+..|......+..++.+..-+++|-++|+++..         +...+..|-+..-+-+|.++-+-
T Consensus       631 p~~a~~~a~n~~--~l~~de~il~~ia~alik~elydkagdlfeki~d---------~dkale~fkkgdaf~kaielarf  699 (1636)
T KOG3616|consen  631 PAKAARAALNDE--ELLADEEILEHIAAALIKGELYDKAGDLFEKIHD---------FDKALECFKKGDAFGKAIELARF  699 (1636)
T ss_pred             chHHHHhhcCHH--HhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhC---------HHHHHHHHHcccHHHHHHHHHHh
Confidence            766655432111  1134445555555666666666666666666542         11122333333334445444332


Q ss_pred             HHhCCCCCCccc-HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 004362          347 AIFKGFVPDEFT-YCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPD  425 (759)
Q Consensus       347 ~~~~~~~~~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  425 (759)
                      ..    +..... -......+...|+++.|+.-|-+...         .-..+.+-.....|.+|+.+++.++....  .
T Consensus       700 af----p~evv~lee~wg~hl~~~~q~daainhfiea~~---------~~kaieaai~akew~kai~ildniqdqk~--~  764 (1636)
T KOG3616|consen  700 AF----PEEVVKLEEAWGDHLEQIGQLDAAINHFIEANC---------LIKAIEAAIGAKEWKKAISILDNIQDQKT--A  764 (1636)
T ss_pred             hC----cHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhh---------HHHHHHHHhhhhhhhhhHhHHHHhhhhcc--c
Confidence            21    111111 12334445566777777776654432         12234455566788888888888776532  2


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004362          426 MWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNG  505 (759)
Q Consensus       426 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  505 (759)
                      .--|-.+...|...|+++.|.++|.+.-         .++-.|.+|.+.|+|+.|.++-.+...  .......|-.-..-
T Consensus       765 s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~~--~e~t~~~yiakaed  833 (1636)
T KOG3616|consen  765 SGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECHG--PEATISLYIAKAED  833 (1636)
T ss_pred             cccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhcC--chhHHHHHHHhHHh
Confidence            2345566778888888888888876432         345567788888888888888766543  33345556555666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhH
Q 004362          506 LCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGA  585 (759)
Q Consensus       506 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  585 (759)
                      +-.+|++.+|.++|-...    .|+     ..++.|-+.|..+..+++.++....   .-..+...+..-|...|++..|
T Consensus       834 ldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~h~d---~l~dt~~~f~~e~e~~g~lkaa  901 (1636)
T KOG3616|consen  834 LDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKHHGD---HLHDTHKHFAKELEAEGDLKAA  901 (1636)
T ss_pred             HHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHhChh---hhhHHHHHHHHHHHhccChhHH
Confidence            677888888877764432    344     3456778888888887776664321   1233445666777888888888


Q ss_pred             HHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          586 YQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYE  627 (759)
Q Consensus       586 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  627 (759)
                      ...|-++.+          |..-.+.|...+-|++|-++.+.
T Consensus       902 e~~flea~d----------~kaavnmyk~s~lw~dayriakt  933 (1636)
T KOG3616|consen  902 EEHFLEAGD----------FKAAVNMYKASELWEDAYRIAKT  933 (1636)
T ss_pred             HHHHHhhhh----------HHHHHHHhhhhhhHHHHHHHHhc
Confidence            887755532          34556677777777777666553

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.35  E-value=5.8e-07  Score=91.40  Aligned_cols=139  Identities=9%  Similarity=0.047  Sum_probs=91.5

Q ss_pred             HHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCC---------CCCCHHHHHHHHH
Q 004362           49 KLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYN---------CEPTVLSYNTIMN  119 (759)
Q Consensus        49 ~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---------~~~~~~~~~~l~~  119 (759)
                      .|..-|+.+.|.+.++.++       +..+|..+++.+.+..++|-|.-++..|....         ..++ ..-.-+.-
T Consensus       737 fyvtiG~MD~AfksI~~Ik-------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAv  808 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK-------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAV  808 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh-------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHH
Confidence            3446788888887777665       45688999999999988888877776554110         0111 11112223


Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhH
Q 004362          120 ILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVE  199 (759)
Q Consensus       120 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  199 (759)
                      .-.+.|.+++|..+|.+..+         |..|=+.|-..|.+++|.++-+.--+..   =..+|......+-..++.+.
T Consensus       809 LAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~  876 (1416)
T KOG3617|consen  809 LAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEA  876 (1416)
T ss_pred             HHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHH
Confidence            34577888999999988876         3334455667788898888776533322   23456666666667778888


Q ss_pred             HHHHHHHH
Q 004362          200 AYELFDEM  207 (759)
Q Consensus       200 a~~~~~~~  207 (759)
                      |++.|++.
T Consensus       877 AleyyEK~  884 (1416)
T KOG3617|consen  877 ALEYYEKA  884 (1416)
T ss_pred             HHHHHHhc
Confidence            88887764

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.33  E-value=1.1e-09  Score=106.00  Aligned_cols=219  Identities=11%  Similarity=0.009  Sum_probs=114.6

Q ss_pred             CChHHHHHHHHHhhhcCCCCCC--HHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHH
Q 004362           18 KNPLTALEMFNSVKREDGFKHT--LLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEA   95 (759)
Q Consensus        18 ~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   95 (759)
                      +..+.++..|..++...+..|+  ...|...+.++...|++++|...|+.+...+|.  +..+++.++..+...|++++|
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~--~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD--MADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC--CHHHHHHHHHHHHHCCCHHHH
Confidence            4445566666655543222222  234555666666667777777777766666666  666666677777777777777


Q ss_pred             HHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhC
Q 004362           96 VDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQ  175 (759)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  175 (759)
                      +..|++..+.. +.+..+|..++.++...|++++|.+.|+...+..  |+..........+...+++++|...|.+....
T Consensus       118 ~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            77776666543 3345556666666666677777777776666643  33211111112233445666666666554332


Q ss_pred             CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhC---CC---CCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCC
Q 004362          176 GFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGM---GI---SPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRG  246 (759)
Q Consensus       176 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  246 (759)
                      . +++...+ .+  .....|+...+ +.++.+.+.   .+   +.....|..+...+.+.|++++|...|++.++.+
T Consensus       195 ~-~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        195 L-DKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             C-CccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            1 2222221 11  12223443332 233333211   00   0112345556666666666666666666666543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.31  E-value=8.8e-10  Score=110.56  Aligned_cols=239  Identities=15%  Similarity=0.093  Sum_probs=164.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC-C
Q 004362          462 FTFNTLIDGYCKQLKMEIAIEILNTMWSH-----G-VTPDVIT-YNSLLNGLCKAAKSEDVMETFKTMIEK-----RC-V  528 (759)
Q Consensus       462 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~  528 (759)
                      .+...+...|...|+++.|+.+++..+..     | ..|.+.+ .+.+...|...+++++|+.+|++++..     |. .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34444666666667777666666665543     1 1223322 334667778888888888888887753     21 1


Q ss_pred             C-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CccH-HHHHHHHHHHHccCChhhHHHHHHHHHHccC---
Q 004362          529 P-NIITYSILGESLCKAHKITEAFNLLEEMENK-----GL-TLDT-VAFGTLINGFCNSGDLDGAYQLFRRMEDQYK---  597 (759)
Q Consensus       529 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---  597 (759)
                      | -..++..|..+|...|++++|...++++.+.     +. .|.. ..+..++..|+..+++++|..+++...+...   
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            1 1236777778888888888888887776642     11 1222 2356677788889999999999988765432   


Q ss_pred             ---CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC----C--CCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh--
Q 004362          598 ---ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG----C--PPD-NYTYRIMIDSFCKTGGINSGYCLLLENID--  665 (759)
Q Consensus       598 ---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~--~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  665 (759)
                         .+....++..|+..|...|++++|.++++++++..    .  .+. ...++.++.+|.+.+++++|..+|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence               22346788999999999999999999999987641    1  222 45678899999999999999999988653  


Q ss_pred             --CCCC-CC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          666 --KGFI-PS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       666 --~g~~-p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                        .|.. |+ ..++..|...|...|++++|.++.+....
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence              2322 33 23455677777899999999999988763

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.30  E-value=1.5e-08  Score=98.18  Aligned_cols=386  Identities=15%  Similarity=0.085  Sum_probs=207.7

Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCCH
Q 004362          294 CGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPD-EFTYCSLINGLCQDGDV  372 (759)
Q Consensus       294 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  372 (759)
                      .+.+..|+++.|+..|-+..... ++|...|..-..+|++.|++++|.+--.+.++.  .|+ +..|+....++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccH
Confidence            45567899999999999998875 448888999999999999999998877776665  455 35788999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHH---HHHHHHHHhC---CCCCCHHHHHHHHHHHHh--------
Q 004362          373 DRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQA---LQLMNEMSES---GCCPDMWTYNIVINGLCK--------  438 (759)
Q Consensus       373 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a---~~~~~~~~~~---~~~~~~~~~~~l~~~~~~--------  438 (759)
                      ++|+.-|.+-++..+. +...++-+..++.......+.   -.++..+...   ........|..++..+-+        
T Consensus        87 ~eA~~ay~~GL~~d~~-n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~  165 (539)
T KOG0548|consen   87 EEAILAYSEGLEKDPS-NKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLY  165 (539)
T ss_pred             HHHHHHHHHHhhcCCc-hHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcc
Confidence            9999999999888655 777788888877211000000   0011110000   000001112222221110        


Q ss_pred             --cCChHHHHHHHHHH-----HHC-------CCCC------------C----------HhhHHHHHHHHHhcCCHHHHHH
Q 004362          439 --MGCVSDANNLVNDA-----ISK-------GYIP------------D----------IFTFNTLIDGYCKQLKMEIAIE  482 (759)
Q Consensus       439 --~~~~~~a~~~~~~~-----~~~-------~~~~------------~----------~~~~~~l~~~~~~~~~~~~A~~  482 (759)
                        -..+..+.-.+...     ...       +..|            |          ..-...+..+..+..+++.|++
T Consensus       166 l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q  245 (539)
T KOG0548|consen  166 LNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQ  245 (539)
T ss_pred             cccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHH
Confidence              00011111111000     000       0011            0          1122345666667778888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh-------cHHHHHHHHHhcCCHHHHHHHHH
Q 004362          483 ILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNII-------TYSILGESLCKAHKITEAFNLLE  555 (759)
Q Consensus       483 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~  555 (759)
                      -+.......  -+..-++....+|...|.+.+........++.|-. ...       .+..++.++.+.++++.++..|+
T Consensus       246 ~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~  322 (539)
T KOG0548|consen  246 HYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQ  322 (539)
T ss_pred             HHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHH
Confidence            888777753  34555566667777777777766666665554311 111       22334455666677888888888


Q ss_pred             HHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004362          556 EMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP  635 (759)
Q Consensus       556 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  635 (759)
                      +.+.....|+..         .+....+++....+...-.  .|.-..--..-+..+...|++.+|+..|.+++.+. |.
T Consensus       323 kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~  390 (539)
T KOG0548|consen  323 KALTEHRTPDLL---------SKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PE  390 (539)
T ss_pred             HHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-Cc
Confidence            766542232221         1122223333332222221  22222222233444555555555555555555443 22


Q ss_pred             CHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          636 DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG-RVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       636 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      |...|.....+|.+.|.+..|+.-.+..++  +.|+....+ .-+.++....+|++|.+.|++.++
T Consensus       391 Da~lYsNRAac~~kL~~~~~aL~Da~~~ie--L~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  391 DARLYSNRAACYLKLGEYPEALKDAKKCIE--LDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             hhHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            355555555555555555555555555555  455443332 223333444555555555555554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.28  E-value=4.1e-08  Score=95.25  Aligned_cols=418  Identities=15%  Similarity=0.070  Sum_probs=272.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-hhcHHHHHHHHHHcCCh
Q 004362          259 QGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPD-GFSYNAVIDGYCKAGMI  337 (759)
Q Consensus       259 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~  337 (759)
                      .+.+..|+++.|...|.+..... ++|.+.|+.-..+|...|++++|++--.+-.+.  .|+ ...|.....++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccH
Confidence            45667899999999999988776 668999999999999999999998876666654  444 45788888888999999


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHH------HHHHHc---CCCCCHHhHHHHHHHHH------
Q 004362          338 SSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVY------VKALEK---GLKPSIVLYNTLIKGLS------  402 (759)
Q Consensus       338 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~------~~~~~~---~~~~~~~~~~~l~~~~~------  402 (759)
                      ++|+..|.+-++.. +.+...++.+..++...  . .+.+.|      ..+...   ........|..++..+-      
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~--~-~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l  162 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAYLED--Y-AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSL  162 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhhhHH--H-HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhh
Confidence            99999999988774 33566777777776211  0 001111      111000   00001111222222111      


Q ss_pred             ----hcCCHHHHHHHHHH-----HHhC-------CCCC------------C----------HHHHHHHHHHHHhcCChHH
Q 004362          403 ----QQGLILQALQLMNE-----MSES-------GCCP------------D----------MWTYNIVINGLCKMGCVSD  444 (759)
Q Consensus       403 ----~~~~~~~a~~~~~~-----~~~~-------~~~~------------~----------~~~~~~l~~~~~~~~~~~~  444 (759)
                          +..+...+.-.+..     +...       +..|            +          ..-...+.++..+..++..
T Consensus       163 ~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~  242 (539)
T KOG0548|consen  163 KLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFET  242 (539)
T ss_pred             hcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHH
Confidence                10111111111110     0000       0111            0          1123445566667778888


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH-------HHHHHHhcCCHHHHHH
Q 004362          445 ANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNS-------LLNGLCKAAKSEDVME  517 (759)
Q Consensus       445 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~~  517 (759)
                      +.+.+.......  .+..-++....+|...|.+..+...-....+.|.. ...-++.       +..+|.+.++++.++.
T Consensus       243 a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~  319 (539)
T KOG0548|consen  243 AIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIK  319 (539)
T ss_pred             HHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHH
Confidence            888888887764  46666777778899999988888887777665432 2222333       3335666788899999


Q ss_pred             HHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccH-HHHHHHHHHHHccCChhhHHHHHHHHHHcc
Q 004362          518 TFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDT-VAFGTLINGFCNSGDLDGAYQLFRRMEDQY  596 (759)
Q Consensus       518 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  596 (759)
                      .|++.+..-..|+         ...+....+++....+...-.  .|.. .-...-...+.+.|++..|+..|.+++.. 
T Consensus       320 ~~~kaLte~Rt~~---------~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr-  387 (539)
T KOG0548|consen  320 YYQKALTEHRTPD---------LLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKR-  387 (539)
T ss_pred             HHHHHhhhhcCHH---------HHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc-
Confidence            9998776532332         222334445555555444432  2222 22233366778899999999999999998 


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          597 KISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       597 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                       .|+|...|.+.+-+|...|.+..|+.-.+..++.  .|+ ...|.-=+.++....+|+.|...|.++++  ++|++..+
T Consensus       388 -~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale--~dp~~~e~  462 (539)
T KOG0548|consen  388 -DPEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALE--LDPSNAEA  462 (539)
T ss_pred             -CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCchhHHH
Confidence             8999999999999999999999999999999876  455 66777777788889999999999999999  88988777


Q ss_pred             HHHHHHHHhc-CcHHHHHHHHHHHHHCCCCCc
Q 004362          676 GRVINCLCVD-HRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       676 ~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      ...+..+..+ ...+...++.++..   .+|+
T Consensus       463 ~~~~~rc~~a~~~~~~~ee~~~r~~---~dpe  491 (539)
T KOG0548|consen  463 IDGYRRCVEAQRGDETPEETKRRAM---ADPE  491 (539)
T ss_pred             HHHHHHHHHHhhcCCCHHHHHHhhc---cCHH
Confidence            6555555432 23333344444432   3565

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.27  E-value=3.1e-09  Score=106.67  Aligned_cols=199  Identities=21%  Similarity=0.205  Sum_probs=138.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----C-CCCCh-
Q 004362          466 TLIDGYCKQLKMEIAIEILNTMWSH-----GV-TP-DVITYNSLLNGLCKAAKSEDVMETFKTMIEK-----R-CVPNI-  531 (759)
Q Consensus       466 ~l~~~~~~~~~~~~A~~~~~~~~~~-----~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-  531 (759)
                      .+...|...+++.+|..+|+++...     |- .| -..+++.|..+|.+.|++++|..++++..+.     + ..|.. 
T Consensus       246 ~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~  325 (508)
T KOG1840|consen  246 ILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVA  325 (508)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHH
Confidence            4556677777777777777776643     11 11 1345666677777778877777776665542     1 11222 


Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCc----cHHHHHHHHHHHHccCChhhHHHHHHHHHHcc----C--C
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENK---GLTL----DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY----K--I  598 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~--~  598 (759)
                      ..++.++..|...+++++|..+++...+.   -+.+    -..++..+...|...|++++|.++|+.++...    +  .
T Consensus       326 ~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~  405 (508)
T KOG1840|consen  326 AQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKD  405 (508)
T ss_pred             HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcC
Confidence            24556677778888888888888876642   1122    24568889999999999999999999887643    1  3


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCC-CCC-HhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 004362          599 SHTTATYNIMINAFSEKLNFYMAEKLFYEMSE----KGC-PPD-NYTYRIMIDSFCKTGGINSGYCLLLENI  664 (759)
Q Consensus       599 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  664 (759)
                      +.....++.++..|.+.+++.+|.++|.+...    .|. .|+ ..+|..|+..|...|+++.|.++.+...
T Consensus       406 ~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  406 YGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            33456778888899888998888888887542    221 234 5789999999999999999999999876

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.26  E-value=5.7e-09  Score=100.95  Aligned_cols=227  Identities=11%  Similarity=-0.039  Sum_probs=129.5

Q ss_pred             ChHHHHHHHHHHHHCCC-C--CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004362          441 CVSDANNLVNDAISKGY-I--PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVME  517 (759)
Q Consensus       441 ~~~~a~~~~~~~~~~~~-~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  517 (759)
                      ..+.++..+.+++.... .  .....|..+...|...|+.++|...|++..+..+ .+...|+.+...+...|++++|..
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHHH
Confidence            44555555555554321 1  1234466666667777777777777777776532 256677777777777777777777


Q ss_pred             HHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccC
Q 004362          518 TFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK  597 (759)
Q Consensus       518 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  597 (759)
                      .|++.++.. +-+..++..++.++...|++++|.+.++...+.. +.+.. .......+...++.++|...|++....  
T Consensus       120 ~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~-P~~~~-~~~~~~l~~~~~~~~~A~~~l~~~~~~--  194 (296)
T PRK11189        120 AFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD-PNDPY-RALWLYLAESKLDPKQAKENLKQRYEK--  194 (296)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHccCCHHHHHHHHHHHHhh--
Confidence            777777653 2234566667777777777777777777777642 22221 111122234556777777777665433  


Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---C--CCC-CHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-
Q 004362          598 ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK---G--CPP-DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIP-  670 (759)
Q Consensus       598 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~--~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-  670 (759)
                      .+++.  |. ........|+..++ ..++.+.+.   .  +.| ...+|..++..+...|++++|+.+|+++++  ..| 
T Consensus       195 ~~~~~--~~-~~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~--~~~~  268 (296)
T PRK11189        195 LDKEQ--WG-WNIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALA--NNVY  268 (296)
T ss_pred             CCccc--cH-HHHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCc
Confidence            22221  11 12222334444333 233333311   0  112 245777888888888888888888888887  554 


Q ss_pred             CHHHHHHHH
Q 004362          671 SLSTIGRVI  679 (759)
Q Consensus       671 ~~~~~~~l~  679 (759)
                      +...+...+
T Consensus       269 ~~~e~~~~~  277 (296)
T PRK11189        269 NFVEHRYAL  277 (296)
T ss_pred             hHHHHHHHH
Confidence            554444433

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.26  E-value=8.8e-10  Score=107.41  Aligned_cols=251  Identities=14%  Similarity=0.048  Sum_probs=176.5

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004362          436 LCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDV  515 (759)
Q Consensus       436 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  515 (759)
                      +.+.|++.+|.-.|+..++.. +.+...|..|.......++-..|+..+++..+.... +......|...|...|.-.+|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHH
Confidence            456677777777777777664 346677777777777777777777777777776422 566667777777777777777


Q ss_pred             HHHHHHHHHcCCC-----C---ChhcHHHHHHHHHhcCCHHHHHHHHHHHH-HCCCCccHHHHHHHHHHHHccCChhhHH
Q 004362          516 METFKTMIEKRCV-----P---NIITYSILGESLCKAHKITEAFNLLEEME-NKGLTLDTVAFGTLINGFCNSGDLDGAY  586 (759)
Q Consensus       516 ~~~~~~~~~~~~~-----~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~  586 (759)
                      +..++.-+...++     +   +...-..  ..+..........++|-++. ..+..+|+.+...|.-.|...|++++|+
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            7777665543210     0   0000000  01111112233444444443 4454578888899999999999999999


Q ss_pred             HHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          587 QLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +.|+.++..  .|.|..+||.|+..+....+.++|+.-|+++++  +.|+ ..++..|+-+|...|.|++|.+.|-.++.
T Consensus       451 Dcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  451 DCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            999999998  999999999999999999999999999999994  5898 77888999999999999999999999875


Q ss_pred             C---CC------CCCHHHHHHHHHHHHhcCcHHHHHHH
Q 004362          666 K---GF------IPSLSTIGRVINCLCVDHRVHEAVGF  694 (759)
Q Consensus       666 ~---g~------~p~~~~~~~l~~~~~~~g~~~~A~~~  694 (759)
                      .   +-      .++...|..|-.++.-.++.|-+.+.
T Consensus       527 mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  527 MQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            1   11      12234566666666666776644443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.23  E-value=1.5e-07  Score=85.75  Aligned_cols=194  Identities=9%  Similarity=0.034  Sum_probs=113.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHH
Q 004362          470 GYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITE  549 (759)
Q Consensus       470 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  549 (759)
                      .+...|+...|++....+++.. +.|...+..-..+|...|++..|+.=++...+.. ..+..++..+...+...|+.+.
T Consensus       164 s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~  241 (504)
T KOG0624|consen  164 SASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAEN  241 (504)
T ss_pred             HHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHH
Confidence            3445566667777776666653 3466666666667777777777766555554432 3355566666666666777777


Q ss_pred             HHHHHHHHHHCCCCccHHHH----HHH---------HHHHHccCChhhHHHHHHHHHHccCCCC-c---hhhHHHHHHHH
Q 004362          550 AFNLLEEMENKGLTLDTVAF----GTL---------INGFCNSGDLDGAYQLFRRMEDQYKISH-T---TATYNIMINAF  612 (759)
Q Consensus       550 a~~~~~~~~~~~~~~~~~~~----~~l---------~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~---~~~~~~l~~~~  612 (759)
                      ++...++.++.  .||....    ..+         +......+++.++++..+...+.  .|. .   ...+..+-.++
T Consensus       242 sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~--ep~~~~ir~~~~r~~c~C~  317 (504)
T KOG0624|consen  242 SLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN--EPEETMIRYNGFRVLCTCY  317 (504)
T ss_pred             HHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc--CCcccceeeeeeheeeecc
Confidence            76666666653  3443221    111         11223445566666666666554  333 1   12233444566


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 004362          613 SEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      ...+++.+|++...++++  +.|| ..++.--..+|.....|+.|+.-|+++.+  .+|++.
T Consensus       318 ~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e--~n~sn~  375 (504)
T KOG0624|consen  318 REDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE--LNESNT  375 (504)
T ss_pred             cccCCHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCcccH
Confidence            666777777777777763  3454 66666666677777777777777777776  555543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=99.19  E-value=6.3e-06  Score=85.39  Aligned_cols=226  Identities=15%  Similarity=0.086  Sum_probs=137.6

Q ss_pred             cCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHH
Q 004362           16 HQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEA   95 (759)
Q Consensus        16 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   95 (759)
                      ..++.+.|++-....++++|..+...++..+.  +.+.|+.++|..+++..-...+.  +...+..+-.+|...+++++|
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~~~~--D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNALYAKVLKALS--LFRLGKGDEALKLLEALYGLKGT--DDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccCCCC--chHHHHHHHHHHHHHhhhhHH
Confidence            35678888888888888877666666555554  56888888888777665555454  666777788888888888888


Q ss_pred             HHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-C---------hhhH
Q 004362           96 VDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTR-R---------PHVA  165 (759)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------~~~A  165 (759)
                      ..+|+++....  |+......+..+|.+-+++.+-.++--++.+. ++-+...+=.+++...... .         ..-|
T Consensus        97 ~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   97 VHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            88888887553  56677777888888888777666665555553 2233444434444433221 1         1124


Q ss_pred             HHHHhhchhCC-CCCCHHhHHHHHHHHHhcCChhHHHHHHHH-HHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHh
Q 004362          166 LRLLKNMPSQG-FEPNAVAYCTLIAGFYEENHNVEAYELFDE-MLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVL  243 (759)
Q Consensus       166 ~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  243 (759)
                      .+.++.+.+.+ .--+..-.......+...|.+++|++++.. ....-...+...-+.-+..+...+++.+..++-.++.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            55555555443 111111122223334456677777777733 2222222233334455666667777777777777777


Q ss_pred             hCCCC
Q 004362          244 KRGVS  248 (759)
Q Consensus       244 ~~~~~  248 (759)
                      ..|.+
T Consensus       254 ~k~~D  258 (932)
T KOG2053|consen  254 EKGND  258 (932)
T ss_pred             HhCCc
Confidence            66543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.19  E-value=8.8e-08  Score=85.36  Aligned_cols=290  Identities=14%  Similarity=0.149  Sum_probs=192.9

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHH-HHHHHH
Q 004362           44 KYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNT-IMNILV  122 (759)
Q Consensus        44 ~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~  122 (759)
                      ...+..+.+-.++..|++++..-.+.+|.  +...+..++.+|....++..|-.+++++...  .|...-|.. -.+.+.
T Consensus        14 taviy~lI~d~ry~DaI~~l~s~~Er~p~--~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   14 TAVVYRLIRDARYADAIQLLGSELERSPR--SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCcc--chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            34455556778899999998888888876  7777888889999999999999999888743  344333332 245667


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHH
Q 004362          123 EYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKS--FCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEA  200 (759)
Q Consensus       123 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  200 (759)
                      +.+.+..|+.+...|...   |+...-..-+.+  ....+++..++.++++.+..+   +..+.+.......+.|++++|
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHH
Confidence            788888888888877652   332222222222  235678888888888887654   456666666777889999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCC-------------CHH---------------
Q 004362          201 YELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSP-------------NLF---------------  252 (759)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-------------~~~---------------  252 (759)
                      .+-|+...+.+--.....|+..+.. .+.|+++.|++...+++++|+..             |+.               
T Consensus       164 vqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~e  242 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVE  242 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHH
Confidence            9999998887655456677766544 46788999999999888876431             211               


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHH
Q 004362          253 TFNMFIQGLCRKGAISEAISLLDSLGRE-DLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGY  331 (759)
Q Consensus       253 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  331 (759)
                      .+|.-...+.+.|+++.|.+.+..|+-+ ....|++|...+.-.- ..+++.....-+.-++..++ -...||..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHHHHHH
Confidence            1222222345677888888888777633 1234555555443221 24455555555555555533 3456788888888


Q ss_pred             HHcCChhHHHHHHHH
Q 004362          332 CKAGMISSADKILND  346 (759)
Q Consensus       332 ~~~~~~~~a~~~~~~  346 (759)
                      |++.-++.|-+++.+
T Consensus       321 CKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  321 CKNEYFDLAADVLAE  335 (459)
T ss_pred             hhhHHHhHHHHHHhh
Confidence            888888888777654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.18  E-value=3.7e-07  Score=83.24  Aligned_cols=187  Identities=9%  Similarity=0.074  Sum_probs=101.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhH
Q 004362          506 LCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGA  585 (759)
Q Consensus       506 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  585 (759)
                      +...|+...|++....+++.. +-+...+..-..+|...|.+..|+.=++.+.+. ...+...+..+...+...|+.+.+
T Consensus       165 ~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askL-s~DnTe~~ykis~L~Y~vgd~~~s  242 (504)
T KOG0624|consen  165 ASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKL-SQDNTEGHYKISQLLYTVGDAENS  242 (504)
T ss_pred             HhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhc-cccchHHHHHHHHHHHhhhhHHHH
Confidence            344566666666666666642 224555555566666666666666666665554 233455555666666666666666


Q ss_pred             HHHHHHHHHccCCCCchhhHHH---H---------HHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhH---HHHHHHHH
Q 004362          586 YQLFRRMEDQYKISHTTATYNI---M---------INAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTY---RIMIDSFC  648 (759)
Q Consensus       586 ~~~~~~~~~~~~~~~~~~~~~~---l---------~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~---~~l~~~~~  648 (759)
                      +...++..+.  .|+....|..   +         +....+.++|.++++-.++.++.  .|.  ...+   ..+-.++.
T Consensus       243 L~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~--ep~~~~ir~~~~r~~c~C~~  318 (504)
T KOG0624|consen  243 LKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN--EPEETMIRYNGFRVLCTCYR  318 (504)
T ss_pred             HHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc--CCcccceeeeeeheeeeccc
Confidence            6666666665  4444333311   0         11223455666666666665544  333  1222   22333445


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          649 KTGGINSGYCLLLENIDKGFIPSLSTI-GRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       649 ~~g~~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ..|++.+|+....+.++  +.|++... -.-..++.-...+|+|+.-|+++.+
T Consensus       319 ~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  319 EDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             ccCCHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            55666666666666666  55653332 2344455555666666666666665

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=99.11  E-value=1.4e-05  Score=82.94  Aligned_cols=518  Identities=15%  Similarity=0.102  Sum_probs=277.6

Q ss_pred             HhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHH
Q 004362           51 GFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQV  130 (759)
Q Consensus        51 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  130 (759)
                      ...++|..|.+....+.+..|.  ..-+...-+-...+.|+.++|..+++.....+ ..|-.+...+-.+|.+.+..++|
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn--~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~-~~D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPN--ALYAKVLKALSLFRLGKGDEALKLLEALYGLK-GTDDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCC--cHHHHHHHHHHHHHhcCchhHHHHHhhhccCC-CCchHHHHHHHHHHHHHhhhhHH
Confidence            4678999999999999999988  33333333445679999999999998877555 34778888899999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhh----HHHHHhhchhCCCCCCHHhHHHHHHHHHhcC-C---------
Q 004362          131 HKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHV----ALRLLKNMPSQGFEPNAVAYCTLIAGFYEEN-H---------  196 (759)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------  196 (759)
                      ..+|++.....  |+......+..+|.+.+++..    |.+++...     +-+...+-++++...... .         
T Consensus        97 ~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~-----pk~~yyfWsV~Slilqs~~~~~~~~~~i~  169 (932)
T KOG2053|consen   97 VHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKNF-----PKRAYYFWSVISLILQSIFSENELLDPIL  169 (932)
T ss_pred             HHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-----CcccchHHHHHHHHHHhccCCcccccchh
Confidence            99999999854  888888888999999887776    45555533     334555555555544422 1         


Q ss_pred             hhHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhcCChhHHHHHHH-HHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004362          197 NVEAYELFDEMLGMG-ISPDIATFNKLIHTLCKKGNVRESEKLFN-KVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLL  274 (759)
Q Consensus       197 ~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  274 (759)
                      ..-|...++.+.+.+ .--+..-...-...+...|.+++|.+++. ...+.-..-+...-+.-+..+...+++.+..++-
T Consensus       170 l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~  249 (932)
T KOG2053|consen  170 LALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELS  249 (932)
T ss_pred             HHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHH
Confidence            123566677776654 21122223333455667889999999984 3333333334445556678888899999999998


Q ss_pred             HHHhhCCCCCCcchHHHHHHHHHh----------------CCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHH---cC
Q 004362          275 DSLGREDLTPDVVTYNTLMCGLCK----------------NSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCK---AG  335 (759)
Q Consensus       275 ~~~~~~~~~~~~~~~~~l~~~~~~----------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~---~~  335 (759)
                      .++...+ ..|   |...+..+.+                .+..+...+...+.....   ....|-+-+.+..+   -|
T Consensus       250 ~~Ll~k~-~Dd---y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~---~Rgp~LA~lel~kr~~~~g  322 (932)
T KOG2053|consen  250 SRLLEKG-NDD---YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSK---SRGPYLARLELDKRYKLIG  322 (932)
T ss_pred             HHHHHhC-Ccc---hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhccc---ccCcHHHHHHHHHHhcccC
Confidence            8888765 222   4333332111                112222222222222110   12233333333333   35


Q ss_pred             ChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHH---hHHHHHHHHHhcCC----
Q 004362          336 MISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKP--SIV---LYNTLIKGLSQQGL----  406 (759)
Q Consensus       336 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~---~~~~l~~~~~~~~~----  406 (759)
                      +.+++...|-+-  .|..|   .+..=+..|...=..+.-..++..........  +..   .+...+......|.    
T Consensus       323 d~ee~~~~y~~k--fg~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l  397 (932)
T KOG2053|consen  323 DSEEMLSYYFKK--FGDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKL  397 (932)
T ss_pred             ChHHHHHHHHHH--hCCCc---HhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccC
Confidence            555554433221  11111   11111222222222222222222222211000  000   01111111111121    


Q ss_pred             -HHHHHHHHHHHH---hCC------CCCCH---------HHHHHHHHHHHhcCChH---HHHHHHHHHHHCCCCCCHhhH
Q 004362          407 -ILQALQLMNEMS---ESG------CCPDM---------WTYNIVINGLCKMGCVS---DANNLVNDAISKGYIPDIFTF  464 (759)
Q Consensus       407 -~~~a~~~~~~~~---~~~------~~~~~---------~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~  464 (759)
                       -+.-..++.+..   +.|      .-|+.         .+.+.++..+.+.++..   +|+-+++...... +.+..+-
T Consensus       398 ~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~K  476 (932)
T KOG2053|consen  398 PADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTK  476 (932)
T ss_pred             ChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHH
Confidence             111122221111   111      11221         23455566676666654   3444444444432 3455555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhc
Q 004362          465 NTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKA  544 (759)
Q Consensus       465 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  544 (759)
                      -.++..|+-.|-+..|.++|..+.-.++..|...|. +..-+...|++..+...++...+---..-..+-..+..+| +.
T Consensus       477 LlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~-~~~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AY-r~  554 (932)
T KOG2053|consen  477 LLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHL-IFRRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAY-RR  554 (932)
T ss_pred             HHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHH-HHHHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHH-Hc
Confidence            667777877788888888888776665665554443 2334456677777777777666531011122333344444 44


Q ss_pred             CCHHHHHHHH---HHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHH
Q 004362          545 HKITEAFNLL---EEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRME  593 (759)
Q Consensus       545 ~~~~~a~~~~---~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  593 (759)
                      |.+.+..++.   +++..........+-+..+...+..++.+.-...+..+.
T Consensus       555 g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  555 GAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADRGTQLLKLLESMK  606 (932)
T ss_pred             CchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhccc
Confidence            5555544433   222222122223344556666677777777777777665

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.10  E-value=1.2e-08  Score=99.75  Aligned_cols=231  Identities=10%  Similarity=0.028  Sum_probs=144.6

Q ss_pred             CCHHHHHHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHH
Q 004362            5 VLPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMR   84 (759)
Q Consensus         5 l~~~~~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~   84 (759)
                      ..|...+-.+.+.|+..+|.-.|+.+..+.|  -...+|..|+.+-+..++-..|+..++++.+.+|.  +.++...|+.
T Consensus       286 pdPf~eG~~lm~nG~L~~A~LafEAAVkqdP--~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~--NleaLmaLAV  361 (579)
T KOG1125|consen  286 PDPFKEGCNLMKNGDLSEAALAFEAAVKQDP--QHAEAWQKLGITQAENENEQNAISALRRCLELDPT--NLEALMALAV  361 (579)
T ss_pred             CChHHHHHHHHhcCCchHHHHHHHHHHhhCh--HHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc--cHHHHHHHHH
Confidence            3566677777777777777777777766643  24566777777777777777777777777777777  7777777777


Q ss_pred             HHHhcCChhHHHHHHHHhhhCCCCCCHHHHHH----H-H--HHHHHcCChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHH
Q 004362           85 NYGRRGKVQEAVDVFERMDFYNCEPTVLSYNT----I-M--NILVEYGYFSQVHKVYMRMRNK-GIVPDVYTFVIRIKSF  156 (759)
Q Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~----l-~--~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  156 (759)
                      .|...|.-..|+++++......+ +-...-..    . .  ..+.....+....+.|.++... +..+|+.+...|.-.|
T Consensus       362 SytNeg~q~~Al~~L~~Wi~~~p-~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy  440 (579)
T KOG1125|consen  362 SYTNEGLQNQALKMLDKWIRNKP-KYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLY  440 (579)
T ss_pred             HHhhhhhHHHHHHHHHHHHHhCc-cchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHH
Confidence            77777777777777776653221 10000000    0 0  0111122233455555555543 3235666666666667


Q ss_pred             HccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhcCChhHH
Q 004362          157 CRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDI-ATFNKLIHTLCKKGNVRES  235 (759)
Q Consensus       157 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a  235 (759)
                      ...|++++|...|+.++... |.|...||.|...+....+..+|+..|.+.++.  .|.- .....|.-.|...|.+++|
T Consensus       441 ~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA  517 (579)
T KOG1125|consen  441 NLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEA  517 (579)
T ss_pred             hcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHH
Confidence            77777777777777777665 556667777777777777777777777777764  4442 2333345566677777777


Q ss_pred             HHHHHHHh
Q 004362          236 EKLFNKVL  243 (759)
Q Consensus       236 ~~~~~~~~  243 (759)
                      ...|-.++
T Consensus       518 ~~hlL~AL  525 (579)
T KOG1125|consen  518 VKHLLEAL  525 (579)
T ss_pred             HHHHHHHH
Confidence            76665554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.09  E-value=2e-07  Score=83.19  Aligned_cols=355  Identities=15%  Similarity=0.115  Sum_probs=210.0

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHH-HHH
Q 004362          216 IATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNT-LMC  294 (759)
Q Consensus       216 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~  294 (759)
                      ..-+...+..+.+..++..|.+++....+... .+....+.+..+|....++..|-..++++...  .|...-|.. -..
T Consensus        10 EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQ   86 (459)
T KOG4340|consen   10 EGEFTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQ   86 (459)
T ss_pred             CCchHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHH
Confidence            33466777777888888888888887766632 25556677777888888899999998888755  455444443 235


Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCChhc--HHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCH
Q 004362          295 GLCKNSKVVEAEYYLHKMVNEGLEPDGFS--YNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDV  372 (759)
Q Consensus       295 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  372 (759)
                      .+.+.+.+..|+.+...|.+.   |+...  ...-.....+.+++..+..+.+.....|   +..+.+.......+.|++
T Consensus        87 SLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccH
Confidence            667788888888888887653   22211  1111122345677888887777655322   455566666677788999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH----HHHHHHHHhcCChHHHHHH
Q 004362          373 DRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTY----NIVINGLCKMGCVSDANNL  448 (759)
Q Consensus       373 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~  448 (759)
                      +.|.+-|....+.+--.+...|+..+. ..+.+++..|++...++++.|++..+..-    ...+.+- ..|+.   ..+
T Consensus       161 EaAvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvr-svgNt---~~l  235 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVR-SVGNT---LVL  235 (459)
T ss_pred             HHHHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchh-cccch---HHH
Confidence            999999988887543335566665554 44677888899888888888764222100    0000000 00000   000


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004362          449 VNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHG-VTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRC  527 (759)
Q Consensus       449 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  527 (759)
                      ....       -...+|.-...+.+.++++.|.+.+..|.-+. ...|++|...+.-. ...+++.+..+-++-++..++
T Consensus       236 h~Sa-------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP  307 (459)
T KOG4340|consen  236 HQSA-------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP  307 (459)
T ss_pred             HHHH-------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC
Confidence            0000       01223333444567888888888887775331 23456666554432 234556666666666666543


Q ss_pred             CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-ccHHHHHHHHHHHHccCChhhHHHHHHHHH
Q 004362          528 VPNIITYSILGESLCKAHKITEAFNLLEEMENKGLT-LDTVAFGTLINGFCNSGDLDGAYQLFRRME  593 (759)
Q Consensus       528 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  593 (759)
                       -...||..++-.|++..-++.|..++.+-....+. .+...|+.+=......-..++|.+-+..+.
T Consensus       308 -fP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~La  373 (459)
T KOG4340|consen  308 -FPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGLA  373 (459)
T ss_pred             -CChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence             34678888888888888888888877664332211 122223322222233445666665555443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.09  E-value=1.7e-05  Score=77.47  Aligned_cols=186  Identities=15%  Similarity=0.159  Sum_probs=137.3

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHH
Q 004362          477 MEIAIEILNTMWSHGVTPDVITYNSLLNGLCKA---AKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNL  553 (759)
Q Consensus       477 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  553 (759)
                      .+++..+++..+..-...+..+|..+...--..   .+.+.....++++...-...-..+|...+..-.+..-...|..+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            345666666655432222333343333221111   12555666777777652222234677788888888889999999


Q ss_pred             HHHHHHCCCCc-cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          554 LEEMENKGLTL-DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       554 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  632 (759)
                      |.++.+.+..+ +..+..+++..|+ .++.+-|.++|+.-...  .++++..-...+.-+...++-..|..+|++++..+
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            99999876655 5666777776655 69999999999999988  67788888888999999999999999999999987


Q ss_pred             CCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          633 CPPD--NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       633 ~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ++|+  ..+|..++.--+.-|+.+.++++-++...
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            7777  57999999988999999999999888765

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.09  E-value=4.6e-07  Score=91.70  Aligned_cols=195  Identities=10%  Similarity=-0.040  Sum_probs=104.2

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhhcCCCCCCH-HHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh
Q 004362           10 VAAVVKHQKNPLTALEMFNSVKREDGFKHTL-LTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGR   88 (759)
Q Consensus        10 ~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (759)
                      ++.+....++++.|...+..........++. ......+..+...|++++|.+.++.+....|.  +..++.. ...+..
T Consensus        12 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~--~~~a~~~-~~~~~~   88 (355)
T cd05804          12 AALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR--DLLALKL-HLGAFG   88 (355)
T ss_pred             HHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC--cHHHHHH-hHHHHH
Confidence            3334444566666666666554433222222 22222333445667777777777777776665  4444432 222222


Q ss_pred             ----cCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhh
Q 004362           89 ----RGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHV  164 (759)
Q Consensus        89 ----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  164 (759)
                          .+..+.+.+.++.... ..+........+..++...|++++|...+++..+.. +.+...+..+...+...|++++
T Consensus        89 ~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~e  166 (355)
T cd05804          89 LGDFSGMRDHVARVLPLWAP-ENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKE  166 (355)
T ss_pred             hcccccCchhHHHHHhccCc-CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHH
Confidence                3334444444433111 111222333445556667777777777777777653 3345566666666777777777


Q ss_pred             HHHHHhhchhCCC-CCCH--HhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 004362          165 ALRLLKNMPSQGF-EPNA--VAYCTLIAGFYEENHNVEAYELFDEMLG  209 (759)
Q Consensus       165 A~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  209 (759)
                      |...+++...... .++.  ..|..+...+...|++++|+.+|++...
T Consensus       167 A~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         167 GIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            7777776655421 1121  2344566666677777777777777643

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.08  E-value=4e-10  Score=74.99  Aligned_cols=50  Identities=36%  Similarity=0.779  Sum_probs=41.0

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 004362          109 PTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCR  158 (759)
Q Consensus       109 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  158 (759)
                      ||+.+||.++.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            67788888888888888888888888888888888888888888887764

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.07  E-value=7.8e-07  Score=90.08  Aligned_cols=198  Identities=10%  Similarity=-0.024  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCcc-HHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 004362           41 LTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLL-EGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMN  119 (759)
Q Consensus        41 ~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  119 (759)
                      ..+..++..+...|+.+.+...+.......+...+ .+.....+..+...|++++|.+.++++.... |.+...+.. ..
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~   84 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HL   84 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hH
Confidence            34444555555556666666666555554433212 2333334555566677777777776665443 333333332 11


Q ss_pred             HHHH----cCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhc
Q 004362          120 ILVE----YGYFSQVHKVYMRMRNKGIVPD-VYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEE  194 (759)
Q Consensus       120 ~~~~----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  194 (759)
                      .+..    .+....+.+.+...  ....|+ ......+...+...|++++|.+.+++..+.. +.+...+..+...+...
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~  161 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             HHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHc
Confidence            2222    23333333333321  111122 2333344445556666666666666666654 44455556666666666


Q ss_pred             CChhHHHHHHHHHHhCCCC-CCh--hhHHHHHHHHHhcCChhHHHHHHHHHh
Q 004362          195 NHNVEAYELFDEMLGMGIS-PDI--ATFNKLIHTLCKKGNVRESEKLFNKVL  243 (759)
Q Consensus       195 ~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~  243 (759)
                      |++++|...+++....... ++.  ..|..+...+...|++++|..++++..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            6666666666665543211 111  123344555556666666666666654

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.07  E-value=4e-10  Score=74.98  Aligned_cols=49  Identities=47%  Similarity=0.772  Sum_probs=26.4

Q ss_pred             CCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 004362          179 PNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLC  227 (759)
Q Consensus       179 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  227 (759)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4455555555555555555555555555555555555555555555543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.05  E-value=1.3e-05  Score=92.44  Aligned_cols=264  Identities=13%  Similarity=-0.039  Sum_probs=121.5

Q ss_pred             HHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCh
Q 004362          153 IKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNV  232 (759)
Q Consensus       153 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  232 (759)
                      ...+...|++.+|...........  .-..............|++..+...++.+.......+..........+...|++
T Consensus       348 a~~~~~~g~~~~Al~~a~~a~d~~--~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~  425 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAAGDAQ--LLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRY  425 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCHH--HHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCH
Confidence            344556666666665444332110  000111112223444566666666655542111111222222333444566788


Q ss_pred             hHHHHHHHHHhhCCC------CCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCc----chHHHHHHHHHhCC
Q 004362          233 RESEKLFNKVLKRGV------SPNL--FTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDV----VTYNTLMCGLCKNS  300 (759)
Q Consensus       233 ~~a~~~~~~~~~~~~------~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~  300 (759)
                      +++...+......-.      .+..  .....+...+...|+++.|...+++........+.    ...+.+...+...|
T Consensus       426 ~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G  505 (903)
T PRK04841        426 SEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKG  505 (903)
T ss_pred             HHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcC
Confidence            888777776643210      1111  11122233445677777777777776542101111    12334444555677


Q ss_pred             ChHHHHHHHHHHHHCCC---CC--ChhcHHHHHHHHHHcCChhHHHHHHHHHHhC----CCCC---CcccHHHHHHHHHh
Q 004362          301 KVVEAEYYLHKMVNEGL---EP--DGFSYNAVIDGYCKAGMISSADKILNDAIFK----GFVP---DEFTYCSLINGLCQ  368 (759)
Q Consensus       301 ~~~~a~~~~~~~~~~~~---~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~  368 (759)
                      ++++|...+.+......   .+  ...++..+...+...|+++.|...+++....    +...   ....+..+...+..
T Consensus       506 ~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~  585 (903)
T PRK04841        506 ELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWE  585 (903)
T ss_pred             CHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence            77777777666553210   01  1123334445556667777776666655432    1110   11122333444555


Q ss_pred             cCCHHHHHHHHHHHHHcCC--CC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          369 DGDVDRAMAVYVKALEKGL--KP--SIVLYNTLIKGLSQQGLILQALQLMNEMS  418 (759)
Q Consensus       369 ~~~~~~A~~~~~~~~~~~~--~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  418 (759)
                      .|++++|...+.+......  .+  ....+..+...+...|+++.|...+++..
T Consensus       586 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~  639 (903)
T PRK04841        586 WARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLE  639 (903)
T ss_pred             hcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5666666666665543210  01  12223333444555566666666555543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.05  E-value=1.8e-05  Score=77.33  Aligned_cols=182  Identities=9%  Similarity=0.094  Sum_probs=133.3

Q ss_pred             HHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC---ChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 004362          547 ITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG---DLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEK  623 (759)
Q Consensus       547 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  623 (759)
                      .+++..+++..+..-...+..+|..+...-...-   ..+.....++++.......+ .-+|..+++.-.+..-+..|..
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~  387 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARK  387 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHH
Confidence            4667777777776433334444544443222222   36677777887776643333 3567778888888888999999


Q ss_pred             HHHHHHHcCCCC-CHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCcHHHHHHHHHHHHHC
Q 004362          624 LFYEMSEKGCPP-DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI-GRVINCLCVDHRVHEAVGFVHLMVQK  701 (759)
Q Consensus       624 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~  701 (759)
                      +|.++.+.+..+ +..+..+++. |.-+++.+-|.++|+-.++  --+|.+.+ ...+..+.+.|+-..|..+|++....
T Consensus       388 iF~kaR~~~r~~hhVfVa~A~mE-y~cskD~~~AfrIFeLGLk--kf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s  464 (656)
T KOG1914|consen  388 IFKKAREDKRTRHHVFVAAALME-YYCSKDKETAFRIFELGLK--KFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS  464 (656)
T ss_pred             HHHHHhhccCCcchhhHHHHHHH-HHhcCChhHHHHHHHHHHH--hcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc
Confidence            999999887666 4556666666 4558899999999999987  34554444 67778889999999999999999998


Q ss_pred             CCCCc----hHHHHHhc--cccccccchHHHHHHHhc
Q 004362          702 GIVPE----VVNTIFEA--DKREVASPKIVVEDLLKK  732 (759)
Q Consensus       702 ~~~p~----~~~~~~~~--~~~~~~~a~~~~~~~~~~  732 (759)
                      ++.|+    +|..+++.  .-|+...+.++-++....
T Consensus       465 ~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  465 VLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            77777    99999988  779999998888887664

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.02  E-value=6.2e-09  Score=98.75  Aligned_cols=256  Identities=14%  Similarity=0.091  Sum_probs=134.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHH
Q 004362          400 GLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEI  479 (759)
Q Consensus       400 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  479 (759)
                      -+.-.|++..++.-.+ ........+......+.+++...|+++.+.   .++.... .|.......+...+....+-+.
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHH
Confidence            3445677777776555 222211112334455667777777665433   3333322 4444444444433333234444


Q ss_pred             HHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          480 AIEILNTMWSHGVTP-DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEME  558 (759)
Q Consensus       480 A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  558 (759)
                      +..-+++.......+ +..........+...|++++|++++...      .+.......+..+.+.++++.|.+.++.|.
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~  158 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQ  158 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444333322221 2222222223455567777777766542      245566666777777777777777777776


Q ss_pred             HCCCCccHHHH---HHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004362          559 NKGLTLDTVAF---GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP  635 (759)
Q Consensus       559 ~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  635 (759)
                      +.  ..|....   .+++..+.-.+.+.+|..+|+++.+.  .++++.+.+.++.+....|++++|.++++++.+.+ +-
T Consensus       159 ~~--~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~  233 (290)
T PF04733_consen  159 QI--DEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PN  233 (290)
T ss_dssp             CC--SCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CC
T ss_pred             hc--CCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cC
Confidence            54  2333221   12222222233577777777777666  45667777777777777777777777777776542 22


Q ss_pred             CHhhHHHHHHHHHhcCCh-HHHHHHHHHHHhCCCCCCHH
Q 004362          636 DNYTYRIMIDSFCKTGGI-NSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       636 ~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~g~~p~~~  673 (759)
                      ++.++..++.+....|+. +.+.+++.++..  ..|+.+
T Consensus       234 ~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~--~~p~h~  270 (290)
T PF04733_consen  234 DPDTLANLIVCSLHLGKPTEAAERYLSQLKQ--SNPNHP  270 (290)
T ss_dssp             HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH--HTTTSH
T ss_pred             CHHHHHHHHHHHHHhCCChhHHHHHHHHHHH--hCCCCh
Confidence            366666666666666666 556666666665  556533

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.00  E-value=2.2e-07  Score=81.16  Aligned_cols=159  Identities=10%  Similarity=0.043  Sum_probs=85.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK  615 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  615 (759)
                      .++-+....|+.+.|..+++++.+. +|-+..+-..-+-.+...|.+++|+++|+.+.+.  .|.|..++..-+.+....
T Consensus        57 qV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d--dpt~~v~~KRKlAilka~  133 (289)
T KOG3060|consen   57 QVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKEAIEYYESLLED--DPTDTVIRKRKLAILKAQ  133 (289)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc--CcchhHHHHHHHHHHHHc
Confidence            3344444555566666666665554 3334443333333444556666666666666655  455555555555555555


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhc---CcHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG-RVINCLCVD---HRVHEA  691 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~---g~~~~A  691 (759)
                      |+.-+|++.+....+. +..|...|..+...|...|++++|...+++++-  +.|.++.+. .+...++-.   .+..-|
T Consensus       134 GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll--~~P~n~l~f~rlae~~Yt~gg~eN~~~a  210 (289)
T KOG3060|consen  134 GKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL--IQPFNPLYFQRLAEVLYTQGGAENLELA  210 (289)
T ss_pred             CCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHH
Confidence            5555666665555554 355566666666666666666666666666655  555444432 333333322   244445


Q ss_pred             HHHHHHHHH
Q 004362          692 VGFVHLMVQ  700 (759)
Q Consensus       692 ~~~~~~~~~  700 (759)
                      .++|.+.++
T Consensus       211 rkyy~~alk  219 (289)
T KOG3060|consen  211 RKYYERALK  219 (289)
T ss_pred             HHHHHHHHH
Confidence            566666555

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=99.00  E-value=9.8e-08  Score=96.01  Aligned_cols=221  Identities=14%  Similarity=0.028  Sum_probs=182.8

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004362          423 CPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSL  502 (759)
Q Consensus       423 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  502 (759)
                      +|--..-..+...+...|-...|..+++++.         .|...+.+|+..|+..+|..+..+..+.  +|++..|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHh
Confidence            3333344566777888999999999998654         4667888999999999999998888874  6899999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCCh
Q 004362          503 LNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDL  582 (759)
Q Consensus       503 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  582 (759)
                      +.+....--+++|.++.+....+       .-..++......++++++.+.++.-.+. -+.-..+|..+..+..+.+++
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~-nplq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI-NPLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc-CccchhHHHhccHHHHHHhhh
Confidence            88877777788888888765432       2223333334578999999999998876 356778899999999999999


Q ss_pred             hhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 004362          583 DGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLE  662 (759)
Q Consensus       583 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  662 (759)
                      ..|.+.|......  .|++...||++..+|.+.|+..+|...++++.+.+ ..+...|.+.+......|.+++|++.+.+
T Consensus       536 q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~r  612 (777)
T KOG1128|consen  536 QAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHR  612 (777)
T ss_pred             HHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHH
Confidence            9999999999988  99999999999999999999999999999999876 55678888888888999999999999999


Q ss_pred             HHh
Q 004362          663 NID  665 (759)
Q Consensus       663 ~~~  665 (759)
                      +.+
T Consensus       613 ll~  615 (777)
T KOG1128|consen  613 LLD  615 (777)
T ss_pred             HHH
Confidence            886

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=99.00  E-value=1.9e-07  Score=100.49  Aligned_cols=243  Identities=10%  Similarity=0.018  Sum_probs=189.8

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCC---hhcHHHHHHHHHhcCCHHHHHHHH
Q 004362          479 IAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEK-RCVPN---IITYSILGESLCKAHKITEAFNLL  554 (759)
Q Consensus       479 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~  554 (759)
                      .|...-+.++..  +.+...|-..+....+.++.+.|.+++++++.. +++-.   ...|.++++.-...|.-+...++|
T Consensus      1443 saeDferlvrss--PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVF 1520 (1710)
T KOG1070|consen 1443 SAEDFERLVRSS--PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVF 1520 (1710)
T ss_pred             CHHHHHHHHhcC--CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHH
Confidence            444444444442  445778999999999999999999999999876 22211   125677777777778888999999


Q ss_pred             HHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 004362          555 EEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCP  634 (759)
Q Consensus       555 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  634 (759)
                      +++.+.  -..-..|..|...|.+.+.+++|.++++.|.+.++  .....|...+..+.++.+-+.|..+++++++.  -
T Consensus      1521 eRAcqy--cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--l 1594 (1710)
T KOG1070|consen 1521 ERACQY--CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKS--L 1594 (1710)
T ss_pred             HHHHHh--cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--c
Confidence            999885  33455688899999999999999999999999965  67889999999999999999999999999875  3


Q ss_pred             CC---HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc----
Q 004362          635 PD---NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE----  706 (759)
Q Consensus       635 p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----  706 (759)
                      |.   .....-.+..-++.|+.+.+..+|+..+.  -.|. ...|..++..-.+.|+.+.+..+|+++...++.|.    
T Consensus      1595 Pk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~--ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKf 1672 (1710)
T KOG1070|consen 1595 PKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLS--AYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKF 1672 (1710)
T ss_pred             chhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHh--hCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHH
Confidence            43   33445556677899999999999999987  4564 55677788888999999999999999999999988    


Q ss_pred             hHHHHHhc--cccccccchHHHHHHHh
Q 004362          707 VVNTIFEA--DKREVASPKIVVEDLLK  731 (759)
Q Consensus       707 ~~~~~~~~--~~~~~~~a~~~~~~~~~  731 (759)
                      .+..|+++  ++|+-+.+..+=.++.+
T Consensus      1673 ffKkwLeyEk~~Gde~~vE~VKarA~E 1699 (1710)
T KOG1070|consen 1673 FFKKWLEYEKSHGDEKNVEYVKARAKE 1699 (1710)
T ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            77789998  56665444444344443

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.00  E-value=1.7e-08  Score=95.73  Aligned_cols=115  Identities=15%  Similarity=0.029  Sum_probs=48.2

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC--CHH
Q 004362          542 CKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL--NFY  619 (759)
Q Consensus       542 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~  619 (759)
                      ...|++++|++++...      .+.+.....+.+|.+.++++.|.+.++.+.+.  ..+...+...-+++....|  ++.
T Consensus       113 ~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~~l~qLa~awv~l~~g~e~~~  184 (290)
T PF04733_consen  113 FHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDSILTQLAEAWVNLATGGEKYQ  184 (290)
T ss_dssp             CCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCHHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHHHHHHHHHhCchhHH
Confidence            3344555554444321      23334444444555555555555555555433  2222222222222222222  345


Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          620 MAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       620 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +|..+|+++.++ +++++.+.+.++.++...|++++|...++++++
T Consensus       185 ~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~  229 (290)
T PF04733_consen  185 DAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALE  229 (290)
T ss_dssp             HHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            555555554433 234444455555555555555555555555444

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.99  E-value=1.5e-07  Score=94.76  Aligned_cols=222  Identities=14%  Similarity=0.081  Sum_probs=181.8

Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHH
Q 004362          456 GYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYS  535 (759)
Q Consensus       456 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  535 (759)
                      +.+|--..-..+...+.+.|-...|..++++..         .|...+.+|...|+..+|..+..+..++  +|++..|.
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc  461 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYC  461 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHH
Confidence            334444555667888899999999999998765         4677888999999999999988888774  68999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK  615 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  615 (759)
                      .++.......-+++|.++.+.....       +-..+.....+.++++++.+.|+...+.  .|-...+|..++.+..+.
T Consensus       462 ~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALql  532 (777)
T KOG1128|consen  462 LLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQL  532 (777)
T ss_pred             HhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHH
Confidence            9999988888889999888775432       2223333445589999999999999998  888899999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGF  694 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  694 (759)
                      +++..|.+.|...+.  +.|| ...|+++..+|.+.|+..+|...+.++++.... +...|....-....-|.+++|++.
T Consensus       533 ek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A  609 (777)
T KOG1128|consen  533 EKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKA  609 (777)
T ss_pred             hhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHH
Confidence            999999999999995  4777 889999999999999999999999999996522 333444444455788999999999


Q ss_pred             HHHHHH
Q 004362          695 VHLMVQ  700 (759)
Q Consensus       695 ~~~~~~  700 (759)
                      ++++..
T Consensus       610 ~~rll~  615 (777)
T KOG1128|consen  610 YHRLLD  615 (777)
T ss_pred             HHHHHH
Confidence            999876

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.96  E-value=3.4e-06  Score=97.23  Aligned_cols=333  Identities=12%  Similarity=0.042  Sum_probs=208.8

Q ss_pred             HHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC------CC--HHhHHHHHHHHH
Q 004362          331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLK------PS--IVLYNTLIKGLS  402 (759)
Q Consensus       331 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------~~--~~~~~~l~~~~~  402 (759)
                      ....|+++.+...++.+.......++.........+...|+++++...+......-..      +.  ......+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            3455777776666655422111123333444555667788999999888877543111      11  112222334456


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHCCC---CC--CHhhHHHHHHHHHh
Q 004362          403 QQGLILQALQLMNEMSESGCCPDM----WTYNIVINGLCKMGCVSDANNLVNDAISKGY---IP--DIFTFNTLIDGYCK  473 (759)
Q Consensus       403 ~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~  473 (759)
                      ..|++++|...+++....-...+.    .....+...+...|++++|...+.+......   .+  ...+...+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            789999999999887763111121    2344555667789999999998888764311   11  12344556667888


Q ss_pred             cCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCC--ChhcHHHHHHHHH
Q 004362          474 QLKMEIAIEILNTMWSH----GVT--P-DVITYNSLLNGLCKAAKSEDVMETFKTMIEK--RCVP--NIITYSILGESLC  542 (759)
Q Consensus       474 ~~~~~~A~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~l~~~~~  542 (759)
                      .|+++.|...+++....    +..  + ....+..+...+...|++++|...+.+....  ...+  ....+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            99999999988876642    211  1 2233445556677789999999988887653  1112  2234445667778


Q ss_pred             hcCCHHHHHHHHHHHHHC--CCCccHH--HH--HHHHHHHHccCChhhHHHHHHHHHHccCCCCchh----hHHHHHHHH
Q 004362          543 KAHKITEAFNLLEEMENK--GLTLDTV--AF--GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTA----TYNIMINAF  612 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~--~~~~~~~--~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~~l~~~~  612 (759)
                      ..|++++|...+..+...  .......  ..  ...+..+...|+.+.|...+......  .+....    .+..++.++
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKP--EFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCC--CCccchhHHHHHHHHHHHH
Confidence            899999999998887642  1111111  11  11224455688999999887775542  111111    145677888


Q ss_pred             HhcCCHHHHHHHHHHHHHc----CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          613 SEKLNFYMAEKLFYEMSEK----GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ...|++++|..+++++...    +..++ ..++..++.++...|+.++|...+.++++
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            8999999999999988753    22233 34667777889999999999999999987

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.95  E-value=4.5e-08  Score=82.77  Aligned_cols=118  Identities=7%  Similarity=-0.059  Sum_probs=88.1

Q ss_pred             HHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          552 NLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       552 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      .++++.++.  .|+  .+......+...|++++|...|+.+...  .|.+...|..++.++...|++++|+..|+++.+.
T Consensus        14 ~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            445555543  233  3555677777888888888888888877  7888888888888888888888888888888865


Q ss_pred             CCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004362          632 GCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRV  678 (759)
Q Consensus       632 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  678 (759)
                      . +.+...+..++.++...|++++|+..|+++++  +.|++..+...
T Consensus        88 ~-p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~--~~p~~~~~~~~  131 (144)
T PRK15359         88 D-ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIK--MSYADASWSEI  131 (144)
T ss_pred             C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHHH
Confidence            3 33477888888888888888888888888888  77876666543

>PLN02789 farnesyltranstransferase

Probab=98.94  E-value=5.8e-07  Score=86.61  Aligned_cols=194  Identities=8%  Similarity=0.004  Sum_probs=96.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhc
Q 004362          466 TLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA-KSEDVMETFKTMIEKRCVPNIITYSILGESLCKA  544 (759)
Q Consensus       466 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  544 (759)
                      .+-..+...+..++|+.+..+++..+. -+..+|+....++...| ++++++..++++.+.+. .+..+|......+.+.
T Consensus        42 ~~ra~l~~~e~serAL~lt~~aI~lnP-~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l  119 (320)
T PLN02789         42 YFRAVYASDERSPRALDLTADVIRLNP-GNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKL  119 (320)
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHc
Confidence            333444455566666666666665421 13344554444444444 35666666666655432 2334454444444444


Q ss_pred             CCH--HHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc---CCH-
Q 004362          545 HKI--TEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK---LNF-  618 (759)
Q Consensus       545 ~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~-  618 (759)
                      |+.  +++..+++.+++. -+-+..+|.....++...|+++++++.++++++.  .|.+..+|+..+.++...   |.. 
T Consensus       120 ~~~~~~~el~~~~kal~~-dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~  196 (320)
T PLN02789        120 GPDAANKELEFTRKILSL-DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLE  196 (320)
T ss_pred             CchhhHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--CCCchhHHHHHHHHHHhcccccccc
Confidence            432  4455555555544 2334555555555555555666666666666555  555555555555554433   111 


Q ss_pred             ---HHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc----CChHHHHHHHHHHHh
Q 004362          619 ---YMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT----GGINSGYCLLLENID  665 (759)
Q Consensus       619 ---~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~  665 (759)
                         ++++.+..+++... |-|...|+.+...+...    ++..+|...+.++++
T Consensus       197 ~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        197 AMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             ccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence               34455554554331 22355555555555442    233445555555444

>PLN02789 farnesyltranstransferase

Probab=98.94  E-value=1.1e-06  Score=84.63  Aligned_cols=185  Identities=9%  Similarity=0.015  Sum_probs=95.0

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCCh--hhH
Q 004362          509 AAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAH-KITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDL--DGA  585 (759)
Q Consensus       509 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~A  585 (759)
                      .++.++|+..+.++++.. +-+..+|.....++...| ++++++..++++... .+.+..+|+.-..++.+.|+.  +++
T Consensus        50 ~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~-npknyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         50 DERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAED-NPKNYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             CCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH-CCcchHHhHHHHHHHHHcCchhhHHH
Confidence            345556666666665542 113334444444455555 456666666666654 233444455444444444442  455


Q ss_pred             HHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc---CCh----HHHHH
Q 004362          586 YQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT---GGI----NSGYC  658 (759)
Q Consensus       586 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~----~~A~~  658 (759)
                      +.+++++.+.  .|.+.++|+..+.++...|+++++++.+.++++.+ +.|..+|+..+.++...   |.+    ++++.
T Consensus       128 l~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~  204 (320)
T PLN02789        128 LEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELK  204 (320)
T ss_pred             HHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHHHHHH
Confidence            6666666655  56666666666666666666666666666666543 23355555555544433   212    34555


Q ss_pred             HHHHHHhCCCCCCHHHH-HHHHHHHHh----cCcHHHHHHHHHHHHH
Q 004362          659 LLLENIDKGFIPSLSTI-GRVINCLCV----DHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       659 ~~~~~~~~g~~p~~~~~-~~l~~~~~~----~g~~~~A~~~~~~~~~  700 (759)
                      +..+++.  ..|++... ..+...+..    .++..+|.+.+.+...
T Consensus       205 y~~~aI~--~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        205 YTIDAIL--ANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             HHHHHHH--hCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence            5656665  55544333 233333333    1334456666555544

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.93  E-value=6.1e-07  Score=96.69  Aligned_cols=233  Identities=11%  Similarity=0.084  Sum_probs=158.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004362          425 DMWTYNIVINGLCKMGCVSDANNLVNDAISK-GYI---PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYN  500 (759)
Q Consensus       425 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  500 (759)
                      +...|...|......++.++|+++.++++.. ++.   --...|.++++.-..-|.-+...++|+++.+..  -....|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHH
Confidence            3456677777777788888888888777653 111   123466666666666777777788888877752  2345567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc--cHHHHHHHHHHHHc
Q 004362          501 SLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTL--DTVAFGTLINGFCN  578 (759)
Q Consensus       501 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~  578 (759)
                      .|...|.+.++.++|.++++.|.++ +.-....|...+..+.+..+-+.|..+++++++. .|-  ........+..-.+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~-lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS-LPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh-cchhhhHHHHHHHHHHHhh
Confidence            7777888888888888888888876 2345667777788888877778888888887765 222  34445556666677


Q ss_pred             cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHH
Q 004362          579 SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSG  656 (759)
Q Consensus       579 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A  656 (759)
                      .|+.+.+..+|+.....  .|.-...|+.+++.-.++|+.+.+..+|+++.+.++.|.  -..|...+.---..|+-+.+
T Consensus      1613 ~GDaeRGRtlfEgll~a--yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSA--YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             cCCchhhHHHHHHHHhh--CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhH
Confidence            78888888888887777  677777888888888888888888888888887777765  34455555544445654444


Q ss_pred             HHHHHHH
Q 004362          657 YCLLLEN  663 (759)
Q Consensus       657 ~~~~~~~  663 (759)
                      ..+=.++
T Consensus      1691 E~VKarA 1697 (1710)
T KOG1070|consen 1691 EYVKARA 1697 (1710)
T ss_pred             HHHHHHH
Confidence            4333333

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.93  E-value=1.4e-07  Score=83.41  Aligned_cols=156  Identities=13%  Similarity=0.113  Sum_probs=82.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh
Q 004362          535 SILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE  614 (759)
Q Consensus       535 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  614 (759)
                      ..+...+...|+-+....+....... .+.|.......+....+.|++..|+..++++...  .|+|...|+.++.+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l--~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL--APTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc--CCCChhhhhHHHHHHHH
Confidence            44444555555555555555444332 2334444444555555566666666666665555  55566666666666666


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCcHHHHH
Q 004362          615 KLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI-GRVINCLCVDHRVHEAV  692 (759)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~~~~g~~~~A~  692 (759)
                      .|+.++|..-|.++.+.  .|+ +..++.++-.+.-.|+++.|..++.++..  ..+.+... ..+.-.....|++++|.
T Consensus       147 ~Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l--~~~ad~~v~~NLAl~~~~~g~~~~A~  222 (257)
T COG5010         147 LGRFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLPAYL--SPAADSRVRQNLALVVGLQGDFREAE  222 (257)
T ss_pred             ccChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHh--CCCCchHHHHHHHHHHhhcCChHHHH
Confidence            66666666666655543  333 55555555555566666666666655555  33322222 23333334556666555


Q ss_pred             HHHHH
Q 004362          693 GFVHL  697 (759)
Q Consensus       693 ~~~~~  697 (759)
                      ++...
T Consensus       223 ~i~~~  227 (257)
T COG5010         223 DIAVQ  227 (257)
T ss_pred             hhccc
Confidence            54443

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.93  E-value=2.2e-07  Score=83.27  Aligned_cols=122  Identities=7%  Similarity=0.053  Sum_probs=90.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHH-HhcCC--HHH
Q 004362          544 AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAF-SEKLN--FYM  620 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~  620 (759)
                      .++.+++...++..++. -+.+...|..+...|...|++++|...|+++...  .|++...+..++.++ ...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~-~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA-NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            45566777777777665 3567777888888888888888888888888877  777888888888764 56666  478


Q ss_pred             HHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          621 AEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       621 A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      |.++++++++.+ +.+..++..++..+...|++++|+..|+++++  +.|.
T Consensus       129 A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~--l~~~  176 (198)
T PRK10370        129 TREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLD--LNSP  176 (198)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCC
Confidence            888888888653 33467777777788888888888888888877  4443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.90  E-value=1.9e-07  Score=87.93  Aligned_cols=182  Identities=8%  Similarity=-0.018  Sum_probs=104.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh---hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccH---HH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNI---ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDT---VA  568 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~  568 (759)
                      ....+..++..+...|++++|...|+++.... +.+.   ..+..++.++...|++++|...++++.+.. +.+.   ..
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHHH
Confidence            44455556666666666666666666666542 1111   244556666666666666666666666542 1111   13


Q ss_pred             HHHHHHHHHcc--------CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhH
Q 004362          569 FGTLINGFCNS--------GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTY  640 (759)
Q Consensus       569 ~~~l~~~~~~~--------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  640 (759)
                      +..+..++...        |++++|++.|+.+...  .|.+...+..+.......+          ..        ....
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~----------~~--------~~~~  169 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRN----------RL--------AGKE  169 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHH----------HH--------HHHH
Confidence            44444444433        5566666666666655  4444333322221110000          00        0011


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          641 RIMIDSFCKTGGINSGYCLLLENIDKGFIPS----LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       641 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ..++..+...|++++|+..++++++  ..|+    ...+..+...+...|++++|.++++.+..
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVE--NYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHH--HCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            2456677888999999999999887  3333    34556677777888999999998888765

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).

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.87  E-value=3.9e-07  Score=80.62  Aligned_cols=153  Identities=12%  Similarity=0.082  Sum_probs=69.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCC
Q 004362          502 LLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGD  581 (759)
Q Consensus       502 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  581 (759)
                      +...+...|+-+....+........ +.+.......+....+.|++..|...++++... -++|...|+.+.-+|.+.|+
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr  149 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGR  149 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccC
Confidence            3344444444444444444332221 112223333444444455555555555554443 24444555555555555555


Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCL  659 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  659 (759)
                      .+.|..-|.+..+.  .|.++..+++++..|.-.|+++.|..++......+ +-|..+-..|...-...|++++|..+
T Consensus       150 ~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         150 FDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             hhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhh
Confidence            55555555555444  44444444555555555555555555554444331 11344444444444445555554443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.87  E-value=7.8e-07  Score=94.71  Aligned_cols=135  Identities=13%  Similarity=0.141  Sum_probs=103.3

Q ss_pred             CCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHH
Q 004362          527 CVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYN  606 (759)
Q Consensus       527 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  606 (759)
                      ...+...+..|+.+..+.|++++|..+++.+.+. .|.+......++..+.+.+++++|...+++....  .|++.....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~-~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~  158 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR-FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREIL  158 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh-CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHH
Confidence            3445777777888888888888888888888775 3445566677777888888888888888888877  777888888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          607 IMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       607 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .++.++...|++++|+.+|+++...+ +.+..++..++.++...|+.++|...|+++++
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88888888888888888888887632 23377788888888888888888888888876

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.84  E-value=5e-07  Score=85.05  Aligned_cols=187  Identities=12%  Similarity=-0.006  Sum_probs=132.7

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh---
Q 004362          458 IPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVT-P-DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNII---  532 (759)
Q Consensus       458 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---  532 (759)
                      ......+..++..+...|+++.|...|+++...... | ....+..+..++...|++++|+..++++++.... +..   
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~  108 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN-HPDADY  108 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCchHH
Confidence            345667788888899999999999999999886321 1 1246777888999999999999999999986421 222   


Q ss_pred             cHHHHHHHHHhc--------CCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhh
Q 004362          533 TYSILGESLCKA--------HKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTAT  604 (759)
Q Consensus       533 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  604 (759)
                      ++..++.++...        |++++|.+.++.+.+. .+.+...+..+.....    ...       ..        ...
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~p~~~~~~~a~~~~~~----~~~-------~~--------~~~  168 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR-YPNSEYAPDAKKRMDY----LRN-------RL--------AGK  168 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH-CCCChhHHHHHHHHHH----HHH-------HH--------HHH
Confidence            466666777654        7889999999999876 2333333322221111    000       00        112


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CC-CHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          605 YNIMINAFSEKLNFYMAEKLFYEMSEKGC-PP-DNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       605 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ...++..+...|++.+|+..++++++..- .| ....+..++.++...|++++|..+++.+..
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            23577788899999999999999886521 12 256888899999999999999998888776

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.84  E-value=3.9e-07  Score=81.63  Aligned_cols=146  Identities=6%  Similarity=0.022  Sum_probs=113.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCC
Q 004362          538 GESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLN  617 (759)
Q Consensus       538 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  617 (759)
                      +..|...|+++.+....+.+..    |.        ..+...++.++++..+++....  .|++...|..++..|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCC
Confidence            3456777887776544433221    11        0122367788999999999988  89999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHH-HhcCC--hHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCcHHHHHH
Q 004362          618 FYMAEKLFYEMSEKGCPPDNYTYRIMIDSF-CKTGG--INSGYCLLLENIDKGFIPSLSTI-GRVINCLCVDHRVHEAVG  693 (759)
Q Consensus       618 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~~~~g~~~~A~~  693 (759)
                      +++|+..|+++.+.. +.+...+..++.++ ...|+  .++|..+++++++  ..|++... ..+...+.+.|++++|+.
T Consensus        89 ~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~--~dP~~~~al~~LA~~~~~~g~~~~Ai~  165 (198)
T PRK10370         89 YDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALA--LDANEVTALMLLASDAFMQADYAQAIE  165 (198)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH--hCCCChhHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999653 33488888888864 67777  5999999999999  88865554 455555689999999999


Q ss_pred             HHHHHHH
Q 004362          694 FVHLMVQ  700 (759)
Q Consensus       694 ~~~~~~~  700 (759)
                      .++++.+
T Consensus       166 ~~~~aL~  172 (198)
T PRK10370        166 LWQKVLD  172 (198)
T ss_pred             HHHHHHh
Confidence            9999987

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.80  E-value=6.3e-06  Score=72.36  Aligned_cols=188  Identities=10%  Similarity=0.120  Sum_probs=137.0

Q ss_pred             CCHHHHHHHHHHHHHC---C-CCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHH
Q 004362          475 LKMEIAIEILNTMWSH---G-VTPDVI-TYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITE  549 (759)
Q Consensus       475 ~~~~~A~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  549 (759)
                      .+.++..+++..+...   | ..++.. .+..++-+....|+.+.|..+++.+..+- +-+...-..-+..+...|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhh
Confidence            3455555555555432   2 233432 34555566677888889999999888763 3333343334445567789999


Q ss_pred             HHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          550 AFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       550 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      |+++++.+++.+ |.|..++..-+.+....|+.-+|++-+....+.  .+.|..+|..++..|...|++++|.-.+++++
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            999999998864 666777776677777788888999999988888  78899999999999999999999999999988


Q ss_pred             HcCCCC-CHhhHHHHHHHHHhcC---ChHHHHHHHHHHHhCCCCC
Q 004362          630 EKGCPP-DNYTYRIMIDSFCKTG---GINSGYCLLLENIDKGFIP  670 (759)
Q Consensus       630 ~~~~~p-~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~g~~p  670 (759)
                      -.  .| ++..+..++..++..|   +++-|.++|.++++  +.|
T Consensus       182 l~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alk--l~~  222 (289)
T KOG3060|consen  182 LI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALK--LNP  222 (289)
T ss_pred             Hc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH--hCh
Confidence            44  45 4666777777666554   56778999999999  777

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.77  E-value=5.3e-07  Score=76.30  Aligned_cols=123  Identities=9%  Similarity=-0.068  Sum_probs=95.0

Q ss_pred             HHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc
Q 004362          517 ETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY  596 (759)
Q Consensus       517 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  596 (759)
                      .++++.++.  .|+  .+...+.++...|++++|...|+.+... -+.+...+..+..++...|++++|+..|+++... 
T Consensus        14 ~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l-   87 (144)
T PRK15359         14 DILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMA-QPWSWRAHIALAGTWMMLKEYTTAINFYGHALML-   87 (144)
T ss_pred             HHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-
Confidence            345555543  233  3556777888888999999999888876 3557888888888899999999999999999887 


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHH
Q 004362          597 KISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFC  648 (759)
Q Consensus       597 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~  648 (759)
                       .|.++..+..++.++...|++++|+..|+++++.  .|+ +..|.....++.
T Consensus        88 -~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~--~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         88 -DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM--SYADASWSEIRQNAQI  137 (144)
T ss_pred             -CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHH
Confidence             8888899999999999999999999999998865  455 555555554443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.76  E-value=8.3e-07  Score=94.51  Aligned_cols=175  Identities=12%  Similarity=0.008  Sum_probs=134.7

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhhc-CCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh
Q 004362           10 VAAVVKHQKNPLTALEMFNSVKRE-DGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGR   88 (759)
Q Consensus        10 ~~~~l~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (759)
                      +..++.+.+.+..+..-+-.+... ..+..++..+..|+.+..+.|++++|+.+++.+....|.  ...++..++..+.+
T Consensus        55 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd--~~~a~~~~a~~L~~  132 (694)
T PRK15179         55 ARQVLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD--SSEAFILMLRGVKR  132 (694)
T ss_pred             HHHHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC--cHHHHHHHHHHHHH
Confidence            344555555443333333332221 235567888899999999999999999999999999988  88899999999999


Q ss_pred             cCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHH
Q 004362           89 RGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRL  168 (759)
Q Consensus        89 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  168 (759)
                      .+++++|+..+++..... +.+......+..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|...
T Consensus       133 ~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~  210 (694)
T PRK15179        133 QQGIEAGRAEIELYFSGG-SSSAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDV  210 (694)
T ss_pred             hccHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999988665 5667778888889999999999999999999843 33478888899999999999999999


Q ss_pred             HhhchhCCCCCCHHhHHHHHH
Q 004362          169 LKNMPSQGFEPNAVAYCTLIA  189 (759)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~l~~  189 (759)
                      |+...... .+-...|+..+.
T Consensus       211 ~~~a~~~~-~~~~~~~~~~~~  230 (694)
T PRK15179        211 LQAGLDAI-GDGARKLTRRLV  230 (694)
T ss_pred             HHHHHHhh-CcchHHHHHHHH
Confidence            99887763 344566665544

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.74  E-value=3.9e-07  Score=77.09  Aligned_cols=117  Identities=13%  Similarity=0.070  Sum_probs=84.2

Q ss_pred             HHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004362          554 LEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGC  633 (759)
Q Consensus       554 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  633 (759)
                      +++++.. .+.+......++..+...|++++|...|+.+...  .|.++..+..++.++...|++++|...++++.+.+ 
T Consensus         6 ~~~~l~~-~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         6 LKDLLGL-DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             HHHHHcC-ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            4444443 1224455666677777788888888888887776  67777888888888888888888888888877553 


Q ss_pred             CCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          634 PPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       634 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      +.+...+..++.++...|++++|+..++++++  +.|+...+.
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~  122 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIE--ICGENPEYS  122 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hccccchHH
Confidence            34467777777888888888888888888888  667665543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.73  E-value=1.5e-06  Score=93.29  Aligned_cols=205  Identities=9%  Similarity=0.023  Sum_probs=148.1

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHH
Q 004362          459 PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD-VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSIL  537 (759)
Q Consensus       459 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  537 (759)
                      .+...+..|+..|...+++++|.++.+...+.  .|+ ...|..+...+.+.++..++..+  .               +
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~---------------~   89 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--N---------------L   89 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--h---------------h
Confidence            35677888999999999999999999977775  344 33444444466667766555544  2               2


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCC
Q 004362          538 GESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLN  617 (759)
Q Consensus       538 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  617 (759)
                      +.......++.-...++..+.+  ...+..++..++.+|.+.|+.++|...|+++.+.  .|.++.+.|.++..|... +
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~--~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~--D~~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILL--YGENKLALRTLAEAYAKLNENKKLKGVWERLVKA--DRDNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHh--hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHh-h
Confidence            3333344455444555555555  3345568889999999999999999999999999  799999999999999999 9


Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH---------------------H
Q 004362          618 FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI---------------------G  676 (759)
Q Consensus       618 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~---------------------~  676 (759)
                      +++|.+++.+++..               +...+++..+..+|++++.  ..|+....                     .
T Consensus       165 L~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~  227 (906)
T PRK14720        165 KEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGHREFTRLVGLLE  227 (906)
T ss_pred             HHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhhhccchhHHHHH
Confidence            99999999998865               4455566667777777666  44543222                     2


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          677 RVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       677 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      -+...|-..++|++++.+++.+++  ..|+
T Consensus       228 ~l~~~y~~~~~~~~~i~iLK~iL~--~~~~  255 (906)
T PRK14720        228 DLYEPYKALEDWDEVIYILKKILE--HDNK  255 (906)
T ss_pred             HHHHHHhhhhhhhHHHHHHHHHHh--cCCc
Confidence            222344566789999999999998  6676

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.72  E-value=7.3e-06  Score=79.35  Aligned_cols=116  Identities=9%  Similarity=0.051  Sum_probs=66.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHH
Q 004362          540 SLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFY  619 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  619 (759)
                      .+...|++++|+..+..++.. .|.++..+......+.+.++.++|.+.++++...  .|........++.+|.+.|++.
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChH
Confidence            334455566666666665554 3444444555555566666666666666666655  5555555556666666666666


Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHH
Q 004362          620 MAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCL  659 (759)
Q Consensus       620 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  659 (759)
                      +|+.+++...... +.|+..|..|..+|...|+..++...
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A  430 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLA  430 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHH
Confidence            6666666555432 33456666666666666655555443

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.60  E-value=1.2e-05  Score=77.99  Aligned_cols=174  Identities=11%  Similarity=-0.025  Sum_probs=139.3

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIM  643 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l  643 (759)
                      -........-.+...|++++|+..++.+...  .|+|+..+...+..+...++.++|.+.+++++..  .|+ ...+.++
T Consensus       305 ~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~  380 (484)
T COG4783         305 GLAAQYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNL  380 (484)
T ss_pred             chHHHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHH
Confidence            3344455555677889999999999999988  8999999999999999999999999999999965  677 7888899


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCchHHHHHhccccccccc
Q 004362          644 IDSFCKTGGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVASP  722 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~a  722 (759)
                      +.++.+.|+..+|+.++++...  -.|+ ...|..+...|...|+..+|...+-++..              -.|++++|
T Consensus       381 a~all~~g~~~eai~~L~~~~~--~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~--------------~~G~~~~A  444 (484)
T COG4783         381 AQALLKGGKPQEAIRILNRYLF--NDPEDPNGWDLLAQAYAELGNRAEALLARAEGYA--------------LAGRLEQA  444 (484)
T ss_pred             HHHHHhcCChHHHHHHHHHHhh--cCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHH--------------hCCCHHHH
Confidence            9999999999999999999988  5565 55667788888999999999988887754              46788899


Q ss_pred             hHHHHHHHhcCCC--chHH-HHHHHhhhhhhhhhhhhcC
Q 004362          723 KIVVEDLLKKSHI--TYYA-YELLFDGIRDKKLLKKKAS  758 (759)
Q Consensus       723 ~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~~~~~~  758 (759)
                      ...+.++.+..-.  |+.. .+..++.++..+...++..
T Consensus       445 ~~~l~~A~~~~~~~~~~~aR~dari~~~~~~~~~~k~~~  483 (484)
T COG4783         445 IIFLMRASQQVKLGFPDWARADARIDQLRQQNEEFKPYT  483 (484)
T ss_pred             HHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            9998888886433  4433 4455666666555555443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.57  E-value=1.4e-06  Score=73.69  Aligned_cols=113  Identities=12%  Similarity=0.046  Sum_probs=93.4

Q ss_pred             HHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 004362          587 QLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDK  666 (759)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  666 (759)
                      ..++++...  .|.+......++..+...|++++|.+.++++.+.+ +.+...|..++.++...|++++|..+++++++ 
T Consensus         4 ~~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~-   79 (135)
T TIGR02552         4 ATLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAA-   79 (135)
T ss_pred             hhHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-
Confidence            356666666  67777888889999999999999999999998753 44688899999999999999999999999998 


Q ss_pred             CCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          667 GFIPSL-STIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       667 g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                       ..|++ ..+..+...+...|++++|..++++..+  ..|+
T Consensus        80 -~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~  117 (135)
T TIGR02552        80 -LDPDDPRPYFHAAECLLALGEPESALKALDLAIE--ICGE  117 (135)
T ss_pred             -cCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hccc
Confidence             66764 5555666667899999999999999988  4444

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.55  E-value=2.4e-05  Score=84.34  Aligned_cols=238  Identities=10%  Similarity=0.070  Sum_probs=147.1

Q ss_pred             ChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 004362          320 DGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIK  399 (759)
Q Consensus       320 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  399 (759)
                      +...+..++..+...+++++|.++.+...... +.....|..+...+.+.++.+.+..+                 .++.
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~   91 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL-----------------NLID   91 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh-----------------hhhh
Confidence            44567788888888899999999988777653 22344444555566667765555444                 2223


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHH
Q 004362          400 GLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEI  479 (759)
Q Consensus       400 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  479 (759)
                      ......++.....+...+...  .-+...+..+..+|-+.|+.+++..+++++++.. +.++.+.|.+...|+.. +.++
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            333334443333333444443  2345577788888888999999999999988876 55788888888888888 8899


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          480 AIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMEN  559 (759)
Q Consensus       480 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  559 (759)
                      |.+++.+....               +...+++..+.++|.++.... +.+...                -..+.+.+..
T Consensus       168 A~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~-~~d~d~----------------f~~i~~ki~~  215 (906)
T PRK14720        168 AITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYN-SDDFDF----------------FLRIERKVLG  215 (906)
T ss_pred             HHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcC-cccchH----------------HHHHHHHHHh
Confidence            98888887763               444556777777777776652 111111                1222222222


Q ss_pred             C-CCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHH
Q 004362          560 K-GLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFS  613 (759)
Q Consensus       560 ~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  613 (759)
                      . +..--..++..+...|...+++++++.+++.+.+.  .|.+..+...++.+|.
T Consensus       216 ~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~--~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        216 HREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEH--DNKNNKAREELIRFYK  268 (906)
T ss_pred             hhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc--CCcchhhHHHHHHHHH
Confidence            1 22223334445555566666666666666666666  5555555666665554

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.54  E-value=3.9e-05  Score=68.12  Aligned_cols=46  Identities=17%  Similarity=0.190  Sum_probs=18.0

Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      +.+|.-+|+++.++  .||++.+.+..+.+....|++++|..++++++
T Consensus       189 ~qdAfyifeE~s~k--~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL  234 (299)
T KOG3081|consen  189 IQDAFYIFEELSEK--TPPTPLLLNGQAVCHLQLGRYEEAESLLEEAL  234 (299)
T ss_pred             hhhHHHHHHHHhcc--cCCChHHHccHHHHHHHhcCHHHHHHHHHHHH
Confidence            33333333333333  33333333333333333444444444444333

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.53  E-value=8.9e-07  Score=80.00  Aligned_cols=102  Identities=11%  Similarity=0.062  Sum_probs=80.5

Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCCh
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGI  653 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  653 (759)
                      -..+.+++.+|+..|..+++.  .|.++..|...+.+|.+.|.++.|++-.+.++.  +.|. ..+|..|+.+|...|++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcH
Confidence            345667888888888888888  788888888888888888888888888888874  4566 67888888888888888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          654 NSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       654 ~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      ++|+..|+++++  ++|++++|-.-+...
T Consensus       166 ~~A~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  166 EEAIEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            888888888888  888888775544444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.46  E-value=9.4e-06  Score=67.03  Aligned_cols=109  Identities=6%  Similarity=-0.025  Sum_probs=86.5

Q ss_pred             ccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHH
Q 004362          564 LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIM  643 (759)
Q Consensus       564 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l  643 (759)
                      .+......+...+...|++++|.++|+.+...  .|.+...|..++-++...|++++|+..|.++.... +.|+..+-.+
T Consensus        33 ~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~a  109 (157)
T PRK15363         33 QPLNTLYRYAMQLMEVKEFAGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAA  109 (157)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHH
Confidence            34555667777788889999999999988887  88888889999999999999999999999988653 3348888888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhC-CCCCCHHHH
Q 004362          644 IDSFCKTGGINSGYCLLLENIDK-GFIPSLSTI  675 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~~-g~~p~~~~~  675 (759)
                      +.++...|+.+.|++.|+.++.. +-.|.....
T Consensus       110 g~c~L~lG~~~~A~~aF~~Ai~~~~~~~~~~~l  142 (157)
T PRK15363        110 AECYLACDNVCYAIKALKAVVRICGEVSEHQIL  142 (157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhccChhHHHH
Confidence            88999999999999999988863 334544433

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.46  E-value=8.6e-06  Score=69.39  Aligned_cols=125  Identities=10%  Similarity=0.034  Sum_probs=67.3

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHH
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIM  643 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l  643 (759)
                      |..++..+ ..++...+...++.+...  .|.+   ......++..+...|++++|...|+.+.+....|+  ......|
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-QAGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            33333333 256666666666666665  3443   33334455666666666666666666665431111  2234445


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 004362          644 IDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLM  698 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  698 (759)
                      ..++...|++++|+..++....  -.............+.+.|++++|...|+++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~--~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPD--EAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccC--cchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            5666666777777766655322  1112233334455556667777777666654

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.40  E-value=0.00032  Score=62.56  Aligned_cols=138  Identities=17%  Similarity=0.099  Sum_probs=76.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh----c
Q 004362          469 DGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK----A  544 (759)
Q Consensus       469 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  544 (759)
                      ..|...+++++|++..+...      +......-...+.+..+.+-|.+.++.|.+-.   +..|.+.|.+++.+    .
T Consensus       116 ~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~gg  186 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGG  186 (299)
T ss_pred             HHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccc
Confidence            34556666666666655521      22223233334455556666666666665532   44455555555532    2


Q ss_pred             CCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCH
Q 004362          545 HKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNF  618 (759)
Q Consensus       545 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  618 (759)
                      +.+.+|.-+|+++-++ .+|++.+.+..+.++...|++++|..+++.+..+  .+.++.+..+++.+-...|..
T Consensus       187 ek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k--d~~dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK--DAKDPETLANLIVLALHLGKD  257 (299)
T ss_pred             hhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCC
Confidence            3466666666666654 4566666666666666666666666666666665  555555555555554444443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.38  E-value=3.2e-05  Score=72.97  Aligned_cols=153  Identities=13%  Similarity=0.026  Sum_probs=72.7

Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhh-------------HH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYT-------------YR  641 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~-------------~~  641 (759)
                      ++.-.|++++|...--.+.+.  .+.+......-+.++.-.++.+.|+..|++.+..  .|+...             |.
T Consensus       178 cl~~~~~~~~a~~ea~~ilkl--d~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k  253 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKL--DATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKK  253 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhc--ccchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHH
Confidence            344455555555555555554  4444444444445555555555555555555532  343221             12


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-----HHHHHHHhcCcHHHHHHHHHHHHHCCCCCchHHHHHhc--
Q 004362          642 IMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG-----RVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEA--  714 (759)
Q Consensus       642 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~~--  714 (759)
                      .-+.-.++.|++.+|...|.+++.  ++|++...+     .......+.|+..+|+.-.+++..  ++|.....++..  
T Consensus       254 ~~gN~~fk~G~y~~A~E~Yteal~--idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syikall~ra~  329 (486)
T KOG0550|consen  254 ERGNDAFKNGNYRKAYECYTEALN--IDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKALLRRAN  329 (486)
T ss_pred             hhhhhHhhccchhHHHHHHHHhhc--CCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHHHHHHHH
Confidence            222233445555555555555555  445432221     112222355556666555555554  555533332222  


Q ss_pred             ---cccccccchHHHHHHHhcCCC
Q 004362          715 ---DKREVASPKIVVEDLLKKSHI  735 (759)
Q Consensus       715 ---~~~~~~~a~~~~~~~~~~~~~  735 (759)
                         ..+.|++|.+-++++.+..-.
T Consensus       330 c~l~le~~e~AV~d~~~a~q~~~s  353 (486)
T KOG0550|consen  330 CHLALEKWEEAVEDYEKAMQLEKD  353 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccc
Confidence               345555555555555554444

>PF12854 PPR_1: PPR repeat

Probab=98.35  E-value=8.2e-07  Score=52.61  Aligned_cols=32  Identities=38%  Similarity=0.907  Sum_probs=16.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          246 GVSPNLFTFNMFIQGLCRKGAISEAISLLDSL  277 (759)
Q Consensus       246 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  277 (759)
                      |+.||..+|+.+|.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            34455555555555555555555555555444

>PF12854 PPR_1: PPR repeat

Probab=98.35  E-value=7.2e-07  Score=52.83  Aligned_cols=31  Identities=32%  Similarity=0.602  Sum_probs=13.4

Q ss_pred             CCCCHHHHHHHHHHHHccCChhhHHHHHhhc
Q 004362          142 IVPDVYTFVIRIKSFCRTRRPHVALRLLKNM  172 (759)
Q Consensus       142 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  172 (759)
                      +.||..+|+++|.+|++.|+.++|.++|++|
T Consensus         3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    3 CEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            3344444444444444444444444444433

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.33  E-value=2.7e-05  Score=66.37  Aligned_cols=116  Identities=10%  Similarity=0.089  Sum_probs=77.0

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcc---HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---hhhHHHHHHHHHhcC
Q 004362          543 KAHKITEAFNLLEEMENKGLTLD---TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---TATYNIMINAFSEKL  616 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g  616 (759)
                      ..++...+...++.+.+. .+.+   ......+...+...|++++|...|+.+....  |++   ......++.++...|
T Consensus        23 ~~~~~~~~~~~~~~l~~~-~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~--~d~~l~~~a~l~LA~~~~~~~   99 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKD-YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA--PDPELKPLARLRLARILLQQG   99 (145)
T ss_pred             HCCCHHHHHHHHHHHHHH-CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHHHHHcC
Confidence            366777777777777765 2223   2334445667777788888888888877762  222   234555677788888


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHH
Q 004362          617 NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLEN  663 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  663 (759)
                      ++++|+..++.....  ...+..+...+.++...|++++|+..|+++
T Consensus       100 ~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  100 QYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             CHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            888888888664322  233556667777888888888888888765

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.32  E-value=1.1e-05  Score=80.03  Aligned_cols=104  Identities=16%  Similarity=0.040  Sum_probs=83.6

Q ss_pred             HHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHHHhcC
Q 004362          573 INGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP-DNYTYRIMIDSFCKTG  651 (759)
Q Consensus       573 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  651 (759)
                      +..+...|++++|+..|++++..  .|.+...|..++.+|...|++++|+..++++++.  .| +...|..++.+|...|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            45566778888888888888887  7888888888888888888888888888888865  45 4778888888888889


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          652 GINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       652 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      ++++|+..|+++++  +.|++.....++..+
T Consensus        85 ~~~eA~~~~~~al~--l~P~~~~~~~~l~~~  113 (356)
T PLN03088         85 EYQTAKAALEKGAS--LAPGDSRFTKLIKEC  113 (356)
T ss_pred             CHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            99999998888888  778777666555444

>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=98.27  E-value=2.2e-05  Score=77.31  Aligned_cols=121  Identities=15%  Similarity=0.163  Sum_probs=80.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK  615 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  615 (759)
                      .++..+...++++.|+.+++++.+..  |+  ....++..+...++-.+|++++.+....  .|.+...+..-+..+...
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhc
Confidence            34445555667777777777776542  33  3344566666666777777777777766  666666666667777777


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENI  664 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  664 (759)
                      ++++.|+.+.+++.+.  .|+ ..+|..|+.+|...|+++.|+..++.+.
T Consensus       248 ~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            7777777777777754  454 5677777777777777777777666543

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.27  E-value=0.00011  Score=69.64  Aligned_cols=154  Identities=9%  Similarity=-0.036  Sum_probs=69.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHH-------------H
Q 004362          505 GLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFG-------------T  571 (759)
Q Consensus       505 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------------~  571 (759)
                      ++.-.|+.++|...--...+.+ ..+......-..++-..++.+.+...|++.++.  .|+.....             .
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHh
Confidence            4445566666666555555442 123333333333344455666666666666653  23322111             1


Q ss_pred             HHHHHHccCChhhHHHHHHHHHHccCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHH
Q 004362          572 LINGFCNSGDLDGAYQLFRRMEDQYKISHT----TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDS  646 (759)
Q Consensus       572 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~  646 (759)
                      =..-..+.|++.+|.+.|...+..  .|.+    ...|...+-+..+.|+..+|+.--+.+.+  +.|. ...+..-+.+
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~i--dP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syikall~ra~c  330 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNI--DPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKALLRRANC  330 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcC--CccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHHHHHHHHH
Confidence            111223445555555555555544  2322    23334444444455555555555554442  1222 2222223334


Q ss_pred             HHhcCChHHHHHHHHHHHh
Q 004362          647 FCKTGGINSGYCLLLENID  665 (759)
Q Consensus       647 ~~~~g~~~~A~~~~~~~~~  665 (759)
                      +...++|++|++.++++.+
T Consensus       331 ~l~le~~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            4444555555555555544

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.27  E-value=2e-05  Score=64.93  Aligned_cols=99  Identities=17%  Similarity=0.135  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HhhH
Q 004362          568 AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD----NYTY  640 (759)
Q Consensus       568 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~  640 (759)
                      ++...+..+.+.|++++|...|+.+...  .|++   ...+..++.++...|++++|+..++++...  .|+    ..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~   79 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKK--YPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKK--YPKSPKAPDAL   79 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHH--CCCCCcccHHH
Confidence            3444555555666666666666666554  2222   344555666666666666666666665543  122    3345


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 004362          641 RIMIDSFCKTGGINSGYCLLLENIDKGFIPSL  672 (759)
Q Consensus       641 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  672 (759)
                      ..++.++...|++++|...++++++  ..|++
T Consensus        80 ~~~~~~~~~~~~~~~A~~~~~~~~~--~~p~~  109 (119)
T TIGR02795        80 LKLGMSLQELGDKEKAKATLQQVIK--RYPGS  109 (119)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHH--HCcCC
Confidence            5555566666666666666666665  34543

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.25  E-value=2e-05  Score=65.19  Aligned_cols=98  Identities=10%  Similarity=-0.033  Sum_probs=85.0

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHH
Q 004362          599 SHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS-TIG  676 (759)
Q Consensus       599 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~  676 (759)
                      +.+......++..+...|++++|.++|+-+...  .|. ...|..|+.+|...|++++|+..|.++..  +.|+++ .+.
T Consensus        32 ~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~--L~~ddp~~~~  107 (157)
T PRK15363         32 TQPLNTLYRYAMQLMEVKEFAGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQ--IKIDAPQAPW  107 (157)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCCCCchHHH
Confidence            456677788888999999999999999999855  554 78899999999999999999999999999  888754 456


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          677 RVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       677 ~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      .+..++...|+.+.|.+.|+....
T Consensus       108 ~ag~c~L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        108 AAAECYLACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            777777999999999999999876

>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=98.23  E-value=1.7e-05  Score=62.36  Aligned_cols=92  Identities=15%  Similarity=0.185  Sum_probs=47.0

Q ss_pred             HHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 004362          571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT  650 (759)
Q Consensus       571 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  650 (759)
                      .++..+...|++++|...++.+.+.  .|++...+..++.++...|++++|.+.+++..+.. +.+..++..++..+...
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            3444445555555555555555544  34444445555555555555555555555554432 22234455555555555


Q ss_pred             CChHHHHHHHHHHHh
Q 004362          651 GGINSGYCLLLENID  665 (759)
Q Consensus       651 g~~~~A~~~~~~~~~  665 (759)
                      |++++|...+.++++
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            555555555555544

>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=98.23  E-value=4.3e-05  Score=75.24  Aligned_cols=125  Identities=12%  Similarity=0.129  Sum_probs=107.1

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDS  646 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  646 (759)
                      .....++..+...++++.|+.+|+++.+.  .   +.....++.++...++-.+|++++++.++.. +-+...+..-+..
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~--~---pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~f  243 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRER--D---PEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEF  243 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhc--C---CcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            34566778888889999999999999887  3   4466778999999999999999999999752 4457777777788


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 004362          647 FCKTGGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMV  699 (759)
Q Consensus       647 ~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  699 (759)
                      |...++++.|+.+.+++++  +.|+ ..+|..+..+|...|++++|+..++.+.
T Consensus       244 Ll~k~~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  244 LLSKKKYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHhcCCHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999999999  8886 5688999999999999999999998876

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.17  E-value=3.6e-06  Score=63.71  Aligned_cols=82  Identities=20%  Similarity=0.159  Sum_probs=38.5

Q ss_pred             CCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHH
Q 004362           17 QKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAV   96 (759)
Q Consensus        17 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~   96 (759)
                      +|+++.|+.+|+.+....+..++...+..++.++.+.|++++|..+++. .+.++.  +......+++++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~--~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS--NPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC--HHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC--CHHHHHHHHHHHHHhCCHHHHH
Confidence            3455555555555544432222333344455555555555555555554 333333  3344444455555555555555


Q ss_pred             HHHHH
Q 004362           97 DVFER  101 (759)
Q Consensus        97 ~~~~~  101 (759)
                      +.|++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            55543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=98.17  E-value=0.0082  Score=57.97  Aligned_cols=463  Identities=11%  Similarity=0.073  Sum_probs=244.2

Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCC
Q 004362          237 KLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEG  316 (759)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  316 (759)
                      ++-+++.+.  +.|..+|-.|++.+...|.+++..++++++..-- +--...|..-+.+-....++.....+|.+-+...
T Consensus        30 rLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pf-p~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~  106 (660)
T COG5107          30 RLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPF-PIMEHAWRLYMSGELARKDFRSVESLFGRCLKKS  106 (660)
T ss_pred             HHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCC-ccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhh
Confidence            555555443  5588899999999999999999999999987431 3345677777777777888888888888777663


Q ss_pred             CCCChhcHHHHHHHHHHcCCh------hHHHHHHHHHHh-CCCCCC-cccHHHHHHHH---HhcCC------HHHHHHHH
Q 004362          317 LEPDGFSYNAVIDGYCKAGMI------SSADKILNDAIF-KGFVPD-EFTYCSLINGL---CQDGD------VDRAMAVY  379 (759)
Q Consensus       317 ~~~~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~-~~~~~~-~~~~~~l~~~~---~~~~~------~~~A~~~~  379 (759)
                      ..  ...|...+.-..+....      ....+.|+-.+. .++.|- ...|+..+..+   -..|.      +|..+..|
T Consensus       107 l~--ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y  184 (660)
T COG5107         107 LN--LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGY  184 (660)
T ss_pred             cc--HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence            33  44555555543333211      112233333332 233332 23344333322   11222      33333444


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CC
Q 004362          380 VKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISK--GY  457 (759)
Q Consensus       380 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~  457 (759)
                      .+++...                 .|+.++.++-|+.....   .|..|-.-.+.  ....-+..|...++++...  |.
T Consensus       185 ~ral~tP-----------------~~nleklW~dy~~fE~e---~N~~TarKfvg--e~sp~ym~ar~~yqe~~nlt~Gl  242 (660)
T COG5107         185 MRALQTP-----------------MGNLEKLWKDYENFELE---LNKITARKFVG--ETSPIYMSARQRYQEIQNLTRGL  242 (660)
T ss_pred             HHHHcCc-----------------cccHHHHHHHHHHHHHH---HHHHHHHHHhc--ccCHHHHHHHHHHHHHHHHhccc
Confidence            4443321                 13333333333322211   11111111110  0011122333333332211  11


Q ss_pred             ----CCCHhh-----------HHHHHHHHHhc-----CC-H-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004362          458 ----IPDIFT-----------FNTLIDGYCKQ-----LK-M-EIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDV  515 (759)
Q Consensus       458 ----~~~~~~-----------~~~l~~~~~~~-----~~-~-~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  515 (759)
                          +.+..+           |..+|..-...     |+ . ....-++++.... +.-....|--.-..+...++-+.|
T Consensus       243 ~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~a  321 (660)
T COG5107         243 SVKNPINLRTANKAARTSDSNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKA  321 (660)
T ss_pred             cccCchhhhhhccccccccchhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHH
Confidence                011111           22222211111     11 1 1222233333332 122333444444444556677777


Q ss_pred             HHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc---cCChhhHHHHHHHH
Q 004362          516 METFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN---SGDLDGAYQLFRRM  592 (759)
Q Consensus       516 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~  592 (759)
                      +.......    +..+.....+...|....+.+.....|+...+.     ...-...+..-..   -|+++.-.+++-.-
T Consensus       322 l~tv~rg~----~~spsL~~~lse~yel~nd~e~v~~~fdk~~q~-----L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr  392 (660)
T COG5107         322 LKTVERGI----EMSPSLTMFLSEYYELVNDEEAVYGCFDKCTQD-----LKRKYSMGESESASKVDNNFEYSKELLLKR  392 (660)
T ss_pred             HHHHHhcc----cCCCchheeHHHHHhhcccHHHHhhhHHHHHHH-----HHHHHhhhhhhhhccccCCccccHHHHHHH
Confidence            76655433    222223333445555566666666666665531     0000111111111   23343333322221


Q ss_pred             HHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          593 EDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG-CPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       593 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      ..+     -..+|...++.-.+..-++.|..+|-++.+.+ +.++..++.+++. +..+|+..-|..+|+-.+.  ..||
T Consensus       393 ~~k-----~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E-~~~~~d~~ta~~ifelGl~--~f~d  464 (660)
T COG5107         393 INK-----LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIE-YYATGDRATAYNIFELGLL--KFPD  464 (660)
T ss_pred             Hhh-----hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHH-HHhcCCcchHHHHHHHHHH--hCCC
Confidence            211     23456666777777777899999999998887 4566777777776 5568999999999999887  5677


Q ss_pred             HHHH-HHHHHHHHhcCcHHHHHHHHHHHHHCCC---CCchHHHHHhc--cccccccchHHHHHHHhcCCCchHHHHHHH
Q 004362          672 LSTI-GRVINCLCVDHRVHEAVGFVHLMVQKGI---VPEVVNTIFEA--DKREVASPKIVVEDLLKKSHITYYAYELLF  744 (759)
Q Consensus       672 ~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~p~~~~~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  744 (759)
                      ...+ +..+..+.+.|+-..|..+|++.+.+=-   -..+|..|+..  .-|+...+..+-+++.+.=|.-..+-..++
T Consensus       465 ~~~y~~kyl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~S  543 (660)
T COG5107         465 STLYKEKYLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTS  543 (660)
T ss_pred             chHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHH
Confidence            6655 5677777899999999999996654211   12288889888  778888899988999885555433333333

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.14  E-value=0.00011  Score=76.10  Aligned_cols=90  Identities=9%  Similarity=-0.017  Sum_probs=63.0

Q ss_pred             hhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 004362          583 DGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLE  662 (759)
Q Consensus       583 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  662 (759)
                      ..+.+..++.......+.++.+|..++-.....|++++|...++++++.  .|+...|..++.++...|+.++|...+++
T Consensus       401 ~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~  478 (517)
T PRK10153        401 AALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYST  478 (517)
T ss_pred             HHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444444443335555667777776767778888888888888854  46777788888888888888888888888


Q ss_pred             HHhCCCCCCHHHHH
Q 004362          663 NIDKGFIPSLSTIG  676 (759)
Q Consensus       663 ~~~~g~~p~~~~~~  676 (759)
                      ++.  +.|..++++
T Consensus       479 A~~--L~P~~pt~~  490 (517)
T PRK10153        479 AFN--LRPGENTLY  490 (517)
T ss_pred             HHh--cCCCCchHH
Confidence            887  777777643

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.10  E-value=8.2e-06  Score=61.72  Aligned_cols=79  Identities=18%  Similarity=0.176  Sum_probs=36.6

Q ss_pred             CCHHHHHHHHHHHHHcCC-CCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCcHHHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGC-PPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-STIGRVINCLCVDHRVHEAVG  693 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~  693 (759)
                      |++++|+.+++++.+..- .|+...+..++.+|.+.|++++|+.++++ .+  ..|++ .....+..++...|++++|++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~--~~~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK--LDPSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT--HHHCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC--CCCCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            455555555555554321 01233444455555555555555555555 32  23332 222333444455556666555


Q ss_pred             HHHH
Q 004362          694 FVHL  697 (759)
Q Consensus       694 ~~~~  697 (759)
                      .+++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            5544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.09  E-value=0.0011  Score=55.68  Aligned_cols=131  Identities=14%  Similarity=0.092  Sum_probs=83.0

Q ss_pred             CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---Hh
Q 004362          562 LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD---NY  638 (759)
Q Consensus       562 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~  638 (759)
                      ..|+...-..+..+..+.|++.+|...|++...- ....|+.....++++....+++.+|...++++.+.  +|+   +.
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~--~pa~r~pd  161 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEY--NPAFRSPD  161 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhc--CCccCCCC
Confidence            3455555566666777777777777777766543 34456666666677777777777777777776654  232   34


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 004362          639 TYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHL  697 (759)
Q Consensus       639 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  697 (759)
                      +...++..+...|.+.+|...|+.++.  .-|+....-.....+.++|+.++|..-+..
T Consensus       162 ~~Ll~aR~laa~g~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         162 GHLLFARTLAAQGKYADAESAFEVAIS--YYPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             chHHHHHHHHhcCCchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            455566777777777777777777777  556555444444555667766665544433

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=0.00023  Score=65.33  Aligned_cols=118  Identities=7%  Similarity=-0.037  Sum_probs=69.2

Q ss_pred             HHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC---ChHHHHHHHHHHHhC
Q 004362          590 RRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTG---GINSGYCLLLENIDK  666 (759)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~  666 (759)
                      +.-...  .|.|...|..|+.+|...|+.+.|..-|.++.+.. ++++..+..++.++..+.   ...++..+|+++++ 
T Consensus       146 e~~L~~--nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~-  221 (287)
T COG4235         146 ETHLQQ--NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALA-  221 (287)
T ss_pred             HHHHHh--CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHh-
Confidence            334444  66677777777777777777777777777766442 334666666665554432   34566677777776 


Q ss_pred             CCCCCHHHHHHH-HHHHHhcCcHHHHHHHHHHHHHCCCCCchHHHHH
Q 004362          667 GFIPSLSTIGRV-INCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIF  712 (759)
Q Consensus       667 g~~p~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  712 (759)
                       ++|++.....+ ...+...|++.+|...++.|.+....-+.+..++
T Consensus       222 -~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~i  267 (287)
T COG4235         222 -LDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLI  267 (287)
T ss_pred             -cCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHH
Confidence             66655544433 3344667777777777777766332222454444

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.06  E-value=0.00021  Score=68.71  Aligned_cols=120  Identities=13%  Similarity=0.120  Sum_probs=55.6

Q ss_pred             CHHHHHHHHHHHHHC----CCC-ccHHHHHHHHHHHHcc-CChhhHHHHHHHHHHccCCCCc----hhhHHHHHHHHHhc
Q 004362          546 KITEAFNLLEEMENK----GLT-LDTVAFGTLINGFCNS-GDLDGAYQLFRRMEDQYKISHT----TATYNIMINAFSEK  615 (759)
Q Consensus       546 ~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~  615 (759)
                      ++++|...+++..+.    |-+ .-...+..+...|... |++++|++.|+++.+.+.....    ...+..++..+...
T Consensus        89 ~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l  168 (282)
T PF14938_consen   89 DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARL  168 (282)
T ss_dssp             THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHh
Confidence            555555555555431    111 1122344555556555 6666666666666554322221    23334455556666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC-----H-hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          616 LNFYMAEKLFYEMSEKGCPPD-----N-YTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~-----~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      |++++|+++|+++.......+     . ..+...+-++...||...|...+++...
T Consensus       169 ~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~  224 (282)
T PF14938_consen  169 GRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCS  224 (282)
T ss_dssp             T-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGT
T ss_pred             CCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            666666666666554322111     0 1122233344555666666666666554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.05  E-value=5.8e-05  Score=68.60  Aligned_cols=109  Identities=16%  Similarity=0.124  Sum_probs=85.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCH
Q 004362          539 ESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNF  618 (759)
Q Consensus       539 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  618 (759)
                      .-+.+.+++++|...|.+++.. .|-+...|..-..+|.+.|.++.|++-.+..+..  .|....+|..|+.+|...|++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l-~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIEL-DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcH
Confidence            4456778899999999999886 4556777777788899999999999999998888  788888899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHH-HHHHhcCC
Q 004362          619 YMAEKLFYEMSEKGCPPDNYTYRIMI-DSFCKTGG  652 (759)
Q Consensus       619 ~~A~~~~~~~~~~~~~p~~~~~~~l~-~~~~~~g~  652 (759)
                      .+|++.|++.+  .+.|+..+|..-+ .+--+.+.
T Consensus       166 ~~A~~aykKaL--eldP~Ne~~K~nL~~Ae~~l~e  198 (304)
T KOG0553|consen  166 EEAIEAYKKAL--ELDPDNESYKSNLKIAEQKLNE  198 (304)
T ss_pred             HHHHHHHHhhh--ccCCCcHHHHHHHHHHHHHhcC
Confidence            99999999988  4578866664433 34333333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.05  E-value=0.00021  Score=63.02  Aligned_cols=82  Identities=10%  Similarity=-0.001  Sum_probs=39.6

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHH
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISH-TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDS  646 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~  646 (759)
                      +..+...+...|++++|...|+++......++ ....+..++.++...|++++|+..++++.+.  .|+ ...+..++.+
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~  115 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            44444455555555555555555544321111 1244555555555555555555555555533  232 4444444455


Q ss_pred             HHhcCC
Q 004362          647 FCKTGG  652 (759)
Q Consensus       647 ~~~~g~  652 (759)
                      +...|+
T Consensus       116 ~~~~g~  121 (172)
T PRK02603        116 YHKRGE  121 (172)
T ss_pred             HHHcCC
Confidence            554444

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.04  E-value=0.00016  Score=59.48  Aligned_cols=101  Identities=12%  Similarity=0.021  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCC-ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCC--CCHHHHHHH
Q 004362           41 LTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDS-LLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCE--PTVLSYNTI  117 (759)
Q Consensus        41 ~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l  117 (759)
                      .++..++..+.+.|++++|.+.|..+....|.. ....++..++.++.+.|+++.|...|+.+....+.  ....++..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            345566666777777777777777777666541 12456666777777777777777777776643211  124456666


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCC
Q 004362          118 MNILVEYGYFSQVHKVYMRMRNKG  141 (759)
Q Consensus       118 ~~~~~~~~~~~~a~~~~~~~~~~~  141 (759)
                      ..++.+.|++++|...++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            777777777777777777777653

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.03  E-value=0.0015  Score=54.87  Aligned_cols=137  Identities=12%  Similarity=0.098  Sum_probs=111.4

Q ss_pred             CCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHH
Q 004362          527 CVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYN  606 (759)
Q Consensus       527 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  606 (759)
                      ..|+...-..+..++...|++.+|...|++...--+..|......+..+....+++..|...++.+.+......+++...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            35777778889999999999999999999998765677888888999999999999999999999887743334567777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          607 IMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       607 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .+++.|...|++.+|..-|+.+...  .|++..-......+.++|+.++|..-+....+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            8899999999999999999999954  67766655566667888888887766665544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.00  E-value=0.00034  Score=72.58  Aligned_cols=139  Identities=12%  Similarity=-0.002  Sum_probs=101.8

Q ss_pred             CCccHHHHHHHHHHHHc--c---CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC--------CHHHHHHHHHHH
Q 004362          562 LTLDTVAFGTLINGFCN--S---GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL--------NFYMAEKLFYEM  628 (759)
Q Consensus       562 ~~~~~~~~~~l~~~~~~--~---g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~~  628 (759)
                      .+.+...|..++++...  .   ++.+.|+.+|+++.+.  .|+....|..++.++....        ++..+.+..++.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            45666777776665432  2   2367888888888888  7888777777766554321        234555555554


Q ss_pred             HHcC-CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          629 SEKG-CPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       629 ~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      .... .+.++.+|..++..+...|++++|...++++++  +.|+...+..+...+...|+.++|.+.++++..  ++|.
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~--L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~  485 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAID--LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPG  485 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCC
Confidence            4321 234567888888777888999999999999999  889877777778888999999999999999988  4554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.98  E-value=0.00032  Score=64.46  Aligned_cols=120  Identities=13%  Similarity=0.076  Sum_probs=92.8

Q ss_pred             HHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC---CHHHHHHHHHHHHH
Q 004362          554 LEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL---NFYMAEKLFYEMSE  630 (759)
Q Consensus       554 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~  630 (759)
                      ++.-+.. -|-|.+.|..|..+|...|+++.|...|.+..+.  .|+++..+..++.++....   ...++..++++++.
T Consensus       145 Le~~L~~-nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~  221 (287)
T COG4235         145 LETHLQQ-NPGDAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALA  221 (287)
T ss_pred             HHHHHHh-CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHh
Confidence            3333443 4668888999999999999999999999999988  8888888888888776543   57788999999986


Q ss_pred             cCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          631 KGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVIN  680 (759)
Q Consensus       631 ~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  680 (759)
                      .  .|+ ..+...|+..+...|++.+|...|+.|++  ..|.+..+..++.
T Consensus       222 ~--D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~--~lp~~~~rr~~ie  268 (287)
T COG4235         222 L--DPANIRALSLLAFAAFEQGDYAEAAAAWQMLLD--LLPADDPRRSLIE  268 (287)
T ss_pred             c--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHh--cCCCCCchHHHHH
Confidence            5  454 66677777889999999999999999998  5555454544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.98  E-value=0.00023  Score=57.01  Aligned_cols=95  Identities=14%  Similarity=0.071  Sum_probs=66.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHH-H
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS---LSTIG-R  677 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~---~~~~~-~  677 (759)
                      +...+++++-..|+.++|+.+|++..+.|+...  ...+..++.++...|++++|+.++++.+.  -.|+   +.... .
T Consensus         3 ~~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~--~~p~~~~~~~l~~f   80 (120)
T PF12688_consen    3 ALYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE--EFPDDELNAALRVF   80 (120)
T ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCccccHHHHHH
Confidence            445667777888888888888888887775554  45667777788888888888888888876  3354   33332 2


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHH
Q 004362          678 VINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       678 l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +..++...|++++|++++-....
T Consensus        81 ~Al~L~~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   81 LALALYNLGRPKEALEWLLEALA  103 (120)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            33445678888888887766543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.98  E-value=2.9e-05  Score=55.25  Aligned_cols=61  Identities=11%  Similarity=0.206  Sum_probs=36.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL  672 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  672 (759)
                      ++..+...|++++|+..|+++++.  .|+ ...+..++.++...|++++|+.+|+++++  ..|++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~--~~P~~   64 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQ--DPDNPEAWYLLGRILYQQGRYDEALAYYERALE--LDPDN   64 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCC--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCC
Confidence            445566666666666666666644  243 56666666666666666666666666666  55554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.98  E-value=0.019  Score=55.55  Aligned_cols=145  Identities=16%  Similarity=0.189  Sum_probs=115.8

Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHH
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENKG-LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMIN  610 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  610 (759)
                      ..|...+....+..-.+.|..+|-++.+.+ ..++..++++++..++ .|+..-|.++|+.-...  .|+++..-+....
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHH
Confidence            456666777777778899999999999887 5567777888887654 69999999999988887  6777766677778


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          611 AFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      .+...++-..|..+|++.+++ +..+  ..+|..++.--..-|+...+..+=+++.+  +.|.........+.+
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry  545 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHH
Confidence            888899999999999977765 3444  56899999888899999999999999988  788766665655555

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.96  E-value=0.00026  Score=62.49  Aligned_cols=106  Identities=10%  Similarity=0.025  Sum_probs=76.7

Q ss_pred             HHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 004362          590 RRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKG  667 (759)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  667 (759)
                      ..+......+.....+..++..+...|++++|+..|+++++....+.  ...+..++.++...|++++|+..++++++  
T Consensus        23 ~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--  100 (172)
T PRK02603         23 LKILPINKKAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE--  100 (172)
T ss_pred             HHHcccccHhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--
Confidence            33333333445667788899999999999999999999986532222  46788999999999999999999999999  


Q ss_pred             CCCCHHHH-HHHHHHHHhcCcHHHHHHHHHH
Q 004362          668 FIPSLSTI-GRVINCLCVDHRVHEAVGFVHL  697 (759)
Q Consensus       668 ~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~  697 (759)
                      ..|+.... ..+...+...|+...+..-++.
T Consensus       101 ~~p~~~~~~~~lg~~~~~~g~~~~a~~~~~~  131 (172)
T PRK02603        101 LNPKQPSALNNIAVIYHKRGEKAEEAGDQDE  131 (172)
T ss_pred             hCcccHHHHHHHHHHHHHcCChHhHhhCHHH
Confidence            77865444 4455555677775444444333

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.96  E-value=0.00018  Score=71.52  Aligned_cols=89  Identities=8%  Similarity=-0.019  Sum_probs=53.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCH
Q 004362          539 ESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNF  618 (759)
Q Consensus       539 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  618 (759)
                      ..+...|++++|+..|+++++. .+.+...|..+..+|...|++++|+..++++...  .|.+...|..++.+|...|++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~-~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDL-DPNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCCH
Confidence            3344556666666666666554 2334555555566666666666666666666665  555666666666666666666


Q ss_pred             HHHHHHHHHHHH
Q 004362          619 YMAEKLFYEMSE  630 (759)
Q Consensus       619 ~~A~~~~~~~~~  630 (759)
                      ++|+..|+++++
T Consensus        87 ~eA~~~~~~al~   98 (356)
T PLN03088         87 QTAKAALEKGAS   98 (356)
T ss_pred             HHHHHHHHHHHH
Confidence            666666666664

>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=97.96  E-value=3e-05  Score=56.08  Aligned_cols=62  Identities=11%  Similarity=0.126  Sum_probs=37.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcC-ChHHHHHHHHHHHh
Q 004362          602 TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTG-GINSGYCLLLENID  665 (759)
Q Consensus       602 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~  665 (759)
                      +..|..++..+...|++++|+..|+++++.  .|+ ...|..++.+|...| ++++|+..++++++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            445556666666666666666666666654  233 556666666666666 46666666666665

...

>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=97.95  E-value=0.00015  Score=56.87  Aligned_cols=94  Identities=15%  Similarity=0.122  Sum_probs=67.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHH
Q 004362          534 YSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFS  613 (759)
Q Consensus       534 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  613 (759)
                      +..++..+...|++++|...++++.+. .+.+...+..+..++...|++++|.+.++.....  .|.+...+..++.++.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALEL-DPDNADAYYNLAAAYYKLGKYEEALEDYEKALEL--DPDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc-CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHH
Confidence            445566666777777777777777665 2334466667777777778888888888877776  5666677777778888


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 004362          614 EKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       614 ~~g~~~~A~~~~~~~~~  630 (759)
                      ..|++++|...+.++.+
T Consensus        80 ~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          80 KLGKYEEALEAYEKALE   96 (100)
T ss_pred             HHHhHHHHHHHHHHHHc
Confidence            88888888888877764

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.94  E-value=0.0001  Score=70.45  Aligned_cols=128  Identities=11%  Similarity=0.066  Sum_probs=62.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc-cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHH
Q 004362          534 YSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN-SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAF  612 (759)
Q Consensus       534 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  612 (759)
                      |..++....+.+..+.|..+|.++.+. ...+..+|...+..-.. .++.+.|.++|+...+.  .|.+...|...+..+
T Consensus         4 ~i~~m~~~~r~~g~~~aR~vF~~a~~~-~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    4 WIQYMRFMRRTEGIEAARKVFKRARKD-KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCC-CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            444444444555555555555555532 12233344444444222 34444455555555555  455555555555555


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCH---hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          613 SEKLNFYMAEKLFYEMSEKGCPPDN---YTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ...|+.+.|..+|++.+.. ++++.   ..|...+.--.+.|+++...++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555543 22222   3555555555556666666666666555

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.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.91  E-value=0.00047  Score=66.35  Aligned_cols=185  Identities=15%  Similarity=0.180  Sum_probs=104.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHHC----CCCc-cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC----chhhHHHHHH
Q 004362          540 SLCKAHKITEAFNLLEEMENK----GLTL-DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH----TTATYNIMIN  610 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~  610 (759)
                      .|...+++++|...|.+....    +-+. ....|...+.+|.+. ++++|++.++++.+.+....    -...+..++.
T Consensus        44 ~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~  122 (282)
T PF14938_consen   44 CFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAE  122 (282)
T ss_dssp             HHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            344455555555555554321    1111 112233334444333 66666666666654321111    1345566777


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHc----CCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-C----CHHH-HHH
Q 004362          611 AFSEK-LNFYMAEKLFYEMSEK----GCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFI-P----SLST-IGR  677 (759)
Q Consensus       611 ~~~~~-g~~~~A~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~-p----~~~~-~~~  677 (759)
                      .|... |++++|+++|+++.+.    + .+.  ..++..++..+...|++++|+..|++....-+. |    +... +..
T Consensus       123 ~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~  201 (282)
T PF14938_consen  123 IYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLK  201 (282)
T ss_dssp             HHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence            78888 9999999999998754    2 221  356778888999999999999999999874222 1    1111 122


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHCCCCCc--------hHHHHHhc-cccccccchHHHHH
Q 004362          678 VINCLCVDHRVHEAVGFVHLMVQKGIVPE--------VVNTIFEA-DKREVASPKIVVED  728 (759)
Q Consensus       678 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--------~~~~~~~~-~~~~~~~a~~~~~~  728 (759)
                      .+-++...|+...|.+.+++...  ..|.        ....++.+ ..|+.+.-...+.+
T Consensus       202 a~l~~L~~~D~v~A~~~~~~~~~--~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~  259 (282)
T PF14938_consen  202 AILCHLAMGDYVAARKALERYCS--QDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAE  259 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHGT--TSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            23334678999999999999876  3442        44556666 55555444444433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.89  E-value=0.00015  Score=68.38  Aligned_cols=133  Identities=11%  Similarity=0.020  Sum_probs=95.9

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCC-ccHHHHHHHHHHHHccCChhhHHHHHHHHHH----ccCCCCchh
Q 004362          533 TYSILGESLCKAHKITEAFNLLEEMEN----KGLT-LDTVAFGTLINGFCNSGDLDGAYQLFRRMED----QYKISHTTA  603 (759)
Q Consensus       533 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~  603 (759)
                      .|..++..|.-.|+++.|+...+.-+.    .|-. .....+..+..++.-.|+++.|.+.|+....    .+.......
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            556666666677899999888766443    2221 2345677888899999999999999987643    333334456


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc----C-CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEK----G-CPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +...+++.|.-...+++|+.++.+-+.-    + .--....+.+|+.++...|..++|+.+.+..++
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            6778899999999999999988764321    1 112345778899999999999999998887664

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.87  E-value=0.0024  Score=59.42  Aligned_cols=66  Identities=12%  Similarity=0.028  Sum_probs=49.4

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHH---HHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 004362           39 TLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEG---VHIGVMRNYGRRGKVQEAVDVFERMDFYN  106 (759)
Q Consensus        39 ~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  106 (759)
                      ++..+...+..+...|++++|.+.|+.+....|.  +..   +...++.+|.+.++++.|+..|+++....
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~--s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPF--GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            4444445666667888999999999888888876  333   33667888888899999988888887554

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.87  E-value=0.031  Score=54.35  Aligned_cols=28  Identities=7%  Similarity=-0.034  Sum_probs=16.1

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          358 TYCSLINGLCQDGDVDRAMAVYVKALEK  385 (759)
Q Consensus       358 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~  385 (759)
                      ++..++....+.++...|.+.+.-+...
T Consensus       300 ~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l  327 (549)
T PF07079_consen  300 RFGNLLSFKVKQVQTEEAKQYLALLKIL  327 (549)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHhc
Confidence            3455555566666666666666555444

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.85  E-value=0.00033  Score=61.61  Aligned_cols=102  Identities=11%  Similarity=-0.052  Sum_probs=57.2

Q ss_pred             hHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCc-cHHHHHHHHHHHHhcCChhHHHHH
Q 004362           20 PLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSL-LEGVHIGVMRNYGRRGKVQEAVDV   98 (759)
Q Consensus        20 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~   98 (759)
                      +..+...+..+.+..+.......+..++..+...|++++|...|+.+....+.+. ...++..++.++...|++++|+..
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3444444444433333223344556666666677777777777777765543311 223566677777777777777777


Q ss_pred             HHHhhhCCCCCCHHHHHHHHHHHH
Q 004362           99 FERMDFYNCEPTVLSYNTIMNILV  122 (759)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~l~~~~~  122 (759)
                      +++..... +.....+..+..++.
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~  117 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICH  117 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHH
Confidence            77666442 333444555555555

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.84  E-value=0.00041  Score=60.96  Aligned_cols=96  Identities=8%  Similarity=-0.053  Sum_probs=61.9

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH-TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIM  643 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l  643 (759)
                      ...+..++..+...|++++|+..|+++......++ ...++..++.++...|++++|+..++++.+.  .|+ ..++..+
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~l  112 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHH
Confidence            44456666677777788888888877766532222 2346777777788888888888888777754  343 5556666


Q ss_pred             HHHHH-------hcCChHHHHHHHHHH
Q 004362          644 IDSFC-------KTGGINSGYCLLLEN  663 (759)
Q Consensus       644 ~~~~~-------~~g~~~~A~~~~~~~  663 (759)
                      +..+.       ..|+++.|+..+.++
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            66666       666766555444443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.84  E-value=0.0005  Score=64.35  Aligned_cols=102  Identities=11%  Similarity=0.021  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HhhH
Q 004362          568 AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD----NYTY  640 (759)
Q Consensus       568 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~  640 (759)
                      .|......+.+.|++++|+..|+.+...  .|.+   +.++..++.+|...|++++|+..|+++.+.  .|+    ...+
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~--yP~s~~~~dAl  220 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN--YPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhHHH
Confidence            3444444445678888888888888887  5555   467778888888888888888888888765  233    4556


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          641 RIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       641 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      ..++.++...|++++|..+|+++++  ..|+....
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~--~yP~s~~a  253 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIK--KYPGTDGA  253 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH--HCcCCHHH
Confidence            6667777788888888888888887  56765543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.82  E-value=0.00017  Score=68.12  Aligned_cols=134  Identities=14%  Similarity=0.116  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHH---ccCC-CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCCH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMED---QYKI-SHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK----GC-PPDN  637 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~p~~  637 (759)
                      ..|..+...|.-.|+++.|+..-+.-..   .++. .....++..+++++.-.|+++.|+++|+.....    |- ....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            3567777788888999999887664332   2221 223467888999999999999999999985432    21 1224


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh--C---CCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          638 YTYRIMIDSFCKTGGINSGYCLLLENID--K---GFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       638 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~---g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ..-.+|+.+|.-..++++|+.++.+=+.  .   ...-....++.+..++...|..++|..+.+.-++
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            5567899999999999999999987443  1   1122445667888888889999999988777654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.82  E-value=0.038  Score=53.78  Aligned_cols=89  Identities=13%  Similarity=0.134  Sum_probs=50.3

Q ss_pred             HHHhcCCChHHHHHHHHHhhhcCCCCCCH----HHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHH
Q 004362           12 AVVKHQKNPLTALEMFNSVKREDGFKHTL----LTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYG   87 (759)
Q Consensus        12 ~~l~~~~~~~~A~~~~~~~~~~~~~~~~~----~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~   87 (759)
                      .+|..|++.++|-++|.++-......|..    ..-..+++++. .++.+.....+....+..|.  +..+..-.+....
T Consensus        14 f~Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAff-l~nld~Me~~l~~l~~~~~~--s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   14 FILQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFF-LNNLDLMEKQLMELRQQFGK--SAYLPLFKALVAY   90 (549)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHH-HhhHHHHHHHHHHHHHhcCC--chHHHHHHHHHHH
Confidence            45667788888888888775542222211    12233555554 34666666666666666554  3333333344455


Q ss_pred             hcCChhHHHHHHHHhh
Q 004362           88 RRGKVQEAVDVFERMD  103 (759)
Q Consensus        88 ~~g~~~~A~~~~~~~~  103 (759)
                      +.+++++|++.+....
T Consensus        91 ~~k~~~kal~~ls~w~  106 (549)
T PF07079_consen   91 KQKEYRKALQALSVWK  106 (549)
T ss_pred             HhhhHHHHHHHHHHHH
Confidence            7777777777776554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.82  E-value=0.0011  Score=53.24  Aligned_cols=90  Identities=19%  Similarity=0.092  Sum_probs=44.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcc--HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC---chhhHHHHHHH
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKGLTLD--TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH---TTATYNIMINA  611 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~~l~~~  611 (759)
                      ...++-..|+.++|+.+|++....|...+  ...+..+...+...|++++|..+++.....  .|+   +......++.+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHH
Confidence            34444455555555555555555543332  233444555555555555555555555554  233   22333333444


Q ss_pred             HHhcCCHHHHHHHHHHH
Q 004362          612 FSEKLNFYMAEKLFYEM  628 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~  628 (759)
                      +...|+.++|++.+-..
T Consensus        85 L~~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEA  101 (120)
T ss_pred             HHHCCCHHHHHHHHHHH
Confidence            45555555555554443

>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=97.81  E-value=8e-05  Score=53.63  Aligned_cols=62  Identities=13%  Similarity=0.171  Sum_probs=32.3

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004362          614 EKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRV  678 (759)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  678 (759)
                      ..|++++|+++|+++.+.. |.+...+..++.+|.+.|++++|..+++++..  ..|+++.+..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~--~~~~~~~~~~l   64 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK--QDPDNPEYQQL   64 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG--GGTTHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCHHHHHHH
Confidence            3455555555555555442 22355555555555666666666666655555  44555444443

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.79  E-value=9.2e-05  Score=52.65  Aligned_cols=61  Identities=18%  Similarity=0.241  Sum_probs=49.2

Q ss_pred             HHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004362          572 LINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD  636 (759)
Q Consensus       572 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  636 (759)
                      ++..+...|++++|+..|+++...  .|.+...+..++.++...|++++|+..|+++++.  .|+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~--~P~   63 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQ--DPDNPEAWYLLGRILYQQGRYDEALAYYERALEL--DPD   63 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCC--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH--STT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcC
Confidence            456777888888888888888888  6888888888888888888888888888888765  454

>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=97.76  E-value=0.00012  Score=52.76  Aligned_cols=62  Identities=21%  Similarity=0.286  Sum_probs=48.3

Q ss_pred             HhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHH
Q 004362           51 GFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNT  116 (759)
Q Consensus        51 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  116 (759)
                      ...|++++|...|+.+...+|.  +.++...++.+|.+.|++++|..+++++....  |+...|..
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~--~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~--~~~~~~~~   63 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD--NPEARLLLAQCYLKQGQYDEAEELLERLLKQD--PDNPEYQQ   63 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT--SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG--TTHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCHHHHHH
Confidence            4678888999999888888888  88888888888999999999999888888653  44333433

...

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.76  E-value=0.00063  Score=65.13  Aligned_cols=129  Identities=15%  Similarity=0.116  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh-cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE-KLNFYMAEKLFYEMSEKGCPPDNYTYRIMID  645 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  645 (759)
                      .+|..++....+.+..+.|..+|.++.+.  .+-+..+|...+..-.. .++.+.|..+|+..++. ++.+...|...+.
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 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHH
Confidence            46788888899999999999999999855  44466778877777555 57777799999999986 5777889999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          646 SFCKTGGINSGYCLLLENIDKGFIPSLS----TIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       646 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      -+...|+.+.|..+|++++..  .|...    .|..++..=.+.|+.+...++.+++.+
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999999983  44433    566666655789999999999999987

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PRK11906 transcriptional regulator; Provisional

Probab=97.72  E-value=0.0015  Score=64.18  Aligned_cols=146  Identities=13%  Similarity=0.102  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHHHHC-CCCcc-HHHHHHHHHHHHcc---------CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc
Q 004362          547 ITEAFNLLEEMENK-GLTLD-TVAFGTLINGFCNS---------GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK  615 (759)
Q Consensus       547 ~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  615 (759)
                      .+.|..+|.+.... ...|+ ...|..+..++...         .+..+|.++.+++.+.  .|.|+.+...++.++...
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAvel--d~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDI--TTVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHhh
Confidence            45566667776622 12232 34444444443221         2244555666666665  566666666666666666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCcHHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINC--LCVDHRVHEAV  692 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~--~~~~g~~~~A~  692 (759)
                      ++++.|..+|+++..  +.|| +.+|...++.+.-.|+.++|...++++++  +.|.......+--+  .+-....++|+
T Consensus       352 ~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr--LsP~~~~~~~~~~~~~~~~~~~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARICIDKSLQ--LEPRRRKAVVIKECVDMYVPNPLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cCchhhHHHHHHHHHHHHcCCchhhhH
Confidence            666666666666663  3455 55666666666666666666666666666  56643333221111  12334455566


Q ss_pred             HHHHHH
Q 004362          693 GFVHLM  698 (759)
Q Consensus       693 ~~~~~~  698 (759)
                      ++|-+-
T Consensus       428 ~~~~~~  433 (458)
T PRK11906        428 KLYYKE  433 (458)
T ss_pred             HHHhhc
Confidence            655443

>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=97.69  E-value=0.00019  Score=51.84  Aligned_cols=65  Identities=15%  Similarity=0.152  Sum_probs=56.4

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC-CHHHHHHHHHHHHHc
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL-NFYMAEKLFYEMSEK  631 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~  631 (759)
                      +...|..++..+...|++++|+..|+++.+.  .|.+...|..++.++...| ++++|++.++++++.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            4567888888889999999999999999988  8888999999999999998 799999999988754

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.67  E-value=0.007  Score=54.91  Aligned_cols=67  Identities=16%  Similarity=0.158  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCC-ccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 004362           40 LLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDS-LLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYN  106 (759)
Q Consensus        40 ~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  106 (759)
                      +..+-..+..+...|++.+|...|+.+....|.+ ....+...++.++.+.|+++.|+..++++....
T Consensus         5 ~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y   72 (203)
T PF13525_consen    5 AEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY   72 (203)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3344556666778899999999999988887652 235577788888899999999999998887554

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.64  E-value=9.1e-05  Score=44.73  Aligned_cols=33  Identities=52%  Similarity=0.774  Sum_probs=20.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 004362          183 AYCTLIAGFYEENHNVEAYELFDEMLGMGISPD  215 (759)
Q Consensus       183 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  215 (759)
                      +||+++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666665554

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.63  E-value=0.064  Score=51.13  Aligned_cols=196  Identities=15%  Similarity=0.178  Sum_probs=100.0

Q ss_pred             cHHHHHHHHHh--cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH--HhcCCHHHHHHHHHHHHhCCCCCCHH--HHHH
Q 004362          358 TYCSLINGLCQ--DGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGL--SQQGLILQALQLMNEMSESGCCPDMW--TYNI  431 (759)
Q Consensus       358 ~~~~l~~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~  431 (759)
                      .|..|-.+++.  .|+-..|.+.-.+..+. +..|....-.++.+.  .-.|+++.|.+-|+.|...   |...  .+..
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRg  159 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRG  159 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHH
Confidence            35555555443  56677777666554432 122444444454443  3358888888888888762   2211  1222


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHH--HHHHHHHHHh
Q 004362          432 VINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHG-VTPDVIT--YNSLLNGLCK  508 (759)
Q Consensus       432 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~--~~~l~~~~~~  508 (759)
                      +.-.--+.|..+.|.++-+..-..- +.-...+...+...+..|+|+.|+++++.-.... +.++..-  -..|+.+-..
T Consensus       160 LyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~  238 (531)
T COG3898         160 LYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAM  238 (531)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHH
Confidence            2222345777777777777665542 2244566777777788888888888877655432 2333221  1222222111


Q ss_pred             ---cCCHHHHHHHHHHHHHcCCCCChh-cHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004362          509 ---AAKSEDVMETFKTMIEKRCVPNII-TYSILGESLCKAHKITEAFNLLEEMENK  560 (759)
Q Consensus       509 ---~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  560 (759)
                         ..+...|...-.+..+.  .|+.. .-..-..++.+.|+..++-.+++.+-+.
T Consensus       239 s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~  292 (531)
T COG3898         239 SLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKA  292 (531)
T ss_pred             HHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhc
Confidence               12333444433333332  33322 2222344455555555555555555553

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.61  E-value=0.00013  Score=44.01  Aligned_cols=33  Identities=52%  Similarity=0.873  Sum_probs=16.1

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC
Q 004362          288 TYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPD  320 (759)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  320 (759)
                      +|++++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            344444555555555555555555544444443

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.58  E-value=0.0015  Score=64.98  Aligned_cols=117  Identities=14%  Similarity=0.121  Sum_probs=52.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004362          425 DMWTYNIVINGLCKMGCVSDANNLVNDAISK--GYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSL  502 (759)
Q Consensus       425 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  502 (759)
                      +......++..+....+++.+..++-+....  ....-+.+..++++.|...|..+.++++++.=...|+-||..+++.+
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            3444444444444444444444444443332  11111223334555555555555555555554455555555555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHH
Q 004362          503 LNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESL  541 (759)
Q Consensus       503 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  541 (759)
                      +..+.+.|++..|.++...|...+...+..|+...+.+|
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~  183 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSC  183 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHH
Confidence            555555555555555544444443333334433333333

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 [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.58  E-value=0.078  Score=50.61  Aligned_cols=298  Identities=11%  Similarity=0.026  Sum_probs=186.4

Q ss_pred             hHHHHHHHHHh--cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCChHHHHHHHHHHHHCCCCCCHhh--HHH
Q 004362          393 LYNTLIKGLSQ--QGLILQALQLMNEMSESGCCPDMWTYNIVING--LCKMGCVSDANNLVNDAISKGYIPDIFT--FNT  466 (759)
Q Consensus       393 ~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~  466 (759)
                      .|..|-.++..  .|+-..|.++-.+..+. +..|...+..++.+  -.-.|+++.|.+-|+.|...   |....  ...
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRg  159 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRG  159 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHH
Confidence            34455455443  46777777766554432 23355545555544  34579999999999998852   22221  222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhc--HHHHHHHH--
Q 004362          467 LIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKR-CVPNIIT--YSILGESL--  541 (759)
Q Consensus       467 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~--~~~l~~~~--  541 (759)
                      |.-.--+.|+.+.|...-+..-..- +.-.-.+...+...+..|+++.|+++.+.-.... +.++..-  -..|+.+-  
T Consensus       160 LyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~  238 (531)
T COG3898         160 LYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAM  238 (531)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHH
Confidence            2223346788888888888776652 2234567788888899999999999998766542 2333321  11122111  


Q ss_pred             H-hcCCHHHHHHHHHHHHHCCCCccHHH-HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHH
Q 004362          542 C-KAHKITEAFNLLEEMENKGLTLDTVA-FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFY  619 (759)
Q Consensus       542 ~-~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  619 (759)
                      . -..+...|...-.+..+.  .||..- -..-..++.+.|+..++-.+++.+-+...   .+.++  ....+.+.|+. 
T Consensus       239 s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~eP---HP~ia--~lY~~ar~gdt-  310 (531)
T COG3898         239 SLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEP---HPDIA--LLYVRARSGDT-  310 (531)
T ss_pred             HHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCC---ChHHH--HHHHHhcCCCc-
Confidence            1 123566677777666653  444332 22345778899999999999999987632   33322  22334455543 


Q ss_pred             HHHHHHHHHHHc-CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCcHHHHHHHHH
Q 004362          620 MAEKLFYEMSEK-GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL-CVDHRVHEAVGFVH  696 (759)
Q Consensus       620 ~A~~~~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~  696 (759)
                       ++.-++++... .++|| ......+..+-...|++..|..-.+.+..  ..|....+..+...- ...|+-.++..++-
T Consensus       311 -a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlA  387 (531)
T COG3898         311 -ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLA  387 (531)
T ss_pred             -HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHH
Confidence             33333332211 34666 66777777888889999999998888888  778766665555555 46699999999999


Q ss_pred             HHHHCCCCCc
Q 004362          697 LMVQKGIVPE  706 (759)
Q Consensus       697 ~~~~~~~~p~  706 (759)
                      +.+..+-+|.
T Consensus       388 qav~APrdPa  397 (531)
T COG3898         388 QAVKAPRDPA  397 (531)
T ss_pred             HHhcCCCCCc
Confidence            9988777776

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.57  E-value=0.00012  Score=43.79  Aligned_cols=33  Identities=18%  Similarity=0.443  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 004362          112 LSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVP  144 (759)
Q Consensus       112 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  144 (759)
                      .+|+.++.+|.+.|+++.|.++|++|.+.|+.|
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            357777777777777777777777777766655

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.56  E-value=0.0017  Score=64.60  Aligned_cols=122  Identities=13%  Similarity=0.117  Sum_probs=88.0

Q ss_pred             CCChhcHHHHHHHHHHcCChhHHHHHHHHHHhC--CCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 004362          318 EPDGFSYNAVIDGYCKAGMISSADKILNDAIFK--GFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYN  395 (759)
Q Consensus       318 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  395 (759)
                      +.+......++..+....+++.+..++.+....  ....-+.+..++++.|.+.|..+.++.++..=...|+-||..++|
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            445556666677766677777777777777654  222234455678888888888888888888877888888888888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 004362          396 TLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKM  439 (759)
Q Consensus       396 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  439 (759)
                      .|++.+.+.|++..|.++...|...+...+..|+...+.+|.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            88888888888888888887777776666666766666666554

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 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.56  E-value=0.023  Score=52.93  Aligned_cols=66  Identities=9%  Similarity=-0.020  Sum_probs=48.7

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHH---HHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 004362           75 LEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLS---YNTIMNILVEYGYFSQVHKVYMRMRNKG  141 (759)
Q Consensus        75 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~  141 (759)
                      +.......+..+...|++++|+..|+.+....+ .+...   .-.++.++.+.+++++|...|++.++..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP-~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYP-FGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            455666778888888999999999998876542 22222   2346677888899999999999988864

>PRK15331 chaperone protein SicA; Provisional

Probab=97.55  E-value=0.0074  Score=50.53  Aligned_cols=93  Identities=14%  Similarity=-0.096  Sum_probs=66.5

Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh
Q 004362          570 GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK  649 (759)
Q Consensus       570 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  649 (759)
                      .....-+...|++++|..+|+-+...  .|-+...|..|+.++-..+++++|+..|..+...+ .-|+..+...+.++..
T Consensus        41 Y~~Ay~~y~~Gk~~eA~~~F~~L~~~--d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~  117 (165)
T PRK15331         41 YAHAYEFYNQGRLDEAETFFRFLCIY--DFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLL  117 (165)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHH
Confidence            34444556678888888888877765  66667777777777778888888888877766443 3345556667777788


Q ss_pred             cCChHHHHHHHHHHHh
Q 004362          650 TGGINSGYCLLLENID  665 (759)
Q Consensus       650 ~g~~~~A~~~~~~~~~  665 (759)
                      .|+.+.|...|+.+++
T Consensus       118 l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        118 MRKAAKARQCFELVNE  133 (165)
T ss_pred             hCCHHHHHHHHHHHHh
Confidence            8888888888877776

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.54  E-value=0.00054  Score=50.11  Aligned_cols=63  Identities=11%  Similarity=0.122  Sum_probs=34.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      .+|...+++++|++.++++++.+ |.++..|...+.++...|++++|...++++++  ..|+....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~--~~p~~~~~   65 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE--LSPDDPDA   65 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH--HCCCcHHH
Confidence            34555556666666666655432 22355555555566666666666666666665  44554444

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.49  E-value=0.0022  Score=60.10  Aligned_cols=92  Identities=14%  Similarity=0.082  Sum_probs=71.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHH
Q 004362          605 YNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD----NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS----LSTIG  676 (759)
Q Consensus       605 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~  676 (759)
                      |..-...+...|++++|+..|+.+++.  .|+    +..+..++.+|...|++++|+..|+++++  ..|+    ...+.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~--~yP~s~~~~dAl~  221 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVK--NYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCcchhHHHH
Confidence            333333446679999999999999976  455    35788899999999999999999999997  4443    33444


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          677 RVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       677 ~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      .+...+...|++++|.+.++++.+
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555666789999999999999887

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.48  E-value=0.00025  Score=42.40  Aligned_cols=31  Identities=26%  Similarity=0.369  Sum_probs=13.6

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHHCCCC
Q 004362          288 TYNTLMCGLCKNSKVVEAEYYLHKMVNEGLE  318 (759)
Q Consensus       288 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  318 (759)
                      +|+.++.+|.+.|+++.|.++|++|.+.|++
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~   33 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVK   33 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            3444444444444444444444444444433

>PRK11906 transcriptional regulator; Provisional

Probab=97.48  E-value=0.0099  Score=58.72  Aligned_cols=77  Identities=14%  Similarity=0.030  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          550 AFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       550 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      |.+..+...+.+ +.|+.....+..+....|+++.|...|+++...  .|+...+|...+......|+.++|.+.+++..
T Consensus       323 a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        323 ALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            334444444432 334444444444444444455555555555444  44444555555555555555555555555544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.45  E-value=0.078  Score=47.66  Aligned_cols=139  Identities=14%  Similarity=0.073  Sum_probs=92.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCccHHHHHHHH
Q 004362          499 YNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENK-----GLTLDTVAFGTLI  573 (759)
Q Consensus       499 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~  573 (759)
                      .+.++.++.-.|.+.-.+..+++.++...+-++.....++..-.+.|+.+.|...|++..+.     +......+.....
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            44555566666677777777777777654556666777777777778888888887766643     2222333333444


Q ss_pred             HHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHH
Q 004362          574 NGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYR  641 (759)
Q Consensus       574 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  641 (759)
                      ..|.-++++.+|...|.+++..  .|.++...|+-+-+..-.|+..+|++..+.+++.  .|.+.+-+
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~--D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRM--DPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             hheecccchHHHHHHHhhcccc--CCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence            5566667777888888777777  6667777777777777777788888888777754  45544433

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.43  E-value=0.0029  Score=60.67  Aligned_cols=95  Identities=9%  Similarity=-0.046  Sum_probs=76.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      .++++++.++.+.+++.+|++.-.+.++.+ ++|...+.--+.+|...|+++.|+..|+++++  +.|++.....-+..|
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKL  334 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHH
Confidence            567889999999999999999999999775 56688888888999999999999999999999  999887776655555


Q ss_pred             -HhcC-cHHHHHHHHHHHHH
Q 004362          683 -CVDH-RVHEAVGFVHLMVQ  700 (759)
Q Consensus       683 -~~~g-~~~~A~~~~~~~~~  700 (759)
                       .+.. ..+...++|..|..
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence             3333 33444678888865

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.42  E-value=0.04  Score=49.42  Aligned_cols=160  Identities=12%  Similarity=0.061  Sum_probs=111.2

Q ss_pred             HHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHH
Q 004362          513 EDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRM  592 (759)
Q Consensus       513 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  592 (759)
                      +..++.|++-..       ..-..++..+...|.+.-....++++++...+.++.....+.+.-.+.||.+.|...|++.
T Consensus       166 ESsv~lW~KRl~-------~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~v  238 (366)
T KOG2796|consen  166 ESSIRLWRKRLG-------RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDV  238 (366)
T ss_pred             hhHHHHHHHHHH-------HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            445555554332       2334556666667788888889999988766778888899999999999999999999976


Q ss_pred             HHccC----CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 004362          593 EDQYK----ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGF  668 (759)
Q Consensus       593 ~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  668 (759)
                      .+..+    .........+....|.-++++.+|...+.++...+ +.|+...|.=.-+..-.|+..+|++.++.+++  .
T Consensus       239 ek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~--~  315 (366)
T KOG2796|consen  239 EKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQ--Q  315 (366)
T ss_pred             HHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhc--c
Confidence            54322    22233444455566777788888888888887653 33455556655566677888999999999888  6


Q ss_pred             CCCHHHHHHHHHHH
Q 004362          669 IPSLSTIGRVINCL  682 (759)
Q Consensus       669 ~p~~~~~~~l~~~~  682 (759)
                      .|....-..++-++
T Consensus       316 ~P~~~l~es~~~nL  329 (366)
T KOG2796|consen  316 DPRHYLHESVLFNL  329 (366)
T ss_pred             CCccchhhhHHHHH
Confidence            77655555444433

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.34  E-value=0.042  Score=53.64  Aligned_cols=168  Identities=12%  Similarity=0.047  Sum_probs=77.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC---CCCccHHHHHHHHHHHHc---cCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENK---GLTLDTVAFGTLINGFCN---SGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      .++-+|....+++.-+++.+.+...   .+...+.+-..++.++.+   .|+.++|++++..+... ..++++.+|..++
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~~gL~G  224 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHHHHHHH
Confidence            3333445555555555555555432   011122222233344444   55555555555553222 1334445555555


Q ss_pred             HHHHh---------cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHH----HHHH----HHHHhCCC-CC-
Q 004362          610 NAFSE---------KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSG----YCLL----LENIDKGF-IP-  670 (759)
Q Consensus       610 ~~~~~---------~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A----~~~~----~~~~~~g~-~p-  670 (759)
                      ++|-.         ...+++|+..|.+.-+.  .||...=..++..+...|.-.+.    .++-    ....++|. .+ 
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            44421         12366777777776633  45533323333333334432111    1111    11112232 22 


Q ss_pred             -CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCchH
Q 004362          671 -SLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVV  708 (759)
Q Consensus       671 -~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  708 (759)
                       +...+..++.+..-.|+.++|.+..++|..  .+|+.|
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~--l~~~~W  339 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFK--LKPPAW  339 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhh--cCCcch
Confidence             333334555666667888888888888876  456655

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.33  E-value=0.24  Score=50.57  Aligned_cols=181  Identities=14%  Similarity=0.097  Sum_probs=110.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN  574 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  574 (759)
                      +..+|...+..-...|+.+...-.|++..-. ..-=...|...+.-....|+.+-|..++....+...+..+.+-..-..
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            4566777777777888888888887776532 000112344444444455888888888877776544433333333333


Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHH---HHHHHHHHcCCCCCHhhHHHH----HH-H
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAE---KLFYEMSEKGCPPDNYTYRIM----ID-S  646 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~---~~~~~~~~~~~~p~~~~~~~l----~~-~  646 (759)
                      .....|+++.|..+++++...  .|.....-..-+....+.|+.+.+.   +++....+-  .-+..+...+    .+ .
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e--~pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~--~~~~~i~~~l~~~~~r~~  450 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESE--YPGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG--KENNGILEKLYVKFARLR  450 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhh--CCchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc--ccCcchhHHHHHHHHHHH
Confidence            445568899999999998888  4666666566667777888888887   444433322  1222222222    22 3


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHH
Q 004362          647 FCKTGGINSGYCLLLENIDKGFIPSLSTIG-RVINCL  682 (759)
Q Consensus       647 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-~l~~~~  682 (759)
                      +.-.++.+.|..++.++.+  ..|++...+ .++...
T Consensus       451 ~~i~~d~~~a~~~l~~~~~--~~~~~k~~~~~~~~~~  485 (577)
T KOG1258|consen  451 YKIREDADLARIILLEAND--ILPDCKVLYLELIRFE  485 (577)
T ss_pred             HHHhcCHHHHHHHHHHhhh--cCCccHHHHHHHHHHH
Confidence            3446888999999999988  666655554 344433

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.32  E-value=0.27  Score=50.82  Aligned_cols=58  Identities=16%  Similarity=0.231  Sum_probs=28.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc-CCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          501 SLLNGLCKAAKSEDVMETFKTMIEK-RCVPNIITYSILGESLCKAHKITEAFNLLEEME  558 (759)
Q Consensus       501 ~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  558 (759)
                      .+.+--...|..+.|++.--.+..- ++-|....|..+.-+.+....+....+.|-++.
T Consensus      1026 ilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkLe 1084 (1189)
T KOG2041|consen 1026 ILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKLE 1084 (1189)
T ss_pred             HHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHHH
Confidence            3333334456666666544333321 344555666665555555444444444444443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.32  E-value=0.066  Score=52.29  Aligned_cols=182  Identities=11%  Similarity=0.070  Sum_probs=89.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCChhcHHH
Q 004362          463 TFNTLIDGYCKQLKMEIAIEILNTMWSHG---VTPDVITYNSLLNGLCK---AAKSEDVMETFKTMIEKRCVPNIITYSI  536 (759)
Q Consensus       463 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~  536 (759)
                      +...++-+|....+++..+++.+.+....   +.-....-...+.++.+   .|+.++|++++..++.....+++.++..
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            33345555777777777777777776541   11122222234445555   6777777777777555545666777776


Q ss_pred             HHHHHHhc---------CCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHH
Q 004362          537 LGESLCKA---------HKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNI  607 (759)
Q Consensus       537 l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  607 (759)
                      ++..|-..         ...++|+..|.+.-+.  .++...-..++..+...|...+...-.+++.            ..
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~------------~~  288 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIG------------VK  288 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHH------------HH
Confidence            66665221         1234444444444332  1222221222222222332221111111111            00


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      +...+.+.|..             .-..|--.+.+++.++.-.|++++|...+++|.+  +.|...
T Consensus       289 l~~llg~kg~~-------------~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~--l~~~~W  339 (374)
T PF13281_consen  289 LSSLLGRKGSL-------------EKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFK--LKPPAW  339 (374)
T ss_pred             HHHHHHhhccc-------------cccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhh--cCCcch
Confidence            11111111111             0112333446677788889999999999999998  556544

>PRK15331 chaperone protein SicA; Provisional

Probab=97.30  E-value=0.0028  Score=53.00  Aligned_cols=92  Identities=8%  Similarity=-0.012  Sum_probs=71.8

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcC
Q 004362           46 MIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYG  125 (759)
Q Consensus        46 l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  125 (759)
                      .+.-+..+|++++|..+|+.+...++.  +.+-+..++.++-..+++++|+..|......+ ..|+..+-....++...|
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d~~--n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFY--NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcC--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhC
Confidence            444455788888888888888887777  77788888888888888888888888766444 345555666788888888


Q ss_pred             ChhHHHHHHHHHHHC
Q 004362          126 YFSQVHKVYMRMRNK  140 (759)
Q Consensus       126 ~~~~a~~~~~~~~~~  140 (759)
                      +.+.|...|...+..
T Consensus       120 ~~~~A~~~f~~a~~~  134 (165)
T PRK15331        120 KAAKARQCFELVNER  134 (165)
T ss_pred             CHHHHHHHHHHHHhC
Confidence            888888888888874

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.28  E-value=0.0017  Score=47.50  Aligned_cols=62  Identities=11%  Similarity=0.070  Sum_probs=50.2

Q ss_pred             HHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhh
Q 004362          574 NGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYT  639 (759)
Q Consensus       574 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~  639 (759)
                      ..|.+.+++++|+++++++...  .|.++..|...+.++...|++++|.+.++++.+.  .|+...
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~   64 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPD   64 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHH
Confidence            5677888888888888888888  7888888888888888888888888888888865  465433

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.26  E-value=0.31  Score=50.37  Aligned_cols=28  Identities=7%  Similarity=0.140  Sum_probs=15.4

Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 004362           37 KHTLLTYKYMIDKLGFHGNFEEMENLLL   64 (759)
Q Consensus        37 ~~~~~~~~~l~~~l~~~~~~~~A~~~~~   64 (759)
                      .|.++.|..++..-...-.++.|++.|-
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFV  716 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFV  716 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhh
Confidence            4556666666655544445555555443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.25  E-value=0.00043  Score=51.43  Aligned_cols=64  Identities=14%  Similarity=0.216  Sum_probs=38.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCC---CC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          602 TATYNIMINAFSEKLNFYMAEKLFYEMSEK--GCP---PD-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       602 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~---p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ..+++.++.+|...|++++|+..|+++++.  ...   |+ ..++..++.++...|++++|+.+++++++
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445666666666666666666666665532  011   12 34566666777777777777777776654

...

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.24  E-value=0.0041  Score=47.74  Aligned_cols=29  Identities=17%  Similarity=0.450  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 004362          199 EAYELFDEMLGMGISPDIATFNKLIHTLC  227 (759)
Q Consensus       199 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  227 (759)
                      ..+.+|+.|+..+++|+..+|+.++..+.
T Consensus        87 ~LLtvYqDiL~~~lKP~~etYnivl~~Ll  115 (120)
T PF08579_consen   87 NLLTVYQDILSNKLKPNDETYNIVLGSLL  115 (120)
T ss_pred             HHHHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence            45566777777777777777777766554

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 [, , ].

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=97.23  E-value=0.023  Score=56.24  Aligned_cols=126  Identities=14%  Similarity=0.160  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMID  645 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~  645 (759)
                      .+-..+..++.+.|+.++|++.++.+.+....-+...+...++.++...+.+.++..++.+-.+...+.. ..+|...+-
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALL  339 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALL  339 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHH
Confidence            3335566777788888888888888887633333556777788888888888888888887654333333 445555443


Q ss_pred             HHHhcCC---------------hHHHHHHHHHHHhCCCCCCHHHHHHHH-------HHHHhcCcHHHHHHHH
Q 004362          646 SFCKTGG---------------INSGYCLLLENIDKGFIPSLSTIGRVI-------NCLCVDHRVHEAVGFV  695 (759)
Q Consensus       646 ~~~~~g~---------------~~~A~~~~~~~~~~g~~p~~~~~~~l~-------~~~~~~g~~~~A~~~~  695 (759)
                      .....|+               -..|.+.+.++++  .+|..+.|..=.       ..+.+.|+ .||+.+-
T Consensus       340 kaRav~d~fs~e~a~rRGls~ae~~aveAi~RAve--fNPHVp~YLLe~K~LilPPehilkrGD-SEAiaYA  408 (539)
T PF04184_consen  340 KARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVE--FNPHVPKYLLEMKSLILPPEHILKRGD-SEAIAYA  408 (539)
T ss_pred             HHHhhccccCchhhhhcCCChhHHHHHHHHHHHHH--hCCCCchhhhccCCCCCChHHhcCCCc-HHHHHHH
Confidence            3333333               1346788889888  667665553211       13345665 6666543

The molecular function of this protein is uncertain.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.23  E-value=0.31  Score=49.81  Aligned_cols=392  Identities=13%  Similarity=0.060  Sum_probs=178.6

Q ss_pred             CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCh-hcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHH
Q 004362          285 DVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDG-FSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLI  363 (759)
Q Consensus       285 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  363 (759)
                      +...|+.++.---...+.+.+...+..++..  -|.. .-|......-.+.|..+.+.++|++.+.. ++.+...|....
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHH
Confidence            4455666665444444555666666666654  2322 23444445556667777888888777654 344444554444


Q ss_pred             HHHH-hcCCHHHHHHHHHHHHHc-CCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH---
Q 004362          364 NGLC-QDGDVDRAMAVYVKALEK-GLK-PSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLC---  437 (759)
Q Consensus       364 ~~~~-~~~~~~~A~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---  437 (759)
                      ..+. ..|+.+.....|+.+... |.. .+...|...+.--..++++.....+++++.+.   | ...++.....|.   
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei---P-~~~~~~~f~~f~~~l  196 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI---P-LHQLNRHFDRFKQLL  196 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh---h-hhHhHHHHHHHHHHH
Confidence            4333 356666666777666553 211 14455666666666677777777777777764   1 122222222221   


Q ss_pred             hc------CChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHH------
Q 004362          438 KM------GCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDV--ITYNSLL------  503 (759)
Q Consensus       438 ~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~l~------  503 (759)
                      ..      ...+++.++-......             ..-...+..  +..+=..+...+-+.+.  ...+.+.      
T Consensus       197 ~~~~~~~l~~~d~~~~l~~~~~~~-------------~~~~~~~~~--~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~  261 (577)
T KOG1258|consen  197 NQNEEKILLSIDELIQLRSDVAER-------------SKITHSQEP--LEELEIGVKDSTDPSKSLTEEKTILKRIVSIH  261 (577)
T ss_pred             hcCChhhhcCHHHHHHHhhhHHhh-------------hhcccccCh--hHHHHHHHhhccCccchhhHHHHHHHHHHHHH
Confidence            11      1112222111111110             000000000  11111111111000000  0000111      


Q ss_pred             -HHHHhcCCHHHHHHHHHHHHHc---CC----CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHH
Q 004362          504 -NGLCKAAKSEDVMETFKTMIEK---RC----VPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLING  575 (759)
Q Consensus       504 -~~~~~~~~~~~a~~~~~~~~~~---~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  575 (759)
                       .++.......+..-.|+.-++.   .+    +++..+|...+.--...|+.+.+.-++++..-. +..=...|...+..
T Consensus       262 ~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~  340 (577)
T KOG1258|consen  262 EKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARW  340 (577)
T ss_pred             HHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHH
Confidence             1111122222333333333332   11    123345555555556677777777777776532 22233455566666


Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChH
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGIN  654 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~  654 (759)
                      ....|+.+-|..++....+. ..|..+.+...-+...-..|+++.|..+++++.+. + |+ ...-..-+....+.|+.+
T Consensus       341 m~~~~~~~~~~~~~~~~~~i-~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~  417 (577)
T KOG1258|consen  341 MESSGDVSLANNVLARACKI-HVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLE  417 (577)
T ss_pred             HHHcCchhHHHHHHHhhhhh-cCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchh
Confidence            66667777777666665544 13333333333333344456777777777777664 2 54 222222333445666666


Q ss_pred             HHH---HHHHHHHhCCCCCCHHHHHHHHHHH-----HhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          655 SGY---CLLLENIDKGFIPSLSTIGRVINCL-----CVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       655 ~A~---~~~~~~~~~g~~p~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      .+.   .++....+.-..+  .....+...+     .-.++.+.|...+.++.+  +.|+
T Consensus       418 ~~~~~~~l~s~~~~~~~~~--~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~--~~~~  473 (577)
T KOG1258|consen  418 DANYKNELYSSIYEGKENN--GILEKLYVKFARLRYKIREDADLARIILLEAND--ILPD  473 (577)
T ss_pred             hhhHHHHHHHHhcccccCc--chhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhh--cCCc
Confidence            666   3333322211111  1111111111     234667777777777765  4555

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.23  E-value=0.11  Score=47.06  Aligned_cols=47  Identities=13%  Similarity=0.129  Sum_probs=24.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCcHHHH
Q 004362          643 MIDSFCKTGGINSGYCLLLENIDKGFIPSL----STIGRVINCLCVDHRVHEA  691 (759)
Q Consensus       643 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~l~~~~~~~g~~~~A  691 (759)
                      ++..|.+.|.+..|+..++.+++  --|+.    .....+...+.+.|..+.|
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~--~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIE--NYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHH--HSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHH--HCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            44556666666666666666665  23332    2223444555566666533

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.20  E-value=0.027  Score=58.33  Aligned_cols=118  Identities=12%  Similarity=-0.053  Sum_probs=84.0

Q ss_pred             cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CC-CCCHhhHHHHHHHHHhcCChHH
Q 004362          579 SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK--GC-PPDNYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       579 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~-~p~~~~~~~l~~~~~~~g~~~~  655 (759)
                      ..+.+.|.++++.+...  .|+.......-++.+...|+.++|++.|+++...  .. +....++.-+++++...++|++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            45677888888888887  6766666666678888888999999998876532  11 1124566778888888999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHH-HHHHHH-HhcCcH-------HHHHHHHHHHHH
Q 004362          656 GYCLLLENIDKGFIPSLSTIG-RVINCL-CVDHRV-------HEAVGFVHLMVQ  700 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~~~~~-~l~~~~-~~~g~~-------~~A~~~~~~~~~  700 (759)
                      |...|.++.+  ...-...++ .+..++ ...|+.       ++|.+++.++..
T Consensus       324 A~~~f~~L~~--~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  324 AAEYFLRLLK--ESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHh--ccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            9999999887  444333333 333333 677888       888888888754

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.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.19  E-value=0.25  Score=47.97  Aligned_cols=105  Identities=19%  Similarity=0.185  Sum_probs=68.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHH
Q 004362          254 FNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCK  333 (759)
Q Consensus       254 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  333 (759)
                      .+..+.-+...|+...|.++..+..    .|+...|...+.+++..++|++-.++...      .-++..|..++..|.+
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLK  249 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHH
Confidence            3444555666777777777766665    67777777777777777777766654321      1244667777777777


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHH
Q 004362          334 AGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAV  378 (759)
Q Consensus       334 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  378 (759)
                      .|...+|..++..+          .+..-+..|.++|++.+|.+.
T Consensus       250 ~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  250 YGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHH
Confidence            77777777666541          124456667777777777654

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

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.17  E-value=0.0039  Score=61.35  Aligned_cols=66  Identities=12%  Similarity=-0.099  Sum_probs=54.5

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H---hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          598 ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-N---YTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       598 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .|++...++.++.+|...|++++|+..|+++++.  .|+ .   .+|..++.+|...|++++|+..++++++
T Consensus        71 dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         71 DVKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6778888888888888888888888888888854  566 3   3588888888888888888888888888

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.15  E-value=0.005  Score=47.28  Aligned_cols=42  Identities=12%  Similarity=0.346  Sum_probs=24.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhCCC-CCCHHHHHHHHHHHHh
Q 004362          222 LIHTLCKKGNVRESEKLFNKVLKRGV-SPNLFTFNMFIQGLCR  263 (759)
Q Consensus       222 l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~  263 (759)
                      .|..+...+++...-.+|+.+++.|+ .|+..+|+.++...++
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~   73 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAK   73 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence            34444455666666666666666666 5666666666655544

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 [, , ].

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.14  E-value=0.00056  Score=39.73  Aligned_cols=29  Identities=28%  Similarity=0.639  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 004362          113 SYNTIMNILVEYGYFSQVHKVYMRMRNKG  141 (759)
Q Consensus       113 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  141 (759)
                      +|+.++++|.+.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            46666666666666666666666666654

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.13  E-value=0.0044  Score=61.04  Aligned_cols=68  Identities=9%  Similarity=-0.046  Sum_probs=61.6

Q ss_pred             CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchh---hHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          562 LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTA---TYNIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       562 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      -+.+...++.+..+|...|++++|+..|++.++.  .|++..   +|++++.+|...|++++|+..++++++.
T Consensus        71 dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         71 DVKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3557788999999999999999999999999998  787774   5999999999999999999999999964

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.11  E-value=0.21  Score=45.45  Aligned_cols=186  Identities=13%  Similarity=0.091  Sum_probs=103.8

Q ss_pred             CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCC-CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHH
Q 004362           38 HTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDD-SLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNT  116 (759)
Q Consensus        38 ~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  116 (759)
                      |....|...+. -.+.|+|++|.+.|+.+..+.|. +-...+...++.++.+.++++.|+..+++.....+.....-|..
T Consensus        33 p~~~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~  111 (254)
T COG4105          33 PASELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY  111 (254)
T ss_pred             CHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence            44445555444 45889999999999999988865 22355777788889999999999999999885543333334555


Q ss_pred             HHHHHHHc-------CChh---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHH
Q 004362          117 IMNILVEY-------GYFS---QVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCT  186 (759)
Q Consensus       117 l~~~~~~~-------~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  186 (759)
                      .|.+++..       ++..   .|..-|.+++..  -||+.             =...|...+..+...-    ...=..
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS~-------------Ya~dA~~~i~~~~d~L----A~~Em~  172 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPNSR-------------YAPDAKARIVKLNDAL----AGHEMA  172 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHH--CCCCc-------------chhhHHHHHHHHHHHH----HHHHHH
Confidence            56555532       1222   223333333332  12211             0011111111111000    000123


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCh---hhHHHHHHHHHhcCChhHHHHHHHHHhh
Q 004362          187 LIAGFYEENHNVEAYELFDEMLGMGISPDI---ATFNKLIHTLCKKGNVRESEKLFNKVLK  244 (759)
Q Consensus       187 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~  244 (759)
                      +...|.+.|.+..|..-+++|.+. .+-..   ..+..+..+|...|-.++|...-.-+..
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            445677777777787777777765 22122   2344555677777777777666554443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.05  E-value=0.00097  Score=38.70  Aligned_cols=25  Identities=36%  Similarity=0.590  Sum_probs=10.0

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHH
Q 004362          289 YNTLMCGLCKNSKVVEAEYYLHKMV  313 (759)
Q Consensus       289 ~~~l~~~~~~~~~~~~a~~~~~~~~  313 (759)
                      |+.++++|++.|++++|.++|++|.
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~   27 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMR   27 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHh
Confidence            3333444444444444444443333

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.

>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=97.04  E-value=0.023  Score=48.45  Aligned_cols=69  Identities=19%  Similarity=0.236  Sum_probs=34.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCCCCHHH
Q 004362          605 YNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID-----KGFIPSLST  674 (759)
Q Consensus       605 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~g~~p~~~~  674 (759)
                      ...++..+...|++++|+.+++++.... |-|...|..++.+|...|+..+|+..|++..+     .|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3444555555666666666666666442 33455666666666666666666666655432     255555443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.02  E-value=0.017  Score=52.79  Aligned_cols=99  Identities=11%  Similarity=0.053  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCC-CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCC--CCCHHHHHHHH
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVDD-SLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNC--EPTVLSYNTIM  118 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~  118 (759)
                      .|...+.. .+.|++.+|...|...++..|. +....++++|+.++..+|++++|...|..+....+  +.-+..+--+.
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 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            56665554 4778899999999999888866 23456889999999999999999999988874331  22346677778


Q ss_pred             HHHHHcCChhHHHHHHHHHHHCC
Q 004362          119 NILVEYGYFSQVHKVYMRMRNKG  141 (759)
Q Consensus       119 ~~~~~~~~~~~a~~~~~~~~~~~  141 (759)
                      .+..+.|+.++|..+|+++.+.-
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~Y  245 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRY  245 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHC
Confidence            88888999999999999988863

>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=97.02  E-value=0.016  Score=49.46  Aligned_cols=70  Identities=23%  Similarity=0.273  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH-----CCCCCCHHH
Q 004362           78 VHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRN-----KGIVPDVYT  148 (759)
Q Consensus        78 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  148 (759)
                      +...++..+...|+++.|+...+++.... |.+...|..+|.+|...|+...|.+.|+++.+     .|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34445555555666666666666555443 44555566666666666666666666655532     255555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.99  E-value=0.013  Score=46.02  Aligned_cols=90  Identities=16%  Similarity=0.068  Sum_probs=67.3

Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HhhHHHHHHHHHhcC
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD---NYTYRIMIDSFCKTG  651 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g  651 (759)
                      +....|+++.|++.|.+.+..  .|..+..||+-+.++.-+|+.++|+.-++++++..-+..   ...|..-+..|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~l--~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL--APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh--cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            566778888888888888887  778888888888888888888888888888876521212   123444555777888


Q ss_pred             ChHHHHHHHHHHHhC
Q 004362          652 GINSGYCLLLENIDK  666 (759)
Q Consensus       652 ~~~~A~~~~~~~~~~  666 (759)
                      +-+.|..=|+.+.+-
T Consensus       130 ~dd~AR~DFe~AA~L  144 (175)
T KOG4555|consen  130 NDDAARADFEAAAQL  144 (175)
T ss_pred             chHHHHHhHHHHHHh
Confidence            888888888887763

>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=96.87  E-value=0.0019  Score=47.91  Aligned_cols=65  Identities=15%  Similarity=0.221  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccC-C----CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK-I----SHTTATYNIMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      ..++..+..+|...|++++|+..|+++.+... .    |....++..++.++...|++++|++++++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34567777778888888888888877764311 1    11256677788888888888888888887763

...

>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=96.87  E-value=0.011  Score=50.10  Aligned_cols=113  Identities=10%  Similarity=0.011  Sum_probs=70.9

Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC----------CHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhc
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL----------NFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKT  650 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----------~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  650 (759)
                      ++.|.+.++.....  .|.|...++.-+.++....          -+++|+.=|++++  .+.|+ ..++..++.+|...
T Consensus         7 FE~ark~aea~y~~--nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL--~I~P~~hdAlw~lGnA~ts~   82 (186)
T PF06552_consen    7 FEHARKKAEAAYAK--NPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEAL--KINPNKHDALWCLGNAYTSL   82 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHH--HH-TT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHH--hcCCchHHHHHHHHHHHHHH
Confidence            45566666666555  6777776666666555432          2344555555555  34687 78888888888665


Q ss_pred             C-----------ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          651 G-----------GINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       651 g-----------~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      +           .+++|..+|+++..  .+|+++.|..-+...      ++|-++..++.+++..+.
T Consensus        83 A~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~------~kap~lh~e~~~~~~~~q  141 (186)
T PF06552_consen   83 AFLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMA------AKAPELHMEIHKQGLGQQ  141 (186)
T ss_dssp             HHH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHH------HTHHHHHHHHHHSSS---
T ss_pred             HhhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHH------HhhHHHHHHHHHHHhhhh
Confidence            4           26778888888888  889999998766543      467788888877766554

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.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.84  E-value=0.44  Score=44.89  Aligned_cols=197  Identities=16%  Similarity=0.089  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH-H
Q 004362          498 TYNSLLNGLCKAAKSEDVMETFKTMIEK-RCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN-G  575 (759)
Q Consensus       498 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~  575 (759)
                      ........+...++...+...+...... ........+......+...+++..+...+.........+ ......... +
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  139 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHH
Confidence            3334444444445555554444444331 112233334444444444455555555555554432111 111111112 4


Q ss_pred             HHccCChhhHHHHHHHHHHccCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHHHhcC
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKIS---HTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP-DNYTYRIMIDSFCKTG  651 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  651 (759)
                      +...|+++.|...+.+....  .|   .....+......+...++.++++..+.++.... +. ....+..+...+...+
T Consensus       140 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         140 LYELGDYEEALELYEKALEL--DPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcc
Confidence            55556666666666655332  22   222333333334455566666666666665431 22 2455555556666666


Q ss_pred             ChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          652 GINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       652 ~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +++.|...+..+..  ..|+ ...+......+...|..+++...+++...
T Consensus       217 ~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         217 KYEEALEYYEKALE--LDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             cHHHHHHHHHHHHh--hCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666665  4444 22333333333344556666666655554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.78  E-value=0.03  Score=45.85  Aligned_cols=84  Identities=17%  Similarity=0.142  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCc-cHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHH
Q 004362           40 LLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSL-LEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIM  118 (759)
Q Consensus        40 ~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  118 (759)
                      +..+-.-+....+.|++.+|.+.|+.+..+.|.+. ...+...++.+|.+.++++.|+..++++...++..--.-|...+
T Consensus        10 ~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~   89 (142)
T PF13512_consen   10 PQELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYM   89 (142)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            33344455556688999999999999999886633 34577889999999999999999999988766433223355555


Q ss_pred             HHHHH
Q 004362          119 NILVE  123 (759)
Q Consensus       119 ~~~~~  123 (759)
                      .+++.
T Consensus        90 ~gL~~   94 (142)
T PF13512_consen   90 RGLSY   94 (142)
T ss_pred             HHHHH
Confidence            55443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.72  E-value=0.29  Score=43.70  Aligned_cols=30  Identities=17%  Similarity=0.166  Sum_probs=21.0

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Q 004362           39 TLLTYKYMIDKLGFHGNFEEMENLLLEMRM   68 (759)
Q Consensus        39 ~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~   68 (759)
                      ....|.....++-.+.+|++|...+.++.+
T Consensus        30 aas~yekAAvafRnAk~feKakdcLlkA~~   59 (308)
T KOG1585|consen   30 AASLYEKAAVAFRNAKKFEKAKDCLLKASK   59 (308)
T ss_pred             hHHHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            445666667777777788888877776664

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.72  E-value=0.65  Score=45.19  Aligned_cols=285  Identities=14%  Similarity=0.099  Sum_probs=156.1

Q ss_pred             CHHHHHHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Q 004362            6 LPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRN   85 (759)
Q Consensus         6 ~~~~~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~   85 (759)
                      +...++...-..|+++.|..+.+.       .|.+.-   -+..|.+.|+.+.|   +.++.+.+.   +.-++..++..
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~~-------Ep~~~~---qVplLL~m~e~e~A---L~kAi~SgD---~DLi~~vLl~L   65 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLEL-------EPRASK---QVPLLLKMGEDELA---LNKAIESGD---TDLIYLVLLHL   65 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHHc-------CCChHH---HHHHHhcCCchHHH---HHHHHHcCC---ccHHHHHHHHH
Confidence            456677777889999999998875       233332   23445677887777   556666552   22345545443


Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhH
Q 004362           86 YGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVA  165 (759)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  165 (759)
                      --+.. ..   +++ .+...  .|..   ..+...|++..+.+...++|.+--+    ........+-.++ +..+.+.-
T Consensus        66 ~~~l~-~s---~f~-~il~~--~p~a---~~l~~~~~r~~~~~~L~~~y~q~d~----~~~~a~~~l~~~~-~~~~~~~~  130 (319)
T PF04840_consen   66 KRKLS-LS---QFF-KILNQ--NPVA---SNLYKKYCREQDRELLKDFYYQEDR----FQELANLHLQEAL-SQKDVEEK  130 (319)
T ss_pred             HHhCC-HH---HHH-HHHHh--Ccch---HHHHHHHHHhccHHHHHHHHHhcch----HHHHHHHHHHHHH-hCCChHHH
Confidence            33222 11   222 33322  1222   2334456665565555555543211    1111122222222 22333333


Q ss_pred             HHHHhhchhC-CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhh
Q 004362          166 LRLLKNMPSQ-GFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLK  244 (759)
Q Consensus       166 ~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  244 (759)
                      ...+..+.+. +-..+......++.-..+.-+++   +-+++-..  ......+.+..+.-+...|+...|.++-.+.. 
T Consensus       131 ~~~L~~a~~~y~~~k~~~f~~~~~e~q~~Ll~~Q---~~Le~~~~--~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk-  204 (319)
T PF04840_consen  131 ISFLKQAQKLYSKSKNDAFEAKLIEEQIKLLEYQ---KELEEKYN--TNFVGLSLNDTIRKLIEMGQEKQAEKLKKEFK-  204 (319)
T ss_pred             HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHH---HHHHHHhc--cchhcCCHHHHHHHHHHCCCHHHHHHHHHHcC-
Confidence            3333222221 00011111112221111110111   01111111  11122345666777888899998888877662 


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcH
Q 004362          245 RGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSY  324 (759)
Q Consensus       245 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  324 (759)
                         .|+..-|...+.+++..++|++-.++...      ..++..|..++.+|.+.|...+|..+...+          .+
T Consensus       205 ---v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~~yI~k~----------~~  265 (319)
T PF04840_consen  205 ---VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEASKYIPKI----------PD  265 (319)
T ss_pred             ---CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHHHHHHhC----------Ch
Confidence               46888999999999999999988876432      345688999999999999999999887762          22


Q ss_pred             HHHHHHHHHcCChhHHHHHHHH
Q 004362          325 NAVIDGYCKAGMISSADKILND  346 (759)
Q Consensus       325 ~~ll~~~~~~~~~~~a~~~~~~  346 (759)
                      ..-+..|.+.|++.+|.+.--+
T Consensus       266 ~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  266 EERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHH
Confidence            4567788999999988766443

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

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.72  E-value=0.032  Score=51.01  Aligned_cols=94  Identities=15%  Similarity=0.227  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HhhHH
Q 004362          568 AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD---NYTYR  641 (759)
Q Consensus       568 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~  641 (759)
                      .|+.-+. +.+.|++..|...|...++.  .|.+   +.++..|+.++...|++++|...|..+.+. .+..   +..+.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~--YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~-~P~s~KApdall  219 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKK--YPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKD-YPKSPKAPDALL  219 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHc--CCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHh-CCCCCCChHHHH
Confidence            4444443 33556677777777777766  4433   344555556666666666666666555543 1111   34455


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHh
Q 004362          642 IMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       642 ~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      -|+.+..+.|+.++|...|++.++
T Consensus       220 Klg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         220 KLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHH
Confidence            555555556666666666666555

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.70  E-value=0.038  Score=53.34  Aligned_cols=95  Identities=8%  Similarity=-0.014  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMID  645 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~  645 (759)
                      .++..+..+|.+.+++..|++....++..  .|++.-....-+.++...|+++.|+..|+++++.  .|+ ..+-..|+.
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~--~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~  333 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLEL--DPNNVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIK  333 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhc--CCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHH
Confidence            35677888999999999999999999998  8999999999999999999999999999999965  676 444555555


Q ss_pred             HHHhcCChH-HHHHHHHHHHh
Q 004362          646 SFCKTGGIN-SGYCLLLENID  665 (759)
Q Consensus       646 ~~~~~g~~~-~A~~~~~~~~~  665 (759)
                      +-.+..++. ...++|.+|..
T Consensus       334 l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  334 LKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh
Confidence            444444444 44778888876

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.70  E-value=0.16  Score=44.29  Aligned_cols=49  Identities=12%  Similarity=-0.033  Sum_probs=23.0

Q ss_pred             ChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC
Q 004362           55 NFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFY  105 (759)
Q Consensus        55 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  105 (759)
                      -+..|+--|..+....|.  -+++++-++.-+...|+++.|.+.|+...+.
T Consensus        80 L~~LAR~DftQaLai~P~--m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL  128 (297)
T COG4785          80 LRALARNDFSQALAIRPD--MPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL  128 (297)
T ss_pred             HHHHHhhhhhhhhhcCCC--cHHHHHHHHHHHHhcccchHHHHHhhhHhcc
Confidence            333344444444444444  4445555555555555555555555544433

>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=96.63  E-value=0.017  Score=50.66  Aligned_cols=36  Identities=19%  Similarity=0.227  Sum_probs=24.2

Q ss_pred             ChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCC
Q 004362          301 KVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGM  336 (759)
Q Consensus       301 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  336 (759)
                      +-+-|++++++|...|+-||..++..+++.+.+.+.
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            345567777777777777777777777777655543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.62  E-value=0.042  Score=48.27  Aligned_cols=102  Identities=27%  Similarity=0.303  Sum_probs=56.1

Q ss_pred             CHhhHHHHHHHHH-----hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcH
Q 004362          460 DIFTFNTLIDGYC-----KQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITY  534 (759)
Q Consensus       460 ~~~~~~~l~~~~~-----~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  534 (759)
                      +..++..+++.|.     +.|..+-....+..|.+.|+.-|..+|+.|+.++-+ |.+- -..+|+.+--          
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F~----------  113 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEFM----------  113 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHhc----------
Confidence            5555555555554     346666677777777777777777777777776654 2211 0111111110          


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC
Q 004362          535 SILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG  580 (759)
Q Consensus       535 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  580 (759)
                             -.-.+-+-|++++++|...|+-||.+++..++..+.+.+
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                   011233446666666666666666666666666664433

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.60  E-value=0.18  Score=46.69  Aligned_cols=126  Identities=13%  Similarity=0.114  Sum_probs=80.7

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcC
Q 004362           46 MIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYG  125 (759)
Q Consensus        46 l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  125 (759)
                      -+..+...|++.+|..+|..+....+.  +.++...++++|...|+.+.|..++..++...-.........-+..+.+..
T Consensus       140 ~~~~~~~~e~~~~a~~~~~~al~~~~~--~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa  217 (304)
T COG3118         140 EAKELIEAEDFGEAAPLLKQALQAAPE--NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAA  217 (304)
T ss_pred             HhhhhhhccchhhHHHHHHHHHHhCcc--cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHh
Confidence            344566889999999999999988887  778888899999999999999999988774321112222222344455554


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhC
Q 004362          126 YFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQ  175 (759)
Q Consensus       126 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  175 (759)
                      ...+...+-.+....  +.|...-..+...+...|+.+.|.+.+-.+.++
T Consensus       218 ~~~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         218 ATPEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             cCCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            444444444444332  225555556666666667777666655554443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.59  E-value=0.32  Score=49.75  Aligned_cols=92  Identities=11%  Similarity=0.183  Sum_probs=55.3

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH------
Q 004362          601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST------  674 (759)
Q Consensus       601 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~------  674 (759)
                      +..+...++.-+.+...+.-|.++|++|-+         ..+++......++|.+|..+.++..+  +.|+...      
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwL  814 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWL  814 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHh
Confidence            344445555555556666777777776632         23466667788888888888887666  4454221      


Q ss_pred             -----HHHHHHHHHhcCcHHHHHHHHHHHHHCCC
Q 004362          675 -----IGRVINCLCVDHRVHEAVGFVHLMVQKGI  703 (759)
Q Consensus       675 -----~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  703 (759)
                           +...-.++.++|+..||..+++++....+
T Consensus       815 AE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  815 AENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             hhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence                 11222344567777777777777665333

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.58  E-value=0.67  Score=43.61  Aligned_cols=224  Identities=15%  Similarity=0.044  Sum_probs=146.7

Q ss_pred             ChHHHHHHHHHHHHCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004362          441 CVSDANNLVNDAISKGYI-PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSH-GVTPDVITYNSLLNGLCKAAKSEDVMET  518 (759)
Q Consensus       441 ~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~  518 (759)
                      ....+...+......... ............+...+.+..+...+...... ........+......+...++...+.+.
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (291)
T COG0457          38 ELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALEL  117 (291)
T ss_pred             hHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHH
Confidence            334444444444433211 12455566666677777777777777766542 1233455566666666677777788887


Q ss_pred             HHHHHHcCCCCChhcHHHHHH-HHHhcCCHHHHHHHHHHHHHCCC--CccHHHHHHHHHHHHccCChhhHHHHHHHHHHc
Q 004362          519 FKTMIEKRCVPNIITYSILGE-SLCKAHKITEAFNLLEEMENKGL--TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ  595 (759)
Q Consensus       519 ~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  595 (759)
                      +.........+ ......... .+...|+++.+...+.+......  ......+......+...++.+.+...+......
T Consensus       118 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         118 LEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            77777643222 122223333 67788888888888888865211  123333444444567788899999999998887


Q ss_pred             cCCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          596 YKISH-TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       596 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                        .+. ....+..+...+...++++.|...+......  .|+ ...+..+...+...|.++.+...+.+..+  ..|.
T Consensus       197 --~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~  268 (291)
T COG0457         197 --NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALE--LDPD  268 (291)
T ss_pred             --CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH--hCcc
Confidence              565 5777888888899999999999999998854  454 55566666666677789999999999988  5565

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.54  E-value=1.5  Score=46.97  Aligned_cols=181  Identities=14%  Similarity=0.119  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHH
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNIL  121 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  121 (759)
                      ....-+..+.+...+.-|..+.+.-......  ...+...-+.-+.+.|++++|...|-+-...- .|.     .++.-|
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~--~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~l-e~s-----~Vi~kf  407 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQHLDEDT--LAEIHRKYGDYLYGKGDFDEATDQYIETIGFL-EPS-----EVIKKF  407 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcCCCHHH--HHHHHHHHHHHHHhcCCHHHHHHHHHHHcccC-ChH-----HHHHHh
Confidence            4455667777777788887665432221111  23444555666677888888887776654211 121     245556


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHH
Q 004362          122 VEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAY  201 (759)
Q Consensus       122 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  201 (759)
                      .......+....++.+.+.|+. +..--+.|+.+|.+.++.+.-.+..+... .|..  ..-....+..+.+.+-.++|.
T Consensus       408 Ldaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~  483 (933)
T KOG2114|consen  408 LDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAE  483 (933)
T ss_pred             cCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHH
Confidence            6666677777777777777743 33344567778888888877777776655 2211  011223334444444444444


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 004362          202 ELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKV  242 (759)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  242 (759)
                      -+-.....     +......   .+-..|++++|.+.+..+
T Consensus       484 ~LA~k~~~-----he~vl~i---lle~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  484 LLATKFKK-----HEWVLDI---LLEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHhcc-----CHHHHHH---HHHHhcCHHHHHHHHhcC
Confidence            33333221     2222222   233446677776666543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.50  E-value=0.49  Score=43.95  Aligned_cols=122  Identities=12%  Similarity=0.065  Sum_probs=66.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhH
Q 004362          506 LCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGA  585 (759)
Q Consensus       506 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  585 (759)
                      ....|+..+|...|+...... +-+......++.+|...|+.+.|..++..+...--.........-+..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            345666666666666666552 2234455566666667777777777666654321111111122233444444444444


Q ss_pred             HHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          586 YQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       586 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      ..+-++...   .|+|...-..++..+...|+.++|.+.+=.++++
T Consensus       223 ~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         223 QDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             HHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            444443332   4666666666666666666666666666555544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.49  E-value=0.15  Score=53.02  Aligned_cols=84  Identities=20%  Similarity=0.173  Sum_probs=39.4

Q ss_pred             ChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCC---CCCHHHHHHHHHHHHHcCChhHHH
Q 004362           55 NFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNC---EPTVLSYNTIMNILVEYGYFSQVH  131 (759)
Q Consensus        55 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~  131 (759)
                      ..+.|.++++.+....|.  ..-....-++.+...|+.++|++.|++......   +.....+-.++-++.-.++|++|.
T Consensus       248 ~~~~a~~lL~~~~~~yP~--s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  248 PLEEAEELLEEMLKRYPN--SALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            445555555555555554  333333445555555555555555554331100   011122223344444455555555


Q ss_pred             HHHHHHHHC
Q 004362          132 KVYMRMRNK  140 (759)
Q Consensus       132 ~~~~~~~~~  140 (759)
                      ..|..+.+.
T Consensus       326 ~~f~~L~~~  334 (468)
T PF10300_consen  326 EYFLRLLKE  334 (468)
T ss_pred             HHHHHHHhc
Confidence            555555553

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.47  E-value=0.006  Score=38.86  Aligned_cols=38  Identities=18%  Similarity=0.259  Sum_probs=18.0

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHH
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIM  608 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  608 (759)
                      +..+..+|...|++++|+++|+++.+.  .|+++..+..+
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~--~P~~~~a~~~L   41 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL--DPDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCHHHHHHh
Confidence            344444455555555555555555444  44444444433

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.47  E-value=1.5  Score=46.24  Aligned_cols=87  Identities=8%  Similarity=0.043  Sum_probs=44.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC--HHHHH-HHHHHHhhCCCCCCcchHHHHHHHHHh
Q 004362          222 LIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGA--ISEAI-SLLDSLGREDLTPDVVTYNTLMCGLCK  298 (759)
Q Consensus       222 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~  298 (759)
                      ++.-+...+.+..|.++-..+-..-.. ...++......+.+..+  -+.++ .+-+++...  ...-..|..+.+-...
T Consensus       443 vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~--~~~~iSy~~iA~~Ay~  519 (829)
T KOG2280|consen  443 VIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK--LTPGISYAAIARRAYQ  519 (829)
T ss_pred             hhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhccc--CCCceeHHHHHHHHHh
Confidence            345555566777777776655322111 13455555666655432  12222 222333211  1334456666666667


Q ss_pred             CCChHHHHHHHHH
Q 004362          299 NSKVVEAEYYLHK  311 (759)
Q Consensus       299 ~~~~~~a~~~~~~  311 (759)
                      .|+.+-|..+++.
T Consensus       520 ~GR~~LA~kLle~  532 (829)
T KOG2280|consen  520 EGRFELARKLLEL  532 (829)
T ss_pred             cCcHHHHHHHHhc
Confidence            7777777776654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.39  E-value=0.19  Score=51.35  Aligned_cols=52  Identities=15%  Similarity=0.163  Sum_probs=30.5

Q ss_pred             HHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 004362          397 LIKGLSQQGL--ILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVND  451 (759)
Q Consensus       397 l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  451 (759)
                      .-.+|.+..+  +-+.+.-++++.+.|-.|+...   +...|+-.|.+.+|.++|.+
T Consensus       604 ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  604 ARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            3345554433  3344455667777776677643   34456667777777777754

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.36  E-value=0.38  Score=40.42  Aligned_cols=124  Identities=10%  Similarity=0.030  Sum_probs=49.9

Q ss_pred             HhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHH---HHHHHHcCCh
Q 004362           51 GFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTI---MNILVEYGYF  127 (759)
Q Consensus        51 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~  127 (759)
                      ++.|+.++|..-|..+-+.+-.+-..-.....+......|+-..|+..|+.+-....-|.+.--..-   .-++..+|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            3444455555555444444422001112222333444455555555555544422222222111111   1123345555


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchh
Q 004362          128 SQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPS  174 (759)
Q Consensus       128 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  174 (759)
                      +++....+-+...+-+--...-..|.-+-.+.|++..|.++|.++..
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            55544444444333222233334444444455555555555555444

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.32  E-value=0.25  Score=39.22  Aligned_cols=94  Identities=11%  Similarity=0.006  Sum_probs=61.6

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCH---HHHHHHHHHHH
Q 004362           46 MIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTV---LSYNTIMNILV  122 (759)
Q Consensus        46 l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~  122 (759)
                      -+-+++..|++++|++.|..++..-|.  ...+|+.-+.++.-+|+.++|++=+++..+...+...   .+|..-...|.
T Consensus        49 ~~valaE~g~Ld~AlE~F~qal~l~P~--raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyR  126 (175)
T KOG4555|consen   49 KAIALAEAGDLDGALELFGQALCLAPE--RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYR  126 (175)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHhccc--chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHH
Confidence            344566777788888888777777776  7777777777777777777777777776643222222   22333445566


Q ss_pred             HcCChhHHHHHHHHHHHCC
Q 004362          123 EYGYFSQVHKVYMRMRNKG  141 (759)
Q Consensus       123 ~~~~~~~a~~~~~~~~~~~  141 (759)
                      ..|+.+.|..-|+...+.|
T Consensus       127 l~g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  127 LLGNDDAARADFEAAAQLG  145 (175)
T ss_pred             HhCchHHHHHhHHHHHHhC
Confidence            6677777777777766654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.30  E-value=0.084  Score=49.81  Aligned_cols=230  Identities=10%  Similarity=0.011  Sum_probs=119.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH----HHHcC-CCCChhcHHHHHHHHHh
Q 004362          471 YCKQLKMEIAIEILNTMWSHG--VTPDVITYNSLLNGLCKAAKSEDVMETFKT----MIEKR-CVPNIITYSILGESLCK  543 (759)
Q Consensus       471 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~~-~~~~~~~~~~l~~~~~~  543 (759)
                      +....+.++|+..+.+...+-  ...-..++..+..+.+..|.+++++..--.    ..+.. ...-...|..+..++.+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345667777777776665431  111223455556666666666665543222    11110 00012234445555555


Q ss_pred             cCCHHHHHHHHHHHHHC-CCCc---cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc----hhhHHHHHHHHHhc
Q 004362          544 AHKITEAFNLLEEMENK-GLTL---DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT----TATYNIMINAFSEK  615 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~  615 (759)
                      ..++.+++.+-+.-... |..+   .......+..+..-.+.++++++.|+.+.......+|    ..++..++..|...
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            55555555555444432 2222   1122334555666666777777777776654322222    34566677777777


Q ss_pred             CCHHHHHHHHHHHHHc--CCC-CC-HhhH-----HHHHHHHHhcCChHHHHHHHHHHHh----CCCCCC-HHHHHHHHHH
Q 004362          616 LNFYMAEKLFYEMSEK--GCP-PD-NYTY-----RIMIDSFCKTGGINSGYCLLLENID----KGFIPS-LSTIGRVINC  681 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~--~~~-p~-~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~----~g~~p~-~~~~~~l~~~  681 (759)
                      .++++|.-+..++.+.  .+. .| ...|     ..+.-++...|..-+|.++.+++.+    .|-.|- ...+..+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            7777777777766543  222 12 1122     2334466667777777777776654    232221 1222344455


Q ss_pred             HHhcCcHHHHHHHHHHHHH
Q 004362          682 LCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       682 ~~~~g~~~~A~~~~~~~~~  700 (759)
                      |...|+.+.|+.-|+.+..
T Consensus       256 yR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHhcccHhHHHHHHHHHHH
Confidence            5566777777777776654

>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=96.30  E-value=1.1  Score=43.02  Aligned_cols=124  Identities=13%  Similarity=0.020  Sum_probs=72.0

Q ss_pred             cCCChHHHHHHHHHhhhcC-CCCCCH-----HHHHHHHHHHHhCC-ChHHHHHHHHHHHhc----C------CC--CccH
Q 004362           16 HQKNPLTALEMFNSVKRED-GFKHTL-----LTYKYMIDKLGFHG-NFEEMENLLLEMRMD----V------DD--SLLE   76 (759)
Q Consensus        16 ~~~~~~~A~~~~~~~~~~~-~~~~~~-----~~~~~l~~~l~~~~-~~~~A~~~~~~~~~~----~------~~--~~~~   76 (759)
                      ++|+.+.|.-+|.++.... ...|+.     ..+..++..+...+ ++++|..+++++...    .      +.  ....
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~   84 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRL   84 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHH
Confidence            6889999999999876543 222222     13344555556677 888888888776554    1      11  0112


Q ss_pred             HHHHHHHHHHHhcCChhHHHHH---HHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 004362           77 GVHIGVMRNYGRRGKVQEAVDV---FERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNK  140 (759)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~A~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  140 (759)
                      .++..++.+|...+..+...++   ++.+.... +..+..+..-+.++.+.++.+.+.+.+.+|+..
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            2445566677766665544443   33333222 222344445566666677777777777777765

It is also involved in sporulation [].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.28  E-value=0.01  Score=37.77  Aligned_cols=40  Identities=15%  Similarity=0.015  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHH
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVM   83 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~   83 (759)
                      .+..++..|...|++++|++.|+++.+..|.  +..++..++
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~--~~~a~~~La   42 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPD--DPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC--CHHHHHHhh
Confidence            4556667777777777777777777777766  666655544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.20  E-value=0.18  Score=41.36  Aligned_cols=52  Identities=10%  Similarity=0.201  Sum_probs=21.4

Q ss_pred             ccCChhhHHHHHHHHHHccCCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          578 NSGDLDGAYQLFRRMEDQYKISH-TTATYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       578 ~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      +.|++++|++.|+.+...+..++ ...+...++.+|...+++++|+..+++.+
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFi   74 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFI   74 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            34445555555544444421111 12223334444444444444444444444

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.16  E-value=1  Score=41.17  Aligned_cols=56  Identities=13%  Similarity=0.144  Sum_probs=35.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          643 MIDSFCKTGGINSGYCLLLENIDKGFIPS----LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       643 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ++.-|.+.|.+..|...++++++.  -|+    .+.+..+..++...|-.++|.+.-+-+..
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~--y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLEN--YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhc--cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            445677777777777777777763  222    23334555666677777777776655544

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.12  E-value=0.24  Score=46.88  Aligned_cols=128  Identities=12%  Similarity=0.045  Sum_probs=59.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCC-----CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc---CCCC-----chh
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKG-----LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY---KISH-----TTA  603 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~-----~~~  603 (759)
                      +..+....+.++++.+.|+.+.+.-     .-....++..+...|.+..|+++|.-+..++.+.-   ...+     ...
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            4444444555555555555554320     01122344555555555566665555544443321   0011     012


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEK----GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENI  664 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  664 (759)
                      +...|+.++...|++..|.+.-++..+.    |-.+- ......++++|...|+.+.|..-|+.+.
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            2233445555555555555555543322    21121 3344555566666666666666555543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.12  E-value=0.27  Score=46.06  Aligned_cols=152  Identities=12%  Similarity=0.068  Sum_probs=77.6

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHH----HHHHHhcCCHH
Q 004362          473 KQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSIL----GESLCKAHKIT  548 (759)
Q Consensus       473 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~~~~  548 (759)
                      ..|+..+|-..++++++. .+.|...+...-.+|.-.|+.+.-...+++++.. -.|+...|..+    .-++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            345555555556665554 3345555555555666666666655555555543 12333333222    22334556666


Q ss_pred             HHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc--hhhHHHHHHHHHhcCCHHHHHHHHH
Q 004362          549 EAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT--TATYNIMINAFSEKLNFYMAEKLFY  626 (759)
Q Consensus       549 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~  626 (759)
                      +|.+.-++..+.+ +.|.-...+....+...|+..++.++...-........-  .+.|-..+-.+...+.++.|+++|.
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            6666666665542 334555555556666666666666666555443221111  1222233334445566666666665


Q ss_pred             H
Q 004362          627 E  627 (759)
Q Consensus       627 ~  627 (759)
                      +
T Consensus       272 ~  272 (491)
T KOG2610|consen  272 R  272 (491)
T ss_pred             H
Confidence            4

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.09  E-value=0.42  Score=44.85  Aligned_cols=146  Identities=10%  Similarity=-0.030  Sum_probs=100.6

Q ss_pred             HccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHH----HHHHHHhcCC
Q 004362          577 CNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRI----MIDSFCKTGG  652 (759)
Q Consensus       577 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~----l~~~~~~~g~  652 (759)
                      .-.|+..+|-..++++.+.  .|.|..++.---.++...|+...-...++++... ..||..+|..    +.-++...|-
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--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hccccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhcc
Confidence            3468888888888888888  7888888887778888888888888888887743 3556544332    3335567899


Q ss_pred             hHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc-------hHHHHHhc-cccccccch
Q 004362          653 INSGYCLLLENIDKGFIPSL-STIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE-------VVNTIFEA-DKREVASPK  723 (759)
Q Consensus       653 ~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-------~~~~~~~~-~~~~~~~a~  723 (759)
                      +++|.+..+++++  ++|.+ .........+...|+..++.++..+-.. .++-.       .|..-+.. ..+.++.|.
T Consensus       191 y~dAEk~A~ralq--iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted-~Wr~s~mlasHNyWH~Al~~iE~aeye~al  267 (491)
T KOG2610|consen  191 YDDAEKQADRALQ--INRFDCWASHAKAHVLEMNGRHKEGKEFMYKTED-DWRQSWMLASHNYWHTALFHIEGAEYEKAL  267 (491)
T ss_pred             chhHHHHHHhhcc--CCCcchHHHHHHHHHHHhcchhhhHHHHHHhccc-chhhhhHHHhhhhHHHHHhhhcccchhHHH
Confidence            9999999999988  77753 3334555666788999999988766432 12111       11111111 668888898


Q ss_pred             HHHHH
Q 004362          724 IVVED  728 (759)
Q Consensus       724 ~~~~~  728 (759)
                      .+|.+
T Consensus       268 eIyD~  272 (491)
T KOG2610|consen  268 EIYDR  272 (491)
T ss_pred             HHHHH
Confidence            88876

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=95.85  E-value=3.5  Score=44.76  Aligned_cols=228  Identities=12%  Similarity=0.066  Sum_probs=127.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHH-HHHhcCCHHHHHHHHHHHHHc----CCCCChhcHHHHH
Q 004362          471 YCKQLKMEIAIEILNTMWSHGVTPDV-------ITYNSLLN-GLCKAAKSEDVMETFKTMIEK----RCVPNIITYSILG  538 (759)
Q Consensus       471 ~~~~~~~~~A~~~~~~~~~~~~~~~~-------~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~  538 (759)
                      .....++.+|..+..++...-..|+.       ..|+.+-. +....|+++.|.++.+.....    ...+....+..++
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            44677888888888877654222221       13443332 234578899999888877764    2234455677778


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCccHHH---HHHH--HHHHHccCC--hhhHHHHHHHHHHcc--CCCCc---hhhHH
Q 004362          539 ESLCKAHKITEAFNLLEEMENKGLTLDTVA---FGTL--INGFCNSGD--LDGAYQLFRRMEDQY--KISHT---TATYN  606 (759)
Q Consensus       539 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l--~~~~~~~g~--~~~A~~~~~~~~~~~--~~~~~---~~~~~  606 (759)
                      .+..-.|++++|..+.++..+..-..+...   |..+  ...+...|.  +.+....|.......  ..|-.   ..++.
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            888889999999999888775421222222   2222  334566773  334444444443321  12222   22333


Q ss_pred             HHHHHHHhc-CCHHHHHHHHHHHHHcCCCCCHhh--HHHHHHHHHhcCChHHHHHHHHHHHhCCCCC----CHHHHHHHH
Q 004362          607 IMINAFSEK-LNFYMAEKLFYEMSEKGCPPDNYT--YRIMIDSFCKTGGINSGYCLLLENIDKGFIP----SLSTIGRVI  679 (759)
Q Consensus       607 ~l~~~~~~~-g~~~~A~~~~~~~~~~~~~p~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p----~~~~~~~l~  679 (759)
                      .+.+++.+. +...++..-++-.......|-...  +..|+.+....|++++|...+.++......+    +.......+
T Consensus       585 ~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v  664 (894)
T COG2909         585 QLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKV  664 (894)
T ss_pred             HHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHh
Confidence            344444441 223333333333322221222222  2367788899999999999999987632222    333333444


Q ss_pred             HHH--HhcCcHHHHHHHHHHH
Q 004362          680 NCL--CVDHRVHEAVGFVHLM  698 (759)
Q Consensus       680 ~~~--~~~g~~~~A~~~~~~~  698 (759)
                      ...  ...|+..+|..+..+-
T Consensus       665 ~~~lwl~qg~~~~a~~~l~~s  685 (894)
T COG2909         665 KLILWLAQGDKELAAEWLLKS  685 (894)
T ss_pred             hHHHhcccCCHHHHHHHHHhc
Confidence            444  4779999999888773

>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=95.78  E-value=2  Score=41.35  Aligned_cols=101  Identities=12%  Similarity=0.096  Sum_probs=51.6

Q ss_pred             cHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          533 TYSILGESLCKAHKI---TEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       533 ~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      ++..++.+|...+..   ++|..+++.+... .+..+.++..-+..+.+.++.+.+.+.+.+|......  ....+..++
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~--~e~~~~~~l  162 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH--SESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc--ccchHHHHH
Confidence            445556666655543   3455555555443 3333444545556666677777777777777776321  223333333


Q ss_pred             HHH---HhcCCHHHHHHHHHHHHHcCCCCCH
Q 004362          610 NAF---SEKLNFYMAEKLFYEMSEKGCPPDN  637 (759)
Q Consensus       610 ~~~---~~~g~~~~A~~~~~~~~~~~~~p~~  637 (759)
                      ..+   .. .....|...+.+++...+.|..
T Consensus       163 ~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  163 HHIKQLAE-KSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHh-hCcHHHHHHHHHHHHHHhCCCh
Confidence            333   22 2334555555555444344443

It is also involved in sporulation [].

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.75  E-value=0.011  Score=34.91  Aligned_cols=32  Identities=13%  Similarity=0.266  Sum_probs=19.8

Q ss_pred             HHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHH
Q 004362          589 FRRMEDQYKISHTTATYNIMINAFSEKLNFYMAE  622 (759)
Q Consensus       589 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  622 (759)
                      |+++++.  .|.++.+|+.++.+|...|++++|+
T Consensus         2 y~kAie~--~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIEL--NPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHH--CCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3445555  5666666666666666666666664

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.73  E-value=0.024  Score=33.60  Aligned_cols=32  Identities=9%  Similarity=0.232  Sum_probs=21.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          638 YTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       638 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      .+|..++.+|...|++++|+..|+++++  +.|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE--LDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH--HCcC
Confidence            3566677777777777777777777777  6665

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 ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.66  E-value=1.1  Score=37.75  Aligned_cols=132  Identities=12%  Similarity=0.113  Sum_probs=83.5

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCccHH-HHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchh--hHHHHHHHHHhcCCH
Q 004362          542 CKAHKITEAFNLLEEMENKGLTLDTV-AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTA--TYNIMINAFSEKLNF  618 (759)
Q Consensus       542 ~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~  618 (759)
                      ++.+..++|+.-|..+.+.|...=+. ............|+...|+..|+.+-.....|.-..  .-..-+..+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            45666777777777777765432222 223344556677888888888888876644443321  112223456677888


Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 004362          619 YMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       619 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      +......+-+...+-+--...-..|+-+-.+.|++.+|.+.|..+......|.+.
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~aprni  203 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPRNI  203 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcHHH
Confidence            8887777766543322234555677778888899999999998887754556544

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=95.66  E-value=2.8  Score=42.17  Aligned_cols=91  Identities=7%  Similarity=0.013  Sum_probs=47.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHH--ccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHH
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFC--NSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFS  613 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  613 (759)
                      .+..-+.+.|-..+|..++..+... .|++...+..++..-.  .+-++..+..+|+.+...++  .++..|......-.
T Consensus       465 ~~l~~~~e~~~~~~ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg--~d~~lw~~y~~~e~  541 (568)
T KOG2396|consen  465 KYLDWAYESGGYKKARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFG--ADSDLWMDYMKEEL  541 (568)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhC--CChHHHHHHHHhhc
Confidence            3444445556666666666666554 3455555555554321  11225556666666666544  45555555554444


Q ss_pred             hcCCHHHHHHHHHHHH
Q 004362          614 EKLNFYMAEKLFYEMS  629 (759)
Q Consensus       614 ~~g~~~~A~~~~~~~~  629 (759)
                      ..|..+.+-.+|.++.
T Consensus       542 ~~g~~en~~~~~~ra~  557 (568)
T KOG2396|consen  542 PLGRPENCGQIYWRAM  557 (568)
T ss_pred             cCCCcccccHHHHHHH
Confidence            5555555555554444

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.62  E-value=1.6  Score=39.06  Aligned_cols=183  Identities=11%  Similarity=0.059  Sum_probs=96.4

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHH----HCCCCccHHH-HHHHHHHHHccC
Q 004362          506 LCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEME----NKGLTLDTVA-FGTLINGFCNSG  580 (759)
Q Consensus       506 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~-~~~l~~~~~~~g  580 (759)
                      +.-.+++++|.++|.+...               .|--..+|+.|-..|-++-    +.|-+.|..+ |.....+ .+.+
T Consensus        24 fgg~~k~eeAadl~~~Aan---------------~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~c-ykk~   87 (288)
T KOG1586|consen   24 FGGSNKYEEAAELYERAAN---------------MYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANC-YKKV   87 (288)
T ss_pred             cCCCcchHHHHHHHHHHHH---------------HHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHH-hhcc
Confidence            3445688888888876543               2222333333333333322    2233334333 3333333 4556


Q ss_pred             ChhhHHHHHHHHHHccCC----CCchhhHHHHHHHHHhc-CCHHHHHHHHHHHHHc--CCCCC---HhhHHHHHHHHHhc
Q 004362          581 DLDGAYQLFRRMEDQYKI----SHTTATYNIMINAFSEK-LNFYMAEKLFYEMSEK--GCPPD---NYTYRIMIDSFCKT  650 (759)
Q Consensus       581 ~~~~A~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~--~~~p~---~~~~~~l~~~~~~~  650 (759)
                      ++++|.+.++..++.+..    ..-...+..++..|-.. .+++.|+..|++.-+-  |-+.+   ..++.-+...-...
T Consensus        88 ~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~l  167 (288)
T KOG1586|consen   88 DPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQL  167 (288)
T ss_pred             ChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHH
Confidence            888888888777654211    11122334566666654 7888899999887643  11111   22333334444567


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHH----HHHHHHHHh--cCcHHHHHHHHHHHHHCCCCCc
Q 004362          651 GGINSGYCLLLENIDKGFIPSLSTI----GRVINCLCV--DHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       651 g~~~~A~~~~~~~~~~g~~p~~~~~----~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      +++.+|+.+|++.....+.-+-..|    +.+-..+|.  .++.-.+...+++-.+  +.|.
T Consensus       168 eqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~--~dP~  227 (288)
T KOG1586|consen  168 EQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQE--LDPA  227 (288)
T ss_pred             HHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHh--cCCc
Confidence            8899999999988874333322222    112222332  2555556666666655  5665

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.60  E-value=0.93  Score=39.30  Aligned_cols=86  Identities=13%  Similarity=-0.026  Sum_probs=37.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCH----hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHH
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEKGCPPDN----YTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST--IGRVINCLC  683 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~--~~~l~~~~~  683 (759)
                      ..+...|++++|...++..+..  +.|.    .+-..|.......|.+++|+..+.....    ++...  ...-.+.+.
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~--t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~----~~w~~~~~elrGDill  170 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ--TKDENLKALAALRLARVQLQQKKADAALKTLDTIKE----ESWAAIVAELRGDILL  170 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc--chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccc----ccHHHHHHHHhhhHHH
Confidence            4444555555555555554422  2221    1112233344455555555555544333    21111  222334445


Q ss_pred             hcCcHHHHHHHHHHHHHC
Q 004362          684 VDHRVHEAVGFVHLMVQK  701 (759)
Q Consensus       684 ~~g~~~~A~~~~~~~~~~  701 (759)
                      ..|+.++|..-|++.+++
T Consensus       171 ~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         171 AKGDKQEARAAYEKALES  188 (207)
T ss_pred             HcCchHHHHHHHHHHHHc
Confidence            555555555555555553

>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=95.58  E-value=1  Score=37.99  Aligned_cols=87  Identities=15%  Similarity=-0.027  Sum_probs=59.8

Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGIN  654 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  654 (759)
                      .-.+.++.+++..++..+...  .|..+..-..-++.+...|+|.+|+.+++++.+.  .|....-..|+..|.....-.
T Consensus        19 ~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   19 VALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             HHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHHcCCh
Confidence            345677888888888888877  6777777777778888888888888888888755  455444455555555444444


Q ss_pred             HHHHHHHHHHh
Q 004362          655 SGYCLLLENID  665 (759)
Q Consensus       655 ~A~~~~~~~~~  665 (759)
                      .-..+..++++
T Consensus        95 ~Wr~~A~evle  105 (160)
T PF09613_consen   95 SWRRYADEVLE  105 (160)
T ss_pred             HHHHHHHHHHh
Confidence            55555566666

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.51  E-value=0.5  Score=40.80  Aligned_cols=102  Identities=14%  Similarity=0.093  Sum_probs=65.3

Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCc-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHT-----TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFC  648 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~  648 (759)
                      -+.+.|++++|..-|..+++.  .|+.     ...|..-+.++.+.+.++.|+.-..++++.  .|. ...+..-..+|.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel--~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIEL--NPTYEKALERRAEAYE  179 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhc--CchhHHHHHHHHHHHH
Confidence            345667777777777777776  3432     345555666777777777777777777754  343 333334445677


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          649 KTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       649 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      +...+++|+.=|+++++  ..|.......-+..+
T Consensus       180 k~ek~eealeDyKki~E--~dPs~~ear~~i~rl  211 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILE--SDPSRREAREAIARL  211 (271)
T ss_pred             hhhhHHHHHHHHHHHHH--hCcchHHHHHHHHhc
Confidence            77778888888888887  677665554444333

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=95.50  E-value=3.2  Score=41.79  Aligned_cols=96  Identities=9%  Similarity=0.049  Sum_probs=69.6

Q ss_pred             CCCHhhH-HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHH--HhcCcHHHHHHHHHHHHH-CCCCCchH
Q 004362          634 PPDNYTY-RIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI-GRVINCL--CVDHRVHEAVGFVHLMVQ-KGIVPEVV  708 (759)
Q Consensus       634 ~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~--~~~g~~~~A~~~~~~~~~-~~~~p~~~  708 (759)
                      .|+..++ +.++..+...|-+.+|...+.+...  ++|-+..+ ..++..=  ...-+...+.++|+.|.. -|-+|+.|
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~--lpp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~d~~lw  533 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQE--LPPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGADSDLW  533 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHh--CCCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCCChHHH
Confidence            5665555 5577778888999999999999988  76644433 3333322  222338888999999875 67788888


Q ss_pred             HHHHhc--cccccccchHHHHHHHh
Q 004362          709 NTIFEA--DKREVASPKIVVEDLLK  731 (759)
Q Consensus       709 ~~~~~~--~~~~~~~a~~~~~~~~~  731 (759)
                      ...+..  .+|.-+.+-.++.++++
T Consensus       534 ~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  534 MDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             HHHHHhhccCCCcccccHHHHHHHH
Confidence            887766  88888888888888766

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.45  E-value=4.7  Score=43.41  Aligned_cols=182  Identities=11%  Similarity=0.115  Sum_probs=92.6

Q ss_pred             CCHHHHHHHHh---cCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHH
Q 004362            5 VLPKHVAAVVK---HQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIG   81 (759)
Q Consensus         5 l~~~~~~~~l~---~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~   81 (759)
                      |++..+...+.   ...-++.|+.+-+.- ..++ ..-.......+..|.+.|++++|...|-+.+.--.+       ..
T Consensus       332 L~ek~le~kL~iL~kK~ly~~Ai~LAk~~-~~d~-d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~-------s~  402 (933)
T KOG2114|consen  332 LIEKDLETKLDILFKKNLYKVAINLAKSQ-HLDE-DTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEP-------SE  402 (933)
T ss_pred             eeeccHHHHHHHHHHhhhHHHHHHHHHhc-CCCH-HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCCh-------HH
Confidence            34444444443   344567777665541 1100 001123344555666788888888887666543311       12


Q ss_pred             HHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 004362           82 VMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRR  161 (759)
Q Consensus        82 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  161 (759)
                      ++.-|...........+++.+.+.| -.+...-..|+.+|.+.++.+.-.+..+... .|..  .+-....+..+.+.+-
T Consensus       403 Vi~kfLdaq~IknLt~YLe~L~~~g-la~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~sny  478 (933)
T KOG2114|consen  403 VIKKFLDAQRIKNLTSYLEALHKKG-LANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNY  478 (933)
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHcc-cccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhCh
Confidence            4555566666666667777776665 3455556667777887777666555444433 2211  1112333444445555


Q ss_pred             hhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHH
Q 004362          162 PHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEM  207 (759)
Q Consensus       162 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  207 (759)
                      .++|..+-.....     +......++.   ..+++++|++.+..+
T Consensus       479 l~~a~~LA~k~~~-----he~vl~ille---~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  479 LDEAELLATKFKK-----HEWVLDILLE---DLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHHHHhcc-----CHHHHHHHHH---HhcCHHHHHHHHhcC
Confidence            5555544433221     2333333332   345666666655544

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=95.40  E-value=0.089  Score=49.18  Aligned_cols=105  Identities=10%  Similarity=0.002  Sum_probs=74.5

Q ss_pred             HHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCC
Q 004362          573 INGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGG  652 (759)
Q Consensus       573 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  652 (759)
                      ..-|.+.|.+++|+..|.+....  .|.++..+.+.+.+|.+.+++..|..-...++..+ ..-...|..-+.+-...|+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhh
Confidence            35677889999999999888887  77788888888889998888888877777666331 1113345555555556677


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          653 INSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       653 ~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      ..+|.+=++..++  +.|+...+......+
T Consensus       181 ~~EAKkD~E~vL~--LEP~~~ELkK~~a~i  208 (536)
T KOG4648|consen  181 NMEAKKDCETVLA--LEPKNIELKKSLARI  208 (536)
T ss_pred             HHHHHHhHHHHHh--hCcccHHHHHHHHHh
Confidence            8888888888888  888765554444333

>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=95.33  E-value=1.2  Score=35.77  Aligned_cols=64  Identities=22%  Similarity=0.201  Sum_probs=35.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004362          499 YNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLT  563 (759)
Q Consensus       499 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  563 (759)
                      ....+......|+-++--++++.+.+. -.+++..+..++.+|.+.|+..++.+++.++-+.|.+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            344445555666666666666666543 2556666666677777777777777776666666543

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.29  E-value=0.028  Score=33.21  Aligned_cols=31  Identities=6%  Similarity=0.257  Sum_probs=18.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          639 TYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       639 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      .|..++.++...|++++|+..++++++  +.|+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~--l~p~   33 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE--LDPN   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH--HCcC
Confidence            455566666666666666666666666  5554

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 ....

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=95.26  E-value=0.78  Score=40.37  Aligned_cols=74  Identities=14%  Similarity=0.120  Sum_probs=49.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 004362          607 IMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLC  683 (759)
Q Consensus       607 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~  683 (759)
                      ..+..+.+.+.+.+++.+.++-++.. |.|..+-..++..++-.|+|++|...++-...  +.|+...-..+...+.
T Consensus         6 ~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~--l~p~~t~~a~lyr~li   79 (273)
T COG4455           6 DTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAAT--LSPQDTVGASLYRHLI   79 (273)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhh--cCcccchHHHHHHHHH
Confidence            34556667777777877777666542 44566777777888888888888888887777  6676554444444443

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.20  E-value=0.27  Score=40.07  Aligned_cols=48  Identities=17%  Similarity=0.284  Sum_probs=33.0

Q ss_pred             CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          562 LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       562 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      ..|+..++.+++.+|+..|++..|.++.+...+.++.|-+...|..|.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll   95 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLL   95 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            456777777777777777777777777777777766555555555554

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.19  E-value=3.1  Score=41.95  Aligned_cols=108  Identities=19%  Similarity=0.129  Sum_probs=74.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-C-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP-D-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVIN  680 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  680 (759)
                      .+-..++.+..+.|+.+||+++++++.+.. ++ | ..+...|+.++...+.+.++..++.+--+. ..|+..++..-..
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~-p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi-~lpkSAti~YTaA  337 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEF-PNLDNLNIRENLIEALLELQAYADVQALLAKYDDI-SLPKSATICYTAA  337 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhC-CccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc-cCCchHHHHHHHH
Confidence            334567888889999999999999998653 33 2 557888999999999999999999996542 2355555432222


Q ss_pred             HH-Hh-cCc---------------HHHHHHHHHHHHHCCCCCchHHHHHhc
Q 004362          681 CL-CV-DHR---------------VHEAVGFVHLMVQKGIVPEVVNTIFEA  714 (759)
Q Consensus       681 ~~-~~-~g~---------------~~~A~~~~~~~~~~~~~p~~~~~~~~~  714 (759)
                      .+ .+ -|+               -..|.+.+.++.+  .+|.+-..+++.
T Consensus       338 LLkaRav~d~fs~e~a~rRGls~ae~~aveAi~RAve--fNPHVp~YLLe~  386 (539)
T PF04184_consen  338 LLKARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVE--FNPHVPKYLLEM  386 (539)
T ss_pred             HHHHHhhccccCchhhhhcCCChhHHHHHHHHHHHHH--hCCCCchhhhcc
Confidence            22 11 222               1346778888887  677766666665

The molecular function of this protein is uncertain.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.04  E-value=7.8  Score=43.67  Aligned_cols=16  Identities=19%  Similarity=-0.020  Sum_probs=7.3

Q ss_pred             HHHHhCCChHHHHHHH
Q 004362          294 CGLCKNSKVVEAEYYL  309 (759)
Q Consensus       294 ~~~~~~~~~~~a~~~~  309 (759)
                      .-++..+++.+|.++.
T Consensus       685 r~~l~~~~y~~AF~~~  700 (1265)
T KOG1920|consen  685 RTLLDRLRYKEAFEVM  700 (1265)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3344445555554433

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.96  E-value=6.1  Score=42.00  Aligned_cols=104  Identities=12%  Similarity=0.133  Sum_probs=54.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCC
Q 004362          502 LLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGD  581 (759)
Q Consensus       502 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  581 (759)
                      -+.-+...|+..+|.++-.+..    -||...|..-+.+++..++|++-.++-+...      ++.-|..++.+|.+.|+
T Consensus       690 Tv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n  759 (829)
T KOG2280|consen  690 TVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGN  759 (829)
T ss_pred             HHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhccc
Confidence            3344445566666555544432    3455566666666666666665555443322      13334555566666666


Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLF  625 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  625 (759)
                      .++|.+++-+....          .....+|.+.|++.+|.++.
T Consensus       760 ~~EA~KYiprv~~l----------~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  760 KDEAKKYIPRVGGL----------QEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HHHHhhhhhccCCh----------HHHHHHHHHhccHHHHHHHH
Confidence            66666665443221          13445555555555555443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.89  E-value=0.41  Score=41.32  Aligned_cols=93  Identities=16%  Similarity=0.140  Sum_probs=72.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCH-----hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHH
Q 004362          609 INAFSEKLNFYMAEKLFYEMSEKGCPPDN-----YTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG-RVINCL  682 (759)
Q Consensus       609 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-~l~~~~  682 (759)
                      ++-+...|++++|..-|.++++. +++..     ..|..-+.++.+.+.++.|+.-..++++  +.|...... .-..+|
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie--l~pty~kAl~RRAeay  178 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE--LNPTYEKALERRAEAY  178 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh--cCchhHHHHHHHHHHH
Confidence            45567899999999999999976 34432     3455556688899999999999999999  888755443 335566


Q ss_pred             HhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          683 CVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       683 ~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      .+...+++|++-|+++++  ..|.
T Consensus       179 ek~ek~eealeDyKki~E--~dPs  200 (271)
T KOG4234|consen  179 EKMEKYEEALEDYKKILE--SDPS  200 (271)
T ss_pred             HhhhhHHHHHHHHHHHHH--hCcc
Confidence            678999999999999998  5665

>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=94.85  E-value=2.1  Score=36.15  Aligned_cols=86  Identities=12%  Similarity=0.054  Sum_probs=52.1

Q ss_pred             hCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHH
Q 004362           52 FHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVH  131 (759)
Q Consensus        52 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  131 (759)
                      ..++.+++..++..+....|.  ..++-..-+..+.+.|++.+|+.+|+.+....  |.......|+..|.....-..=.
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~--~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~~Wr   97 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPE--FPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDPSWR   97 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCC--chHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCChHHH
Confidence            566777888888777777777  55665666667777888888888887776442  33333444555444443333333


Q ss_pred             HHHHHHHHCC
Q 004362          132 KVYMRMRNKG  141 (759)
Q Consensus       132 ~~~~~~~~~~  141 (759)
                      ..-+++.+.+
T Consensus        98 ~~A~evle~~  107 (160)
T PF09613_consen   98 RYADEVLESG  107 (160)
T ss_pred             HHHHHHHhcC
Confidence            3344455544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.73  E-value=2.2  Score=35.88  Aligned_cols=124  Identities=9%  Similarity=0.148  Sum_probs=66.9

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHc
Q 004362           45 YMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEY  124 (759)
Q Consensus        45 ~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  124 (759)
                      .++..+...+....+...++.+...++.  +...++.++..|++.. ..+..+.+..      ..+......+++.|.+.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~~--~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNSE--NPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCcc--chhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            4555555566667777777766666543  5566666777776542 3344444442      01222233466667777


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc-CChhhHHHHHhhchhCCCCCCHHhHHHHHHHHH
Q 004362          125 GYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRT-RRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFY  192 (759)
Q Consensus       125 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  192 (759)
                      +.++++.-++.++..         +...+..+... ++++.|.+.+.+.      .+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            777777666666532         11122223333 6666666666542      24556666665554

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.73  E-value=4.5  Score=43.39  Aligned_cols=245  Identities=13%  Similarity=0.059  Sum_probs=127.8

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-----HhcCCHHHHHHHHHHHHH-------cCCCCChhcHHHHHHHHHhc
Q 004362          477 MEIAIEILNTMWSHGVTPDVITYNSLLNGL-----CKAAKSEDVMETFKTMIE-------KRCVPNIITYSILGESLCKA  544 (759)
Q Consensus       477 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  544 (759)
                      ...|...++...+.|   +...-..+..+|     ....+.+.|+.+|+.+.+       .+   .......++.+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            456777777777765   333333333333     244577888888888766       33   344566677777653


Q ss_pred             C-----CHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc---CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh--
Q 004362          545 H-----KITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS---GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE--  614 (759)
Q Consensus       545 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  614 (759)
                      .     +.+.|..++...-+.|. |+...  .+..++...   .+...|.++|..+...+    ...++..++.+|..  
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~-~~a~~--~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G----~~~A~~~la~~y~~G~  374 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGN-PDAQY--LLGVLYETGTKERDYRRAFEYYSLAAKAG----HILAIYRLALCYELGL  374 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCC-chHHH--HHHHHHHcCCccccHHHHHHHHHHHHHcC----ChHHHHHHHHHHHhCC
Confidence            3     55667777777777653 23333  223333222   34667788877777653    33444455544443  


Q ss_pred             --cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH---H-Hh---c
Q 004362          615 --KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINC---L-CV---D  685 (759)
Q Consensus       615 --~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~---~-~~---~  685 (759)
                        ..+...|..+++++.++| .|...--...+..+.. +.++.+.-.+..+.+.|..-.......+...   . ..   .
T Consensus       375 gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~  452 (552)
T KOG1550|consen  375 GVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVI  452 (552)
T ss_pred             CcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhHHhhHHHHHHHhccccccccccc
Confidence              246777788888777776 3332222222223333 6666666666666654332111111111111   1 11   2


Q ss_pred             CcHHHHHHHHHHHHHCCCCCchHHHHHhc--c-----ccccccchHHHHHHHhcCCCchHHH
Q 004362          686 HRVHEAVGFVHLMVQKGIVPEVVNTIFEA--D-----KREVASPKIVVEDLLKKSHITYYAY  740 (759)
Q Consensus       686 g~~~~A~~~~~~~~~~~~~p~~~~~~~~~--~-----~~~~~~a~~~~~~~~~~~~~~~~~~  740 (759)
                      .+.+.+...+.+...+|  .......+..  .     ..+++.|...|.+....+  ....|
T Consensus       453 ~~~~~~~~~~~~a~~~g--~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~--~~~~~  510 (552)
T KOG1550|consen  453 STLERAFSLYSRAAAQG--NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG--AQALF  510 (552)
T ss_pred             cchhHHHHHHHHHHhcc--CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh--hHHHh
Confidence            25555666666654321  1122223333  1     224566777777776666  44444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.69  E-value=6.3  Score=44.35  Aligned_cols=17  Identities=0%  Similarity=0.079  Sum_probs=10.4

Q ss_pred             HhcCCHHHHHHHHHHHH
Q 004362          507 CKAAKSEDVMETFKTMI  523 (759)
Q Consensus       507 ~~~~~~~~a~~~~~~~~  523 (759)
                      ..+.++.+-+.+++++.
T Consensus       862 ~SqkDPkEyLP~L~el~  878 (1265)
T KOG1920|consen  862 KSQKDPKEYLPFLNELK  878 (1265)
T ss_pred             HhccChHHHHHHHHHHh
Confidence            34556666666666665

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.69  E-value=0.047  Score=32.23  Aligned_cols=32  Identities=13%  Similarity=0.017  Sum_probs=23.5

Q ss_pred             HHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHH
Q 004362           63 LLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAV   96 (759)
Q Consensus        63 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~   96 (759)
                      |+++++.+|.  +..+++.++..|...|++++|+
T Consensus         2 y~kAie~~P~--n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN--NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC--CHHHHHHHHHHHHHCcCHHhhc
Confidence            5666777777  7777777777777777777765

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.57  E-value=0.84  Score=46.74  Aligned_cols=129  Identities=16%  Similarity=0.104  Sum_probs=58.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc
Q 004362          499 YNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN  578 (759)
Q Consensus       499 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  578 (759)
                      .+.++..+.+.|-++.|+++.+.         +.   .-.....+.|+.+.|.++.++.      .+...|..+.+....
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHH
Confidence            44555555555555555554322         11   1122233455555555543321      244456666666666


Q ss_pred             cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHH
Q 004362          579 SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYC  658 (759)
Q Consensus       579 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  658 (759)
                      .|+++-|.+.|++..+.          ..+.-.|.-.|+.+.-.++.+.+.++|      -++....++...|++++...
T Consensus       360 ~g~~~lAe~c~~k~~d~----------~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~  423 (443)
T PF04053_consen  360 QGNIELAEECYQKAKDF----------SGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVD  423 (443)
T ss_dssp             TTBHHHHHHHHHHCT-H----------HHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHH
T ss_pred             cCCHHHHHHHHHhhcCc----------cccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHH
Confidence            66666666555554322          334444555555555555554444433      12333334444455555544


Q ss_pred             HHH
Q 004362          659 LLL  661 (759)
Q Consensus       659 ~~~  661 (759)
                      ++.
T Consensus       424 lL~  426 (443)
T PF04053_consen  424 LLI  426 (443)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.54  E-value=2.9  Score=36.39  Aligned_cols=103  Identities=9%  Similarity=0.078  Sum_probs=70.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-----HHHHHHHhcCcHHHHHHHHHHHHHCCCCCchHHHHHhc--
Q 004362          642 IMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG-----RVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEA--  714 (759)
Q Consensus       642 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~~--  714 (759)
                      .+...+...|++++|...++..+..   |.++.+.     .+.......|.+|+|.+.++...+.++.+-........  
T Consensus        94 ~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill  170 (207)
T COG2976          94 ELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILL  170 (207)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHH
Confidence            3455788899999999999998862   4444442     34455578999999999999876544433211111111  


Q ss_pred             cccccccchHHHHHHHhcCCCchHHHHHHHhhhh
Q 004362          715 DKREVASPKIVVEDLLKKSHITYYAYELLFDGIR  748 (759)
Q Consensus       715 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  748 (759)
                      ..|+.++|+..|++.++.+..|.. .+.+..-|.
T Consensus       171 ~kg~k~~Ar~ay~kAl~~~~s~~~-~~~lqmKLn  203 (207)
T COG2976         171 AKGDKQEARAAYEKALESDASPAA-REILQMKLN  203 (207)
T ss_pred             HcCchHHHHHHHHHHHHccCChHH-HHHHHhHHH
Confidence            789999999999999999855443 234443343

>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=94.48  E-value=0.71  Score=40.54  Aligned_cols=97  Identities=9%  Similarity=-0.093  Sum_probs=56.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH---HH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI---GR  677 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~---~~  677 (759)
                      ..+..++..|.+.|+.++|.+.|.++.+....+.  ...+..++......|++..+..++.++...--.+.+...   ..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            4555666666666666666666666665543343  345566667777777877777777776542111121222   22


Q ss_pred             HHHHH--HhcCcHHHHHHHHHHHH
Q 004362          678 VINCL--CVDHRVHEAVGFVHLMV  699 (759)
Q Consensus       678 l~~~~--~~~g~~~~A~~~~~~~~  699 (759)
                      ...++  ...+++.+|.+.|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            33333  35678888887776653

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.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.46  E-value=0.81  Score=46.87  Aligned_cols=131  Identities=11%  Similarity=0.076  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004362           77 GVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSF  156 (759)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  156 (759)
                      +....+++-+-+.|-.+.|+.+...         +.   .-.....+.|+++.|.++..+      .++...|..|....
T Consensus       296 ~~~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~A  357 (443)
T PF04053_consen  296 DQGQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEA  357 (443)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHH
Confidence            3344455555555555555554321         11   122333455555555444222      12444555555555


Q ss_pred             HccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 004362          157 CRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESE  236 (759)
Q Consensus       157 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  236 (759)
                      .+.|+.+-|.+.|.+...         +..|+-.|.-.|+.+...++.+.....|-      ++....++...|+.++..
T Consensus       358 L~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv  422 (443)
T PF04053_consen  358 LRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECV  422 (443)
T ss_dssp             HHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHH
T ss_pred             HHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHH
Confidence            555555555555554332         23344444455555554444444444321      233333344445555544


Q ss_pred             HHHH
Q 004362          237 KLFN  240 (759)
Q Consensus       237 ~~~~  240 (759)
                      +++.
T Consensus       423 ~lL~  426 (443)
T PF04053_consen  423 DLLI  426 (443)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

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.

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.43  E-value=1.9  Score=42.98  Aligned_cols=140  Identities=13%  Similarity=0.044  Sum_probs=85.0

Q ss_pred             HHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH---cCC--CCC---HhhHHHHH
Q 004362          573 INGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE---KGC--PPD---NYTYRIMI  644 (759)
Q Consensus       573 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~--~p~---~~~~~~l~  644 (759)
                      +.+|....++..+.+-.+.+...  ..+++.....-...+...|++.+|.+++...--   .|.  .|.   ...||.|+
T Consensus       213 Vr~llq~~~Lk~~krevK~vmn~--a~~s~~~l~LKsq~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlG  290 (696)
T KOG2471|consen  213 VRFLLQTRNLKLAKREVKHVMNI--AQDSSMALLLKSQLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLG  290 (696)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhh--cCCCcHHHHHHHHHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcc
Confidence            34444444555555555544443  223444445556777788888888888765421   111  121   22357787


Q ss_pred             HHHHhcCChHHHHHHHHHHHh-------CCCCCC----------HHHHHHHHHHHHhcCcHHHHHHHHHHHHH-CCCCCc
Q 004362          645 DSFCKTGGINSGYCLLLENID-------KGFIPS----------LSTIGRVINCLCVDHRVHEAVGFVHLMVQ-KGIVPE  706 (759)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~~~~-------~g~~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~p~  706 (759)
                      -++.+.|.+.-+..+|.++++       .|+.|.          ....+...-.+...|+.-.|.+.|.+... -.-.|-
T Consensus       291 cIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~nPr  370 (696)
T KOG2471|consen  291 CIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHRNPR  370 (696)
T ss_pred             eEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhcCcH
Confidence            788888888888888888774       365552          22334445555788899999988888765 223566


Q ss_pred             hHHHHHhc
Q 004362          707 VVNTIFEA  714 (759)
Q Consensus       707 ~~~~~~~~  714 (759)
                      .|..+.++
T Consensus       371 lWLRlAEc  378 (696)
T KOG2471|consen  371 LWLRLAEC  378 (696)
T ss_pred             HHHHHHHH
Confidence            77665554

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.39  E-value=1.9  Score=35.67  Aligned_cols=53  Identities=11%  Similarity=0.003  Sum_probs=40.5

Q ss_pred             HccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          577 CNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       577 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      ...++.+++..+++.+...  .|.....-..-++.+...|+|.+|+.+++++.+.
T Consensus        21 L~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVL--RPNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CCCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            3477888888888888777  6666666666677788888888888888888754

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=94.30  E-value=0.8  Score=37.33  Aligned_cols=49  Identities=6%  Similarity=0.014  Sum_probs=26.6

Q ss_pred             CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCCChhcHHHHHHHH
Q 004362          283 TPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNE-GLEPDGFSYNAVIDGY  331 (759)
Q Consensus       283 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~  331 (759)
                      .|+..+..+++.+|+.++++..|.++++...+. +++.+..+|..|+.-+
T Consensus        49 ~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   49 YPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            455555555555565566666666655555443 4444455555555443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.11  E-value=0.11  Score=31.11  Aligned_cols=26  Identities=4%  Similarity=0.052  Sum_probs=17.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHH
Q 004362          639 TYRIMIDSFCKTGGINSGYCLLLENI  664 (759)
Q Consensus       639 ~~~~l~~~~~~~g~~~~A~~~~~~~~  664 (759)
                      +|..|+.+|...|++++|+.++++++
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            35667777777777777777777754

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.09  E-value=0.9  Score=39.92  Aligned_cols=184  Identities=9%  Similarity=-0.035  Sum_probs=113.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCH
Q 004362          539 ESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNF  618 (759)
Q Consensus       539 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  618 (759)
                      ..|-..|-+.-|..=|.+.... .|.-+.+|+.+.-.+...|+++.|.+.|+...+.  .|....+..+.+-.+.-.|++
T Consensus        73 vlYDSlGL~~LAR~DftQaLai-~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL--Dp~y~Ya~lNRgi~~YY~gR~  149 (297)
T COG4785          73 VLYDSLGLRALARNDFSQALAI-RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRY  149 (297)
T ss_pred             chhhhhhHHHHHhhhhhhhhhc-CCCcHHHHHHHHHHHHhcccchHHHHHhhhHhcc--CCcchHHHhccceeeeecCch
Confidence            4566677777888778777764 2334667888888888999999999999999998  777777777777777788999


Q ss_pred             HHHHHHHHHHHHcCCCCCH--hhHHHHHHHHHhcCChHHHHHHH-HHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Q 004362          619 YMAEKLFYEMSEKGCPPDN--YTYRIMIDSFCKTGGINSGYCLL-LENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFV  695 (759)
Q Consensus       619 ~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  695 (759)
                      .-|.+-+.+.-+.+ +.|+  ..|..+.   -..-+..+|..-+ +++..    .+..-|...+..++ .|+..+ ..++
T Consensus       150 ~LAq~d~~~fYQ~D-~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~y-LgkiS~-e~l~  219 (297)
T COG4785         150 KLAQDDLLAFYQDD-PNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFY-LGKISE-ETLM  219 (297)
T ss_pred             HhhHHHHHHHHhcC-CCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHH-HhhccH-HHHH
Confidence            99988888877553 3333  2332222   2234556665543 34433    34444544333332 222221 2344


Q ss_pred             HHHHHCCCCCchHHH--------HHhc--cccccccchHHHHHHHhcCCC
Q 004362          696 HLMVQKGIVPEVVNT--------IFEA--DKREVASPKIVVEDLLKKSHI  735 (759)
Q Consensus       696 ~~~~~~~~~p~~~~~--------~~~~--~~~~~~~a~~~~~~~~~~~~~  735 (759)
                      +++.+-.-+......        +...  ..|..++|..+++-....+.-
T Consensus       220 ~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannVy  269 (297)
T COG4785         220 ERLKADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNVY  269 (297)
T ss_pred             HHHHhhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhHH
Confidence            454442222221111        1111  689999999999888876544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.99  E-value=0.53  Score=44.08  Aligned_cols=77  Identities=13%  Similarity=0.171  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCCHhhHHH
Q 004362          568 AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE-----KGCPPDNYTYRI  642 (759)
Q Consensus       568 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~~~~  642 (759)
                      ++..++..+...|+++.+...++++...  .|-+...|..++.+|...|+...|+..|+++.+     .|+.|...+...
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            3445556666666666666666666666  566666666666666666666666666665543     356666555554


Q ss_pred             HHHH
Q 004362          643 MIDS  646 (759)
Q Consensus       643 l~~~  646 (759)
                      +..+
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.90  E-value=4.8  Score=36.42  Aligned_cols=207  Identities=12%  Similarity=0.023  Sum_probs=99.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh
Q 004362          464 FNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK  543 (759)
Q Consensus       464 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  543 (759)
                      |..-..+|...+++++|...+.+..+. ...+...       +.....++.|..+.+++.+.  .--...+......|..
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~~-yEnnrsl-------fhAAKayEqaamLake~~kl--sEvvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSL-------FHAAKAYEQAAMLAKELSKL--SEVVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccH-------HHHHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHH
Confidence            334444566667777776666555431 1111111       11223344444444444432  1112234444455555


Q ss_pred             cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC----chhhHHHHHHHHHhcCCHH
Q 004362          544 AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH----TTATYNIMINAFSEKLNFY  619 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~  619 (759)
                      .|.++.|...+++.-+.                ...-++++|+++|++........+    -...+....+++.+..+++
T Consensus       104 ~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             hCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            66555555554443321                122344555555555443211111    1233444556666777777


Q ss_pred             HHHHHHHHHHHc----CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCC-HHHHHHHHHHHHhcCcHHHH
Q 004362          620 MAEKLFYEMSEK----GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGF--IPS-LSTIGRVINCLCVDHRVHEA  691 (759)
Q Consensus       620 ~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~--~p~-~~~~~~l~~~~~~~g~~~~A  691 (759)
                      +|-..+.+-...    .-.++ ...+...+-.+....|+..|...++.--+-+-  .|+ ..+...++. .+..|+.+++
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~-ayd~gD~E~~  246 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLT-AYDEGDIEEI  246 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHH-HhccCCHHHH
Confidence            776665543211    11122 23355555566777888888888887554211  122 222223332 2567888877


Q ss_pred             HHHHHH
Q 004362          692 VGFVHL  697 (759)
Q Consensus       692 ~~~~~~  697 (759)
                      .++..-
T Consensus       247 ~kvl~s  252 (308)
T KOG1585|consen  247 KKVLSS  252 (308)
T ss_pred             HHHHcC
Confidence            766654

>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=93.86  E-value=1.3  Score=38.96  Aligned_cols=99  Identities=17%  Similarity=0.185  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCC--CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004362           76 EGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEP--TVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRI  153 (759)
Q Consensus        76 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  153 (759)
                      ...+..++..|.+.|+.+.|++.|.++.+....+  -...+-.+++.....+++..+.....+....-..+.......-+
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            3466678889999999999999999887554333  34557778888888899988888877765431111111111111


Q ss_pred             H-----HHHccCChhhHHHHHhhchh
Q 004362          154 K-----SFCRTRRPHVALRLLKNMPS  174 (759)
Q Consensus       154 ~-----~~~~~~~~~~A~~~~~~~~~  174 (759)
                      +     .+...+++..|-+.|-+...
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHccCc
Confidence            1     13445777777777765543

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.65  E-value=0.74  Score=43.16  Aligned_cols=78  Identities=14%  Similarity=0.152  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH-----CCCCCCHHHHHH
Q 004362           77 GVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRN-----KGIVPDVYTFVI  151 (759)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  151 (759)
                      .++..++..+...|+++.+...++++.... +-+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...
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            456667777777777777777777776554 55666777777777777777777777777654     366677666666


Q ss_pred             HHHH
Q 004362          152 RIKS  155 (759)
Q Consensus       152 l~~~  155 (759)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.64  E-value=5.2  Score=35.96  Aligned_cols=101  Identities=8%  Similarity=0.082  Sum_probs=59.3

Q ss_pred             HHHHHHHHcc-CChhhHHHHHHHHHHccCCCCch----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHH--
Q 004362          570 GTLINGFCNS-GDLDGAYQLFRRMEDQYKISHTT----ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRI--  642 (759)
Q Consensus       570 ~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~--  642 (759)
                      ..+...|..- .++++|+..|+..-+-+......    ..+.-.+..-...+++.+|+.+|++.....+..+..-|..  
T Consensus       117 ~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~Kd  196 (288)
T KOG1586|consen  117 IEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKD  196 (288)
T ss_pred             hhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHH
Confidence            3445555443 66777888887776543222211    2223334445567899999999999876644433322211  


Q ss_pred             -HH---HHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 004362          643 -MI---DSFCKTGGINSGYCLLLENIDKGFIPSL  672 (759)
Q Consensus       643 -l~---~~~~~~g~~~~A~~~~~~~~~~g~~p~~  672 (759)
                       ++   -++.-..|.-.+...+++-.+  +.|..
T Consensus       197 yflkAgLChl~~~D~v~a~~ALeky~~--~dP~F  228 (288)
T KOG1586|consen  197 YFLKAGLCHLCKADEVNAQRALEKYQE--LDPAF  228 (288)
T ss_pred             HHHHHHHHhHhcccHHHHHHHHHHHHh--cCCcc
Confidence             11   122333777778888888888  78853

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.53  E-value=0.17  Score=30.38  Aligned_cols=26  Identities=8%  Similarity=0.111  Sum_probs=20.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      +|..|+.+|...|++++|+++|++++
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            46788889999999999999998855

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=93.48  E-value=14  Score=40.44  Aligned_cols=150  Identities=11%  Similarity=0.058  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHhcCCCCcc--HHHHHHHHHHHH-hcCChhHHHHHHHHhhhCCCCCCHH-----HHHHHHHHHHHcCChhH
Q 004362           58 EMENLLLEMRMDVDDSLL--EGVHIGVMRNYG-RRGKVQEAVDVFERMDFYNCEPTVL-----SYNTIMNILVEYGYFSQ  129 (759)
Q Consensus        58 ~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~  129 (759)
                      .|++.++.+.+..+.++.  ..++..++..+. ...+++.|...+++.....-.++..     +...+++.+.+.+... 
T Consensus        39 ~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-  117 (608)
T PF10345_consen   39 TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-  117 (608)
T ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-
Confidence            366666666643322112  224455666665 5667777777777664322122211     1223344444444333 


Q ss_pred             HHHHHHHHHHCCCC----CCHHHHHHH-HHHHHccCChhhHHHHHhhchhCC---CCCCHHhHHHHHHHHH--hcCChhH
Q 004362          130 VHKVYMRMRNKGIV----PDVYTFVIR-IKSFCRTRRPHVALRLLKNMPSQG---FEPNAVAYCTLIAGFY--EENHNVE  199 (759)
Q Consensus       130 a~~~~~~~~~~~~~----~~~~~~~~l-~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~~~~~~  199 (759)
                      |....++.++.--.    +-...|..+ +..+...+++..|.+.++.+....   ..|...++-.++.+..  +.+..++
T Consensus       118 a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d  197 (608)
T PF10345_consen  118 ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDD  197 (608)
T ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchh
Confidence            66666666543111    111222222 222222356666666665554421   1223333333333322  3344555


Q ss_pred             HHHHHHHHH
Q 004362          200 AYELFDEML  208 (759)
Q Consensus       200 a~~~~~~~~  208 (759)
                      +++..+++.
T Consensus       198 ~~~~l~~~~  206 (608)
T PF10345_consen  198 VLELLQRAI  206 (608)
T ss_pred             HHHHHHHHH
Confidence            555555553

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 [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.47  E-value=4.1  Score=34.25  Aligned_cols=41  Identities=15%  Similarity=0.136  Sum_probs=19.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004362          467 LIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCK  508 (759)
Q Consensus       467 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  508 (759)
                      ++..+...+........++.+...+. .+....+.++..|++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~   53 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHH
Confidence            34444444455555555555544432 344445555555544

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.39  E-value=13  Score=39.91  Aligned_cols=76  Identities=11%  Similarity=0.111  Sum_probs=37.1

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHCCCCCchHH---HHHhc---ccccccc
Q 004362          652 GINSGYCLLLENIDKGFIPSLSTIGRVINCLCV----DHRVHEAVGFVHLMVQKGIVPEVVN---TIFEA---DKREVAS  721 (759)
Q Consensus       652 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~---~~~~~---~~~~~~~  721 (759)
                      +...+...+.++...|   +......+...+..    ..+++.|...+.+...++  +....   ...+.   ..+ ...
T Consensus       454 ~~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~--~~~~~nlg~~~e~g~g~~~-~~~  527 (552)
T KOG1550|consen  454 TLERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG--AQALFNLGYMHEHGEGIKV-LHL  527 (552)
T ss_pred             chhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh--hHHHhhhhhHHhcCcCcch-hHH
Confidence            3455555555555432   23333344444421    235777777777777665  33111   12222   223 566


Q ss_pred             chHHHHHHHhcC
Q 004362          722 PKIVVEDLLKKS  733 (759)
Q Consensus       722 a~~~~~~~~~~~  733 (759)
                      |+..+++..+.+
T Consensus       528 a~~~~~~~~~~~  539 (552)
T KOG1550|consen  528 AKRYYDQASEED  539 (552)
T ss_pred             HHHHHHHHHhcC
Confidence            666666666543

>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=93.27  E-value=0.13  Score=30.27  Aligned_cols=30  Identities=10%  Similarity=0.225  Sum_probs=18.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 004362          639 TYRIMIDSFCKTGGINSGYCLLLENIDKGFIP  670 (759)
Q Consensus       639 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  670 (759)
                      +|..++..|...|++++|...|+++++  +.|
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~--~~~   32 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE--LNP   32 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH--HHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--hCC
Confidence            455566666666666666666666665  444

...

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.99  E-value=11  Score=37.89  Aligned_cols=65  Identities=9%  Similarity=-0.026  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCC--CchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKIS--HTTATYNIMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      ..+|..++..+.+.|.++.|...+.++.......  ..+......+..+-..|+..+|+..+++..+
T Consensus       146 ~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  146 AETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555566665555555554431110  1233344444555555555555555555544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=92.98  E-value=1  Score=38.53  Aligned_cols=77  Identities=18%  Similarity=0.224  Sum_probs=46.8

Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCC-----------HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLN-----------FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT  650 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  650 (759)
                      +++|+.-|+.++..  .|....++.+++.+|...+.           +++|...|+++.+.  .|+...|+.-+....  
T Consensus        51 iedAisK~eeAL~I--~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~--  124 (186)
T PF06552_consen   51 IEDAISKFEEALKI--NPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA--  124 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHhc--CCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH--
Confidence            45555666666666  67777777777777765432           55666667777644  788888877666543  


Q ss_pred             CChHHHHHHHHHHHhCCC
Q 004362          651 GGINSGYCLLLENIDKGF  668 (759)
Q Consensus       651 g~~~~A~~~~~~~~~~g~  668 (759)
                          +|-.+..++.+.++
T Consensus       125 ----kap~lh~e~~~~~~  138 (186)
T PF06552_consen  125 ----KAPELHMEIHKQGL  138 (186)
T ss_dssp             ----THHHHHHHHHHSSS
T ss_pred             ----hhHHHHHHHHHHHh
Confidence                35666666666543

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.97  E-value=0.51  Score=44.42  Aligned_cols=95  Identities=12%  Similarity=-0.013  Sum_probs=71.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 004362           80 IGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRT  159 (759)
Q Consensus        80 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  159 (759)
                      -.-+..|+++|+|++|+++|.+..... +.|++.+..-..+|.+...|..|..-.+..+..+ ..-..+|...+.+-...
T Consensus       101 KE~GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~L  178 (536)
T KOG4648|consen  101 KERGNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESL  178 (536)
T ss_pred             HHhhhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHH
Confidence            345778899999999999998776544 4588888888888999888888888887777642 12245677777777777


Q ss_pred             CChhhHHHHHhhchhCC
Q 004362          160 RRPHVALRLLKNMPSQG  176 (759)
Q Consensus       160 ~~~~~A~~~~~~~~~~~  176 (759)
                      |...+|.+-.+.+++..
T Consensus       179 g~~~EAKkD~E~vL~LE  195 (536)
T KOG4648|consen  179 GNNMEAKKDCETVLALE  195 (536)
T ss_pred             hhHHHHHHhHHHHHhhC
Confidence            88888888888877764

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.86  E-value=4.8  Score=33.40  Aligned_cols=52  Identities=13%  Similarity=0.061  Sum_probs=34.3

Q ss_pred             hCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhC
Q 004362           52 FHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFY  105 (759)
Q Consensus        52 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  105 (759)
                      ..++.+++..++..+....|.  ..++-.--+..+...|++++|+.+|..+.+.
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~--~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPN--LKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCC--ccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            466777777777777666666  5555555556666777777777777776644

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=92.70  E-value=4.5  Score=32.62  Aligned_cols=137  Identities=14%  Similarity=0.207  Sum_probs=67.8

Q ss_pred             cCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHH
Q 004362           16 HQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEA   95 (759)
Q Consensus        16 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   95 (759)
                      ..|..++..++.......+    +..-+++++--...+-+=+-..+.++.+-+.+.-              ...|+....
T Consensus        14 ldG~V~qGveii~k~v~Ss----ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDi--------------s~C~NlKrV   75 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS----NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDI--------------SKCGNLKRV   75 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS-----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-G--------------GG-S-THHH
T ss_pred             HhchHHHHHHHHHHHcCcC----CccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------hhhcchHHH
Confidence            3456666666666554432    2333444444444444444444555554444321              234455555


Q ss_pred             HHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhC
Q 004362           96 VDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQ  175 (759)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  175 (759)
                      +.++-.+-     .+..-....+..+..+|.-++..+++.++.+.+ .+++.....+..+|.+.|+..++.+++.+.-+.
T Consensus        76 i~C~~~~n-----~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   76 IECYAKRN-----KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            55554433     223334445566677777777777777766432 466666677777777777777777777776666


Q ss_pred             C
Q 004362          176 G  176 (759)
Q Consensus       176 ~  176 (759)
                      |
T Consensus       150 G  150 (161)
T PF09205_consen  150 G  150 (161)
T ss_dssp             T
T ss_pred             c
Confidence            5

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.41  E-value=6.5  Score=33.79  Aligned_cols=99  Identities=17%  Similarity=0.202  Sum_probs=43.9

Q ss_pred             HhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCC
Q 004362          169 LKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVS  248 (759)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  248 (759)
                      +..+...+++|+...+..++..+.+.|++...    ..+.+.++-+|+......+-.+.  +....+.++--.|.++   
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR---   87 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR---   87 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH---
Confidence            33344445556666666666666666554332    23333344444444333332221  2223333333333322   


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          249 PNLFTFNMFIQGLCRKGAISEAISLLDSL  277 (759)
Q Consensus       249 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  277 (759)
                       =...+..++..+...|++-+|++..+..
T Consensus        88 -L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 -LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             -hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence             0012334455555566666666655554

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=92.16  E-value=0.31  Score=48.40  Aligned_cols=104  Identities=14%  Similarity=0.010  Sum_probs=84.9

Q ss_pred             HHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcC
Q 004362          573 INGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTG  651 (759)
Q Consensus       573 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  651 (759)
                      +.-+...++++.|+.+|.++++.  .|+....|..-+.++.+.+++..|+.=+.++++.  .|. ...|..=+.+|.+.+
T Consensus        11 an~~l~~~~fd~avdlysKaI~l--dpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~--dP~~~K~Y~rrg~a~m~l~   86 (476)
T KOG0376|consen   11 ANEALKDKVFDVAVDLYSKAIEL--DPNCAIYFANRALAHLKVESFGGALHDALKAIEL--DPTYIKAYVRRGTAVMALG   86 (476)
T ss_pred             HhhhcccchHHHHHHHHHHHHhc--CCcceeeechhhhhheeechhhhHHHHHHhhhhc--CchhhheeeeccHHHHhHH
Confidence            34455678899999999999988  7888888888888889999999999988888865  465 667777777888889


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          652 GINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       652 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      .+.+|+..|+....  +.|+.......+..+
T Consensus        87 ~~~~A~~~l~~~~~--l~Pnd~~~~r~~~Ec  115 (476)
T KOG0376|consen   87 EFKKALLDLEKVKK--LAPNDPDATRKIDEC  115 (476)
T ss_pred             HHHHHHHHHHHhhh--cCcCcHHHHHHHHHH
Confidence            99999999999888  889888777776655

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.08  E-value=9.6  Score=34.98  Aligned_cols=158  Identities=12%  Similarity=0.045  Sum_probs=92.6

Q ss_pred             hCCChHHHHHHHHHHHhcCCCCcc--HHHHHHHHHHHHhcCChhHHHHHHHHhhh---CCC--CCCHHHHHHHHHHHHHc
Q 004362           52 FHGNFEEMENLLLEMRMDVDDSLL--EGVHIGVMRNYGRRGKVQEAVDVFERMDF---YNC--EPTVLSYNTIMNILVEY  124 (759)
Q Consensus        52 ~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~--~~~~~~~~~l~~~~~~~  124 (759)
                      +..+.++|+..|+++....+....  -.++..++..+.+.|++++....+.++..   +.+  ..+..+-|+++.-...+
T Consensus        39 ~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS  118 (440)
T KOG1464|consen   39 KEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTS  118 (440)
T ss_pred             cccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhh
Confidence            445777788888777776644111  12445577778888888887777766541   111  23455666676666666


Q ss_pred             CChhHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhC-----CC------CCCHHhHHHHH
Q 004362          125 GYFSQVHKVYMRMRNK-----GIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQ-----GF------EPNAVAYCTLI  188 (759)
Q Consensus       125 ~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~------~~~~~~~~~l~  188 (759)
                      ++.+....+|+.-.+.     +-..-..|-+.+...|...+++....+++.++...     |-      ..=...|..-|
T Consensus       119 ~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEI  198 (440)
T KOG1464|consen  119 KNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEI  198 (440)
T ss_pred             hhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHh
Confidence            6666666666554321     00111223456677777778777777777766432     10      01123566666


Q ss_pred             HHHHhcCChhHHHHHHHHHHh
Q 004362          189 AGFYEENHNVEAYELFDEMLG  209 (759)
Q Consensus       189 ~~~~~~~~~~~a~~~~~~~~~  209 (759)
                      ..|....+......+|++.+.
T Consensus       199 QmYT~qKnNKkLK~lYeqalh  219 (440)
T KOG1464|consen  199 QMYTEQKNNKKLKALYEQALH  219 (440)
T ss_pred             hhhhhhcccHHHHHHHHHHHH
Confidence            777777777777777776653

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=92.00  E-value=22  Score=39.03  Aligned_cols=223  Identities=11%  Similarity=0.018  Sum_probs=121.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChh-------cHHHH-HHHHHhcCCHHHHHHHHHHHHHC----CCCccHHHHHHHH
Q 004362          506 LCKAAKSEDVMETFKTMIEKRCVPNII-------TYSIL-GESLCKAHKITEAFNLLEEMENK----GLTLDTVAFGTLI  573 (759)
Q Consensus       506 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l-~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~  573 (759)
                      .....++++|..+..++...-..|+..       .+..+ .......|+++.|.++.+.....    ...+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            345678999998888887652232222       22222 22334678999999999888764    2233455677777


Q ss_pred             HHHHccCChhhHHHHHHHHHHccCC--CCchhhHHH--HHHHHHhcCC--HHHHHHHHHHHHHcCC--CCC----HhhHH
Q 004362          574 NGFCNSGDLDGAYQLFRRMEDQYKI--SHTTATYNI--MINAFSEKLN--FYMAEKLFYEMSEKGC--PPD----NYTYR  641 (759)
Q Consensus       574 ~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~~--l~~~~~~~g~--~~~A~~~~~~~~~~~~--~p~----~~~~~  641 (759)
                      .+..-.|++++|..+.....+....  ......|..  -...+..+|.  +.+....+........  .|-    ..++.
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            8888899999999998877654111  111122222  2345567773  3333333443332211  111    22344


Q ss_pred             HHHHHHHh-cCChHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHhcCcHHHHHHHHHHHHHCCCCC--c-hH-H-----
Q 004362          642 IMIDSFCK-TGGINSGYCLLLENIDKGFIPSLSTIG--RVINCLCVDHRVHEAVGFVHLMVQKGIVP--E-VV-N-----  709 (759)
Q Consensus       642 ~l~~~~~~-~g~~~~A~~~~~~~~~~g~~p~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--~-~~-~-----  709 (759)
                      .+.+++.+ .+.-.++..-++-.......|-.....  .+.......|+.++|...++++......+  . .| .     
T Consensus       585 ~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v  664 (894)
T COG2909         585 QLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKV  664 (894)
T ss_pred             HHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHh
Confidence            44454444 222233333333333322223222222  45555578999999999999887633333  2 11 1     


Q ss_pred             -HHHhccccccccchHHHHH
Q 004362          710 -TIFEADKREVASPKIVVED  728 (759)
Q Consensus       710 -~~~~~~~~~~~~a~~~~~~  728 (759)
                       .++....|+.+.+.....+
T Consensus       665 ~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         665 KLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             hHHHhcccCCHHHHHHHHHh
Confidence             1222267777777665544

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=91.93  E-value=20  Score=38.33  Aligned_cols=254  Identities=13%  Similarity=0.046  Sum_probs=136.4

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHH----HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC
Q 004362          401 LSQQGLILQALQLMNEMSESGCCPDMWTY----NIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLK  476 (759)
Q Consensus       401 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  476 (759)
                      ..+.|+..++.+++.-..-..-.+ ...|    ..+.-++...|......+++.+.++..-.+....-.+|.-+++..|.
T Consensus       367 vIH~G~~~~~~~ll~pYLP~~~~~-~s~y~EGGalyAlGLIhA~hG~~~~~yL~~~Lk~~~~e~v~hG~cLGlGLa~mGS  445 (929)
T KOG2062|consen  367 VIHRGHENQAMKLLAPYLPKEAGE-GSGYKEGGALYALGLIHANHGRGITDYLLQQLKTAENEVVRHGACLGLGLAGMGS  445 (929)
T ss_pred             eeeccccchHHHHhhhhCCccCCC-CCCccccchhhhhhccccCcCccHHHHHHHHHHhccchhhhhhhhhhccchhccc
Confidence            345678888888887765441111 1111    11222334455555577777776665322222222334444444443


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCH-HHHHH-HHHHHHHcCCCCChhcHH--HHHHHHHhcCCHHHH
Q 004362          477 MEIAIEILNTMWSHGVTPDVITYN--SLLNGLCKAAKS-EDVME-TFKTMIEKRCVPNIITYS--ILGESLCKAHKITEA  550 (759)
Q Consensus       477 ~~~A~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~-~~a~~-~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  550 (759)
                      ..  .++|++++..-..-+..+-.  .+...+.-.|.. .+|++ ++.-..+..   ...+..  .++-++..-|+-++|
T Consensus       446 a~--~eiYe~lKevLy~D~AvsGEAAgi~MGl~mlGt~~~eaiedm~~Ya~ETQ---Heki~RGl~vGiaL~~ygrqe~A  520 (929)
T KOG2062|consen  446 AN--EEIYEKLKEVLYNDSAVSGEAAGIAMGLLMLGTANQEAIEDMLTYAQETQ---HEKIIRGLAVGIALVVYGRQEDA  520 (929)
T ss_pred             cc--HHHHHHHHHHHhccchhhhhHHHHhhhhHhhCcCcHHHHHHHHHHhhhhh---HHHHHHHHHHhHHHHHhhhhhhh
Confidence            22  34555544321111222211  122223333332 22322 332222211   112222  334556677888899


Q ss_pred             HHHHHHHHHCCCCccHH--HHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          551 FNLLEEMENKGLTLDTV--AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEM  628 (759)
Q Consensus       551 ~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  628 (759)
                      ..+.+++.... .|-..  -...++.+|+-.|+..-..+++.-....  ..+|..-...++-++.-..+++....+.+-+
T Consensus       521 d~lI~el~~dk-dpilR~~Gm~t~alAy~GTgnnkair~lLh~aVsD--~nDDVrRaAVialGFVl~~dp~~~~s~V~lL  597 (929)
T KOG2062|consen  521 DPLIKELLRDK-DPILRYGGMYTLALAYVGTGNNKAIRRLLHVAVSD--VNDDVRRAAVIALGFVLFRDPEQLPSTVSLL  597 (929)
T ss_pred             HHHHHHHhcCC-chhhhhhhHHHHHHHHhccCchhhHHHhhcccccc--cchHHHHHHHHHheeeEecChhhchHHHHHH
Confidence            99999998652 22211  2345667888888888777777766554  4445555556666677778888888887777


Q ss_pred             HHcCCCCCH--hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          629 SEKGCPPDN--YTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       629 ~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .+. ..|..  .+-..|+-+|...|+ .+|+.+++.+..
T Consensus       598 ses-~N~HVRyGaA~ALGIaCAGtG~-~eAi~lLepl~~  634 (929)
T KOG2062|consen  598 SES-YNPHVRYGAAMALGIACAGTGL-KEAINLLEPLTS  634 (929)
T ss_pred             hhh-cChhhhhhHHHHHhhhhcCCCc-HHHHHHHhhhhc
Confidence            654 45542  334556667777776 678888888776

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.84  E-value=13  Score=35.95  Aligned_cols=148  Identities=13%  Similarity=0.077  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHcCCCCChhcHHHHHHHHHh--c----CCHHHHHHHHHHHHHCCC---CccHHHHHHHHHHHHccCC---
Q 004362          514 DVMETFKTMIEKRCVPNIITYSILGESLCK--A----HKITEAFNLLEEMENKGL---TLDTVAFGTLINGFCNSGD---  581 (759)
Q Consensus       514 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~---  581 (759)
                      +.+.+++.|.+.|+.-+..++.........  .    ....++..+|+.|.+...   .++-..+..++..  ..++   
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~  157 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEE  157 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHH
Confidence            345566666666665554443332222222  1    124557777777776521   1222223333221  2222   


Q ss_pred             -hhhHHHHHHHHHHccCCC-CchhhHHHHHHHHHhcCC--HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHH
Q 004362          582 -LDGAYQLFRRMEDQYKIS-HTTATYNIMINAFSEKLN--FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGY  657 (759)
Q Consensus       582 -~~~A~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  657 (759)
                       .+.+..+|+.+.+.+-.. ++......++........  ...+.++++.+.+.++++....|..++-.....+..++..
T Consensus       158 l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~~~  237 (297)
T PF13170_consen  158 LAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEKIV  237 (297)
T ss_pred             HHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHHHH
Confidence             345556666666532222 222222222222211111  4467777888888887777666766665444444443444


Q ss_pred             HHHHHH
Q 004362          658 CLLLEN  663 (759)
Q Consensus       658 ~~~~~~  663 (759)
                      ..+.++
T Consensus       238 ~~i~ev  243 (297)
T PF13170_consen  238 EEIKEV  243 (297)
T ss_pred             HHHHHH
Confidence            444443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.73  E-value=0.82  Score=45.19  Aligned_cols=130  Identities=9%  Similarity=-0.006  Sum_probs=94.5

Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  655 (759)
                      -...|++-.|-+-+..+...  .|.++.........+...|+++.+...+...... +.....+..+++....+.|++++
T Consensus       299 ~~~~gd~~aas~~~~~~lr~--~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~  375 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRN--QQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWRE  375 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHh--CCCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHH
Confidence            34568888887776666666  6777777777788889999999999998876532 33456788889999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCchHHHH
Q 004362          656 GYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTI  711 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  711 (759)
                      |......|+...+. +.+.........-..|-+|++.-.+++...  +.|+.-..|
T Consensus       376 a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~--~~~~~~~g~  428 (831)
T PRK15180        376 ALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLL--LNPETQSGW  428 (831)
T ss_pred             HHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhc--cCChhcccc
Confidence            99999988874333 333333333333567899999999999887  666633333

>PRK12798 chemotaxis protein; Reviewed

Probab=91.73  E-value=15  Score=36.56  Aligned_cols=155  Identities=12%  Similarity=0.078  Sum_probs=63.9

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHH-hcCCHHHHHHHHHHHHHC--CCCccHHHHHHHHHHHHccCChhhH
Q 004362          509 AAKSEDVMETFKTMIEKRCVPNIITYSILGESLC-KAHKITEAFNLLEEMENK--GLTLDTVAFGTLINGFCNSGDLDGA  585 (759)
Q Consensus       509 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A  585 (759)
                      .|+.+++.+.+..+.....++....+..|+.+-. ...+...|+.+|+...-.  |--........-+......|+.+++
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLlaPGTLvEEAALRRsi~la~~~g~~~rf  204 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLLAPGTLVEEAALRRSLFIAAQLGDADKF  204 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHhCCchHHHHHHHHHhhHHHHhcCcHHHH
Confidence            3445555555444444333333334444433322 233455555555554432  1001112233333444555555555


Q ss_pred             HHHHHHHHHccCCCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHH
Q 004362          586 YQLFRRMEDQYKISHT-TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLE  662 (759)
Q Consensus       586 ~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~  662 (759)
                      ..+-.+....+...+- ...+..+..++.+.++-..-.. +..++.. ++|+  ...|..+...-...|+.+-|...-++
T Consensus       205 ~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~-l~~~ls~-~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        205 EALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDAR-LVEILSF-MDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHH-HHHHHHh-cCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            5555555444322221 1122222223333222111111 2222221 2333  34555555555666666666666666


Q ss_pred             HHh
Q 004362          663 NID  665 (759)
Q Consensus       663 ~~~  665 (759)
                      +..
T Consensus       283 A~~  285 (421)
T PRK12798        283 ALK  285 (421)
T ss_pred             HHH
Confidence            654

>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=91.54  E-value=0.14  Score=48.25  Aligned_cols=118  Identities=14%  Similarity=0.027  Sum_probs=76.3

Q ss_pred             HccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHH
Q 004362          577 CNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       577 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~  655 (759)
                      ...|.++.|++.|...+..  .|+....|..-+.++...++...|++-+..+.+  ++|| ...|-.-..+....|+|++
T Consensus       125 ln~G~~~~ai~~~t~ai~l--np~~a~l~~kr~sv~lkl~kp~~airD~d~A~e--in~Dsa~~ykfrg~A~rllg~~e~  200 (377)
T KOG1308|consen  125 LNDGEFDTAIELFTSAIEL--NPPLAILYAKRASVFLKLKKPNAAIRDCDFAIE--INPDSAKGYKFRGYAERLLGNWEE  200 (377)
T ss_pred             hcCcchhhhhccccccccc--CCchhhhcccccceeeeccCCchhhhhhhhhhc--cCcccccccchhhHHHHHhhchHH
Confidence            3567788888888888777  777777777777888888888888877777774  3566 4555555566677788888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          656 GYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      |.+.+..+.+.++.+....+  +-...-+.+..++-...+++..+
T Consensus       201 aa~dl~~a~kld~dE~~~a~--lKeV~p~a~ki~e~~~k~er~~~  243 (377)
T KOG1308|consen  201 AAHDLALACKLDYDEANSAT--LKEVFPNAGKIEEHRRKYERARE  243 (377)
T ss_pred             HHHHHHHHHhccccHHHHHH--HHHhccchhhhhhchhHHHHHHH
Confidence            88888877775555543333  22222334444444444444433

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=91.40  E-value=1.7  Score=40.01  Aligned_cols=34  Identities=12%  Similarity=0.092  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCC
Q 004362          513 EDVMETFKTMIEKRCVPNIITYSILGESLCKAHK  546 (759)
Q Consensus       513 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  546 (759)
                      +=++.++++|...|+.||..+-..+++++.+.+-
T Consensus       140 ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  140 NCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            3467888888888888888888888888877664

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.34  E-value=0.57  Score=27.48  Aligned_cols=30  Identities=13%  Similarity=0.004  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCC
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVD   71 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~   71 (759)
                      .|..++.++...|++++|+..|+++++.+|
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p   32 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence            344455555555555555555555555444

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 ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.32  E-value=0.57  Score=27.42  Aligned_cols=30  Identities=17%  Similarity=0.100  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCC
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVD   71 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~   71 (759)
                      .+..++.++...|++++|++.|+++....|
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p   32 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCc
Confidence            344455555555555555555555555444

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 ....

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.10  E-value=4.2  Score=41.93  Aligned_cols=100  Identities=12%  Similarity=0.176  Sum_probs=50.2

Q ss_pred             HhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHH
Q 004362           87 GRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVAL  166 (759)
Q Consensus        87 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  166 (759)
                      .+.|+++.|.++..+..      +..-|..|..+....+++..|.++|.....         |..|+-.+...|+.+...
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHH
Confidence            45556666655554432      344466666666666666666666655443         334444455555555444


Q ss_pred             HHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHH
Q 004362          167 RLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEM  207 (759)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  207 (759)
                      .+-....+.| ..     |...-++...|+++++.+++..-
T Consensus       713 ~la~~~~~~g-~~-----N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  713 VLASLAKKQG-KN-----NLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHHHhhc-cc-----chHHHHHHHcCCHHHHHHHHHhc
Confidence            4444444443 11     12222344556666666655543

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.70  E-value=21  Score=36.35  Aligned_cols=165  Identities=14%  Similarity=0.136  Sum_probs=68.5

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHH
Q 004362          460 DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGE  539 (759)
Q Consensus       460 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  539 (759)
                      |.....+++..+.....+.-.+.+..+|...|  .+-..+..++.+|... ..++-..+|+++.+..+. |...-..++.
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            33344444445554444444455555555432  2344444555555444 344444555555444221 2222223333


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCC-----ccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh
Q 004362          540 SLCKAHKITEAFNLLEEMENKGLT-----LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE  614 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  614 (759)
                      .|.+ ++.+.+..+|..+...-++     .-.+.|..+...  -..+.+....+...+....+...-...+..+..-|..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            3322 4444555555444432111     011223333221  1233444444444444433222233333334444445


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 004362          615 KLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       615 ~g~~~~A~~~~~~~~~~  631 (759)
                      ..++.+|+++++.+++.
T Consensus       218 ~eN~~eai~Ilk~il~~  234 (711)
T COG1747         218 NENWTEAIRILKHILEH  234 (711)
T ss_pred             ccCHHHHHHHHHHHhhh
Confidence            55555555555544443

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=90.70  E-value=5  Score=36.17  Aligned_cols=115  Identities=6%  Similarity=-0.064  Sum_probs=57.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCccHHH-HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHH
Q 004362          541 LCKAHKITEAFNLLEEMENKGLTLDTVA-FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFY  619 (759)
Q Consensus       541 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  619 (759)
                      |....+++.|+..|.+.+..  .|+..+ |..=+.++.+..+++.+..--.+..+.  .|+......-++..+.....++
T Consensus        20 ~f~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralql--~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQL--DPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             ccchhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhc--ChHHHHHHHHHHHHHHhhcccc
Confidence            33344555666655555542  344322 333444555566666666655555555  5555555555556666666666


Q ss_pred             HHHHHHHHHHH----cCCCCCHhhHHHHHHHHHhcCChHHHHHH
Q 004362          620 MAEKLFYEMSE----KGCPPDNYTYRIMIDSFCKTGGINSGYCL  659 (759)
Q Consensus       620 ~A~~~~~~~~~----~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  659 (759)
                      +|+..++++..    ..+++...++..|..+-...=...+..++
T Consensus        96 eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri  139 (284)
T KOG4642|consen   96 EAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRI  139 (284)
T ss_pred             HHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHH
Confidence            66666665522    12233344455554443333333334333

>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=90.63  E-value=1.2  Score=29.49  Aligned_cols=40  Identities=8%  Similarity=-0.020  Sum_probs=28.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004362          640 YRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINC  681 (759)
Q Consensus       640 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~  681 (759)
                      ...+.-++.+.|++++|+.+.+.+++  +.|++.-...+...
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~--~eP~N~Qa~~L~~~   43 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLE--IEPDNRQAQSLKEL   43 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH--HTTS-HHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCcHHHHHHHHH
Confidence            34566678888888888888888888  88887766555443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.08  E-value=22  Score=35.66  Aligned_cols=65  Identities=12%  Similarity=0.031  Sum_probs=44.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---ChhcHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVP---NIITYSILGESLCKAHKITEAFNLLEEMEN  559 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  559 (759)
                      ...+|..++..+.+.|+++.|...+..+...+...   .+.....-+..+...|+..+|+..++....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45567777778888888888888888777643111   334444556666777888888888877776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=90.04  E-value=3.8  Score=37.29  Aligned_cols=66  Identities=12%  Similarity=0.025  Sum_probs=38.0

Q ss_pred             HhhHHHHHHHHHhcCC-------hHHHHHHHHHHHhCCCCC----CHHHHHHHHHHH-HhcCcHHHHHHHHHHHHHCC
Q 004362          637 NYTYRIMIDSFCKTGG-------INSGYCLLLENIDKGFIP----SLSTIGRVINCL-CVDHRVHEAVGFVHLMVQKG  702 (759)
Q Consensus       637 ~~~~~~l~~~~~~~g~-------~~~A~~~~~~~~~~g~~p----~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~  702 (759)
                      ...+.-++|.|...|+       +..|+..|.++.+..-.|    +......+++.+ .+.|+.++|.+++.++...+
T Consensus       118 A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~  195 (214)
T PF09986_consen  118 AGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSK  195 (214)
T ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC
Confidence            3455556666666666       344555555655432222    223344444444 67788888888888877643

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=89.93  E-value=2.9  Score=38.49  Aligned_cols=104  Identities=21%  Similarity=0.223  Sum_probs=60.5

Q ss_pred             CHHhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhH
Q 004362          390 SIVLYNTLIKGLSQQ-----GLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTF  464 (759)
Q Consensus       390 ~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  464 (759)
                      |-.+|-..+..+...     +.++-....++.|.+-|+.-|..+|..++..+-+-.-                .|. .++
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkf----------------iP~-nvf  128 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKF----------------IPQ-NVF  128 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccc----------------ccH-HHH
Confidence            445555555544332     3344444455556666666666666666554432111                111 111


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004362          465 NTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKS  512 (759)
Q Consensus       465 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  512 (759)
                      ....-.|-  .+-+-++.++++|...|+.||..+-..++.++.+.+-+
T Consensus       129 Q~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  129 QKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            11111122  22356889999999999999999999999999887754

>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=89.92  E-value=0.48  Score=44.81  Aligned_cols=118  Identities=10%  Similarity=-0.023  Sum_probs=68.7

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHH
Q 004362          543 KAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAE  622 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  622 (759)
                      ..|.+++|++.+...+.. -++....|..-..++.+.++...|++-+......  .|+...-|-.-..+....|+|++|.
T Consensus       126 n~G~~~~ai~~~t~ai~l-np~~a~l~~kr~sv~lkl~kp~~airD~d~A~ei--n~Dsa~~ykfrg~A~rllg~~e~aa  202 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIEL-NPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEI--NPDSAKGYKFRGYAERLLGNWEEAA  202 (377)
T ss_pred             cCcchhhhhccccccccc-CCchhhhcccccceeeeccCCchhhhhhhhhhcc--CcccccccchhhHHHHHhhchHHHH
Confidence            456667777766666665 2444455555556666677777777777666666  5556666666666666667777777


Q ss_pred             HHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          623 KLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       623 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ..+..+.+.++.+....|  +-...-..+..++-...+++..+
T Consensus       203 ~dl~~a~kld~dE~~~a~--lKeV~p~a~ki~e~~~k~er~~~  243 (377)
T KOG1308|consen  203 HDLALACKLDYDEANSAT--LKEVFPNAGKIEEHRRKYERARE  243 (377)
T ss_pred             HHHHHHHhccccHHHHHH--HHHhccchhhhhhchhHHHHHHH
Confidence            777776666554443333  22223334444444444444443

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=89.65  E-value=21  Score=34.71  Aligned_cols=46  Identities=13%  Similarity=0.185  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHHHHHHHHhCC
Q 004362          619 YMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK----TGGINSGYCLLLENIDKG  667 (759)
Q Consensus       619 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~g  667 (759)
                      ..|...|.++...+   +......++..|..    ..++.+|..+|.++.+.|
T Consensus       172 ~~A~~~~~~aa~~~---~~~a~~~lg~~y~~G~Gv~~d~~~A~~wy~~Aa~~g  221 (292)
T COG0790         172 KKALYLYRKAAELG---NPDAQLLLGRMYEKGLGVPRDLKKAFRWYKKAAEQG  221 (292)
T ss_pred             HhHHHHHHHHHHhc---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC
Confidence            35666777666554   33344444444432    236677777777777754

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=89.15  E-value=28  Score=35.51  Aligned_cols=180  Identities=15%  Similarity=0.148  Sum_probs=112.1

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHH
Q 004362          109 PTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLI  188 (759)
Q Consensus       109 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~  188 (759)
                      .|-.+..+++..+..+..++-+..+..+|...|  .+-..+..+++.|... ..+.-..+++++.+..+ .|+..-..|+
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHH
Confidence            344556677788888888888888888888865  5677788888888777 56677777887777652 2333334444


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCC--C---hhhHHHHHHHHHhcCChhHHHHHHHHHhhC-CCCCCHHHHHHHHHHHH
Q 004362          189 AGFYEENHNVEAYELFDEMLGMGISP--D---IATFNKLIHTLCKKGNVRESEKLFNKVLKR-GVSPNLFTFNMFIQGLC  262 (759)
Q Consensus       189 ~~~~~~~~~~~a~~~~~~~~~~~~~~--~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  262 (759)
                      ..|- .++.+.+...|.++...=++.  +   ...|..+....  ..+.+....+...+... |...-...+..+-..|.
T Consensus       140 ~~yE-kik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYE-KIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHH-HhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            4443 477777777777776442221  1   11344433321  34556666666665543 33333344555556677


Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHH
Q 004362          263 RKGAISEAISLLDSLGREDLTPDVVTYNTLMCGL  296 (759)
Q Consensus       263 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  296 (759)
                      ...++.+|++++.-+.+.+ ..|..+...++..+
T Consensus       217 ~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         217 ENENWTEAIRILKHILEHD-EKDVWARKEIIENL  249 (711)
T ss_pred             cccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHH
Confidence            7888888888888877665 55666655555443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=89.04  E-value=39  Score=37.02  Aligned_cols=188  Identities=12%  Similarity=0.106  Sum_probs=112.7

Q ss_pred             hHHHHHHHHHhhhcCCCCCCH--HHHHHHHHHHH-hCCChHHHHHHHHHHHhcCCCCccHH----HHHHHHHHHHhcCCh
Q 004362           20 PLTALEMFNSVKREDGFKHTL--LTYKYMIDKLG-FHGNFEEMENLLLEMRMDVDDSLLEG----VHIGVMRNYGRRGKV   92 (759)
Q Consensus        20 ~~~A~~~~~~~~~~~~~~~~~--~~~~~l~~~l~-~~~~~~~A~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~   92 (759)
                      ...|+..++.+.+.....|..  .++-.++.+|. ...++++|+..++++..........+    ....+++.+.+.+..
T Consensus        37 I~~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~  116 (608)
T PF10345_consen   37 IATAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPK  116 (608)
T ss_pred             HHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHH
Confidence            456778888776543333332  36667888888 78999999999998866552211222    234467777777776


Q ss_pred             hHHHHHHHHhhhCCCC--CC--HHHHHHH-HHHHHHcCChhHHHHHHHHHHHCC---CCCCHHHHHHHHHHH--HccCCh
Q 004362           93 QEAVDVFERMDFYNCE--PT--VLSYNTI-MNILVEYGYFSQVHKVYMRMRNKG---IVPDVYTFVIRIKSF--CRTRRP  162 (759)
Q Consensus        93 ~~A~~~~~~~~~~~~~--~~--~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~--~~~~~~  162 (759)
                      . |...+++....--.  .+  ...+..+ +..+...+++..|.+.++.+....   ..|...++-.++.+.  .+.+.+
T Consensus       117 ~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~  195 (608)
T PF10345_consen  117 A-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSP  195 (608)
T ss_pred             H-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCc
Confidence            6 99888876632211  12  2222222 223333479999999998887642   233444444455444  345666


Q ss_pred             hhHHHHHhhchhCC---------CCCCHHhHHHHHHHHH--hcCChhHHHHHHHHHH
Q 004362          163 HVALRLLKNMPSQG---------FEPNAVAYCTLIAGFY--EENHNVEAYELFDEML  208 (759)
Q Consensus       163 ~~A~~~~~~~~~~~---------~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~  208 (759)
                      +++.+.++.+....         ..|...+|..++..++  ..|++..+.+.++++.
T Consensus       196 ~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  196 DDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             hhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777776653211         2455677777777654  5677666665555543

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 [].

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=88.95  E-value=9.7  Score=30.96  Aligned_cols=73  Identities=4%  Similarity=-0.027  Sum_probs=47.9

Q ss_pred             chhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          601 TTATYNIMINAFSEKL---NFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       601 ~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      +..+-..+++++.+..   +..+.+.+++.+.+.. .|+  ......|.-+|++.|+|+.++++.+..++  ..|++.-.
T Consensus        31 s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~-~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~--~e~~n~Qa  107 (149)
T KOG3364|consen   31 SKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSA-HPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE--TEPNNRQA  107 (149)
T ss_pred             hHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhc-CcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh--hCCCcHHH
Confidence            4455566677776654   3555677777777532 333  45555666678888888888888888888  66765544


Q ss_pred             H
Q 004362          676 G  676 (759)
Q Consensus       676 ~  676 (759)
                      .
T Consensus       108 ~  108 (149)
T KOG3364|consen  108 L  108 (149)
T ss_pred             H
Confidence            3

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.86  E-value=2.8  Score=31.52  Aligned_cols=48  Identities=13%  Similarity=0.119  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHc
Q 004362          548 TEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ  595 (759)
Q Consensus       548 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  595 (759)
                      -++.+-++.+...+.-|++.+..+.+++|.+.+|+..|+++++.+..+
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K   71 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK   71 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            345556666666667778888888888888888888888888877766

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.78  E-value=2.9  Score=31.87  Aligned_cols=59  Identities=12%  Similarity=0.147  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          549 EAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       549 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +..+-++.+...+.-|++.+..+.+.+|.+.+++..|+++++.+..+.+.  ....|..++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~--~~~~Y~~~l   86 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGN--KKEIYPYIL   86 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--hHHHHHHHH
Confidence            45566666666677888888888888888888888888888888877433  333554444

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 ....

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.24  E-value=14  Score=36.29  Aligned_cols=160  Identities=15%  Similarity=0.100  Sum_probs=90.6

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---------CCCCC
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYK-ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK---------GCPPD  636 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---------~~~p~  636 (759)
                      ..+..+..-|..+|+++.|++.|.++.+-+- .......|.+++.+-...|+|.....+..++...         .+++-
T Consensus       151 ra~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~k  230 (466)
T KOG0686|consen  151 RALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAK  230 (466)
T ss_pred             HHHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcc
Confidence            3456677778888888888888877554311 1123455666666666777777777776666543         12333


Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHHHhC--C----CCCCHHHHHHHHHHHHhcCcHHHHH-----HHHHHHHHCCCCC
Q 004362          637 NYTYRIMIDSFCKTGGINSGYCLLLENIDK--G----FIPSLSTIGRVINCLCVDHRVHEAV-----GFVHLMVQKGIVP  705 (759)
Q Consensus       637 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--g----~~p~~~~~~~l~~~~~~~g~~~~A~-----~~~~~~~~~~~~p  705 (759)
                      ..++..|...+  .+++..|...|-.....  .    +.|.+...+..+.++.--++-+--+     ..|+...+  ..|
T Consensus       231 l~C~agLa~L~--lkkyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYggLcALAtfdr~~Lk~~vi~n~~Fk~fle--l~P  306 (466)
T KOG0686|consen  231 LKCAAGLANLL--LKKYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYGGLCALATFDRQDLKLNVIKNESFKLFLE--LEP  306 (466)
T ss_pred             hHHHHHHHHHH--HHHHHHHHHHHHhCCCCccCccceecchhhHHHHhhHhhccCCHHHHHHHHHcchhhhhHHh--cCh
Confidence            44444444433  34777777776654321  1    2466666666666664333322221     24555555  677


Q ss_pred             chHHHHHhccccccccchHHHHHHH
Q 004362          706 EVVNTIFEADKREVASPKIVVEDLL  730 (759)
Q Consensus       706 ~~~~~~~~~~~~~~~~a~~~~~~~~  730 (759)
                      +.+.-+.....+++..-..+++++.
T Consensus       307 qlr~il~~fy~sky~~cl~~L~~~k  331 (466)
T KOG0686|consen  307 QLREILFKFYSSKYASCLELLREIK  331 (466)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHhc
Confidence            7666555555555555555555543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=88.24  E-value=1.1  Score=27.66  Aligned_cols=28  Identities=14%  Similarity=0.258  Sum_probs=19.9

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          638 YTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       638 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .+++.|+..|...|++++|+.+++++++
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            4567777777777888888777777764

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.19  E-value=0.8  Score=26.48  Aligned_cols=26  Identities=8%  Similarity=0.142  Sum_probs=13.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          606 NIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       606 ~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      ..++.++...|++++|.+.|+++++.
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            34445555555555555555555543

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=88.08  E-value=28  Score=34.31  Aligned_cols=81  Identities=15%  Similarity=0.114  Sum_probs=63.0

Q ss_pred             hHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHH---cCChhHHHH
Q 004362           56 FEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVE---YGYFSQVHK  132 (759)
Q Consensus        56 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~  132 (759)
                      .+.-+.+++++++.+|.  +..++...+..+.+..+.+...+-++++.... +.+...|...+.....   .-.+..+..
T Consensus        47 ~E~klsilerAL~~np~--~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~  123 (321)
T PF08424_consen   47 AERKLSILERALKHNPD--SERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRD  123 (321)
T ss_pred             HHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHH
Confidence            45567889999999887  89999999999999999999999999998664 4467788887776554   234567777


Q ss_pred             HHHHHHH
Q 004362          133 VYMRMRN  139 (759)
Q Consensus       133 ~~~~~~~  139 (759)
                      +|.+.++
T Consensus       124 ~y~~~l~  130 (321)
T PF08424_consen  124 VYEKCLR  130 (321)
T ss_pred             HHHHHHH
Confidence            7777654

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=87.77  E-value=9.3  Score=34.58  Aligned_cols=120  Identities=11%  Similarity=0.010  Sum_probs=78.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChh-cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChh
Q 004362          505 GLCKAAKSEDVMETFKTMIEKRCVPNII-TYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLD  583 (759)
Q Consensus       505 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  583 (759)
                      .|.....++.|+..|.+.+..  .|+.. -|..-+..+.+..+++.+..=-.+.++. .+........+..+......++
T Consensus        19 k~f~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralql-~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   19 KCFIPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQL-DPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             cccchhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhc-ChHHHHHHHHHHHHHHhhcccc
Confidence            355567789999988888875  56664 4556677778888999988888887774 2333444556667778888999


Q ss_pred             hHHHHHHHHHHcc---CCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          584 GAYQLFRRMEDQY---KISHTTATYNIMINAFSEKLNFYMAEKLFYE  627 (759)
Q Consensus       584 ~A~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  627 (759)
                      +|+..+.++....   ..++-..++..|..+--..-...+..++.++
T Consensus        96 eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q~  142 (284)
T KOG4642|consen   96 EAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIRQE  142 (284)
T ss_pred             HHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHHHH
Confidence            9999999885432   2333445555555443333344444444443

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.73  E-value=3.1  Score=42.56  Aligned_cols=116  Identities=16%  Similarity=-0.011  Sum_probs=78.6

Q ss_pred             CCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHH
Q 004362          527 CVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYN  606 (759)
Q Consensus       527 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  606 (759)
                      ..|-..+++..+--....|+...|...+..+..............++..+.+.|...+|..++.+....  ....+.++.
T Consensus       603 ~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~--~~sepl~~~  680 (886)
T KOG4507|consen  603 NAPIWLILNEAGLYWRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAI--NSSEPLTFL  680 (886)
T ss_pred             CCCeEEEeecccceeeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhh--cccCchHHH
Confidence            344444444444334457888888888887765422222334556667777778888888888888777  455667778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHH
Q 004362          607 IMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDS  646 (759)
Q Consensus       607 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~  646 (759)
                      .++++|....+.+.|++.++++.+.  .|+ ..+-+.|...
T Consensus       681 ~~g~~~l~l~~i~~a~~~~~~a~~~--~~~~~~~~~~l~~i  719 (886)
T KOG4507|consen  681 SLGNAYLALKNISGALEAFRQALKL--TTKCPECENSLKLI  719 (886)
T ss_pred             hcchhHHHHhhhHHHHHHHHHHHhc--CCCChhhHHHHHHH
Confidence            8888888888899999998888865  444 6666666653

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.54  E-value=46  Score=36.07  Aligned_cols=73  Identities=14%  Similarity=0.065  Sum_probs=37.5

Q ss_pred             HHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCC
Q 004362           50 LGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGY  126 (759)
Q Consensus        50 l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  126 (759)
                      +.+.+.+++|+...+......+......+....+..+...|++++|-...-.|.    ..+...|..-+..+...++
T Consensus       366 ll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~----gn~~~eWe~~V~~f~e~~~  438 (846)
T KOG2066|consen  366 LLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKML----GNNAAEWELWVFKFAELDQ  438 (846)
T ss_pred             HHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHh----cchHHHHHHHHHHhccccc
Confidence            345556666665555444333221123445555555666666666666665555    3444455555544444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.94  E-value=3.1  Score=38.99  Aligned_cols=103  Identities=15%  Similarity=0.190  Sum_probs=65.2

Q ss_pred             CCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC---CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHH
Q 004362          176 GFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMG---ISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLF  252 (759)
Q Consensus       176 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  252 (759)
                      |.+.+..+...++..-....+++.+...+-++....   ..|+. +-...++.+. .-+..+++.++..=+..|+.||.+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHH-ccChHHHHHHHhCcchhccccchh
Confidence            334445555555555555667777777776665431   11111 1122233332 235667887777777888888888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 004362          253 TFNMFIQGLCRKGAISEAISLLDSLGRE  280 (759)
Q Consensus       253 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  280 (759)
                      +++.+|..+.+.+++.+|.++.-.|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888888888888887776644

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.89  E-value=1.5  Score=27.16  Aligned_cols=28  Identities=25%  Similarity=0.265  Sum_probs=22.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      .+++.++.+|...|++++|..+++++.+
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            4678888888888999999988888764

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=86.78  E-value=27  Score=33.04  Aligned_cols=165  Identities=12%  Similarity=0.058  Sum_probs=103.7

Q ss_pred             HHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhc--CCCCccHHHHHHHHHHHHh--cCChhHHH
Q 004362           21 LTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMD--VDDSLLEGVHIGVMRNYGR--RGKVQEAV   96 (759)
Q Consensus        21 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~--~g~~~~A~   96 (759)
                      ++-+.+++-+........+.. |..++   .++.-..+|..+|+..-..  --.  ++++...+++....  +.+...--
T Consensus       113 ~Dli~FL~~~i~~~~~~k~~~-Y~~LV---k~N~~Vv~aL~L~~~~~~~~~Ii~--d~evislLL~sMv~~~~~~l~alY  186 (292)
T PF13929_consen  113 EDLISFLKLVIINLSSNKSFN-YWDLV---KRNKIVVEALKLYDGLNPDESIIF--DEEVISLLLKSMVIDENTKLNALY  186 (292)
T ss_pred             HHHHHHHHHHHhccccccchH-HHHHH---HhhHHHHHHHHHhhccCcccceee--ChHHHHHHHHHHHhccccchhhHH
Confidence            444555555443322222222 55555   3445567777887743221  122  56677777776654  22333334


Q ss_pred             HHHHHhh-hCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHccCChhhHHHHHhh---
Q 004362           97 DVFERMD-FYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNK-GIVPDVYTFVIRIKSFCRTRRPHVALRLLKN---  171 (759)
Q Consensus        97 ~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~---  171 (759)
                      ++.+-+. ..+..++..+...++..+++.+++....++++..... +...|...|..+|+.....|+..-...+.++   
T Consensus       187 EvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhL  266 (292)
T PF13929_consen  187 EVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHL  266 (292)
T ss_pred             HHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCe
Confidence            4444443 2233577777888899999999999999999998776 4456788899999999999999988888865   


Q ss_pred             --chhCCCCCCHHhHHHHHHHH
Q 004362          172 --MPSQGFEPNAVAYCTLIAGF  191 (759)
Q Consensus       172 --~~~~~~~~~~~~~~~l~~~~  191 (759)
                        +.+.+++.+...-..+-..+
T Consensus       267 LwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  267 LWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             EEeeecCCcCCHHHHHHHHHHH
Confidence              33445555555555554444

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.70  E-value=1  Score=25.98  Aligned_cols=25  Identities=12%  Similarity=0.157  Sum_probs=15.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          641 RIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       641 ~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ..++.++.+.|++++|...|+++++
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3455566666666666666666665

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=86.64  E-value=35  Score=33.69  Aligned_cols=122  Identities=11%  Similarity=0.035  Sum_probs=67.3

Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh---cCChHHHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK---TGGINSGYC  658 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~A~~  658 (759)
                      .+.-+.+++++.+.  .|.+...+..++..+.+..+.++..+.+++++... +-+...|...+.....   .-.++....
T Consensus        47 ~E~klsilerAL~~--np~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~  123 (321)
T PF08424_consen   47 AERKLSILERALKH--NPDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRD  123 (321)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHH
Confidence            34455566666665  56666666666666666666666666666666542 2235566665553332   223555555


Q ss_pred             HHHHHHhC------CC------CC--CHHHHHHHHHHH---HhcCcHHHHHHHHHHHHHCCC-CCc
Q 004362          659 LLLENIDK------GF------IP--SLSTIGRVINCL---CVDHRVHEAVGFVHLMVQKGI-VPE  706 (759)
Q Consensus       659 ~~~~~~~~------g~------~p--~~~~~~~l~~~~---~~~g~~~~A~~~~~~~~~~~~-~p~  706 (759)
                      .|.+.++.      |.      .|  +....+.++..+   ..+|..+.|+..++.+.+-++ .|+
T Consensus       124 ~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~~~P~  189 (321)
T PF08424_consen  124 VYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNFFRPE  189 (321)
T ss_pred             HHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHcCCcc
Confidence            55554421      11      01  111222233222   477888888888888887655 444

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.31  E-value=15  Score=32.75  Aligned_cols=121  Identities=15%  Similarity=0.158  Sum_probs=70.6

Q ss_pred             HHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HhhHHHHHHH
Q 004362          571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD----NYTYRIMIDS  646 (759)
Q Consensus       571 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~~  646 (759)
                      ..+..+.+.+.+.+|+...+.-.+.  .|.+...-..++..|+-.|+|++|..-++-+-+.  .|+    ..+|..++.+
T Consensus         6 ~t~seLL~~~sL~dai~~a~~qVka--kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l--~p~~t~~a~lyr~lir~   81 (273)
T COG4455           6 DTISELLDDNSLQDAIGLARDQVKA--KPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATL--SPQDTVGASLYRHLIRC   81 (273)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhc--CCccccchhHHHHHHhhcchHHHHHHHHHHHhhc--CcccchHHHHHHHHHHH
Confidence            3445566677777887777777666  6777777777778888888888887777766532  343    4566666654


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCC------CCHHHHHHHHHHH-HhcCcHHH-HHHHHHHHHHCCCCC
Q 004362          647 FCKTGGINSGYCLLLENIDKGFI------PSLSTIGRVINCL-CVDHRVHE-AVGFVHLMVQKGIVP  705 (759)
Q Consensus       647 ~~~~g~~~~A~~~~~~~~~~g~~------p~~~~~~~l~~~~-~~~g~~~~-A~~~~~~~~~~~~~p  705 (759)
                      -...          ++..+-+..      |...-...++.++ ++.+...+ +..+.+...+.+..|
T Consensus        82 ea~R----------~evfag~~~Pgflg~p~p~wva~L~aala~h~dg~gea~~alreqal~aa~~~  138 (273)
T COG4455          82 EAAR----------NEVFAGGAVPGFLGGPSPEWVAALLAALALHSDGAGEARTALREQALKAAPVP  138 (273)
T ss_pred             HHHH----------HHHhccCCCCCCcCCCCHHHHHHHHHHHhcccCCcchHHHHHHHHHHhhCCCC
Confidence            2221          112221222      3333334556666 55554555 455666666654433

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=85.92  E-value=17  Score=33.15  Aligned_cols=66  Identities=11%  Similarity=0.013  Sum_probs=41.7

Q ss_pred             hhHHHHHHHHHhcCC-------HHHHHHHHHHHHHcCCCC----C-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 004362          603 ATYNIMINAFSEKLN-------FYMAEKLFYEMSEKGCPP----D-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGF  668 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~-------~~~A~~~~~~~~~~~~~p----~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  668 (759)
                      .++..+++.|...|+       +..|.+.|.++.+..-.|    + ......++....+.|++++|.++|.+++..+-
T Consensus       119 ~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~  196 (214)
T PF09986_consen  119 GLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKK  196 (214)
T ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCC
Confidence            444556666666666       344555555555442221    1 33445566788889999999999999987533

>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=85.87  E-value=2.1  Score=24.96  Aligned_cols=29  Identities=14%  Similarity=0.124  Sum_probs=24.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      .+|..++.+|...|++++|.+.|++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            36778888899999999999999888754

...

>PRK09687 putative lyase; Provisional

Probab=85.33  E-value=36  Score=32.69  Aligned_cols=80  Identities=14%  Similarity=-0.006  Sum_probs=31.7

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          355 DEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQG-LILQALQLMNEMSESGCCPDMWTYNIVI  433 (759)
Q Consensus       355 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~  433 (759)
                      +..+....+.++.+.++ +.+...+-.+...   ++...-...+.++.+.+ ....+...+..+..   .++...-...+
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~  213 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAI  213 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHH
Confidence            33444444445544444 2344444444332   23333333333333321 12234444444432   12444444444


Q ss_pred             HHHHhcCC
Q 004362          434 NGLCKMGC  441 (759)
Q Consensus       434 ~~~~~~~~  441 (759)
                      .++.+.++
T Consensus       214 ~aLg~~~~  221 (280)
T PRK09687        214 IGLALRKD  221 (280)
T ss_pred             HHHHccCC
Confidence            44444444

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.31  E-value=46  Score=33.87  Aligned_cols=275  Identities=12%  Similarity=-0.010  Sum_probs=143.8

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHH--HHHHHHHHHCCCCCCh-----------hcHHHHHH
Q 004362          263 RKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEA--EYYLHKMVNEGLEPDG-----------FSYNAVID  329 (759)
Q Consensus       263 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a--~~~~~~~~~~~~~~~~-----------~~~~~ll~  329 (759)
                      ..+.++..++.+..+...|.....+.++.-...|.+.|.....  ++-++.+...-..|+.           ..+....-
T Consensus        29 ~~~~~d~cl~~l~~l~t~~~~~~~v~~n~av~~~~kt~~tq~~~ll~el~aL~~~~~~~~~~~~gld~~~~t~~~yn~aV  108 (696)
T KOG2471|consen   29 NNSEFDRCLELLQELETRGESSGPVLHNRAVVSYYKTGCTQHSVLLKELEALTADADAPGDVSSGLSLKQGTVMDYNFAV  108 (696)
T ss_pred             CCcchHHHHHHHHHHHhccccccceeeehhhHHHHhcccchhHHHHHHHHHHHHhhccccchhcchhhhcchHHhhhhhe
Confidence            4678999999999999888777777788888888888876543  2333333322111111           11111222


Q ss_pred             HHHHcCChhHHHHHHHHHHhCCCCCCcc-----cHHHHHHHHHhcCCHHHHHHHHHH---HHHcC-CCC--CHHhHHH--
Q 004362          330 GYCKAGMISSADKILNDAIFKGFVPDEF-----TYCSLINGLCQDGDVDRAMAVYVK---ALEKG-LKP--SIVLYNT--  396 (759)
Q Consensus       330 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~A~~~~~~---~~~~~-~~~--~~~~~~~--  396 (759)
                      .|....++..|+++.......- .+-..     ........+....+.++|+.++.-   +...+ ..+  +...-+.  
T Consensus       109 i~yh~~~~g~a~~~~~~lv~r~-e~le~~~aa~v~~l~~~l~~~t~q~e~al~~l~vL~~~~~~~~~~~~gn~~~~nn~~  187 (696)
T KOG2471|consen  109 IFYHHEENGSAMQLSSNLVSRT-ESLESSSAASVTLLSDLLAAETSQCEEALDYLNVLAEIEAEKRMKLVGNHIPANNLL  187 (696)
T ss_pred             eeeeHhhcchHHHhhhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccchhhhc
Confidence            2333445566666655544331 11000     111223345555667777665543   33221 000  0011111  


Q ss_pred             ------------------------HHHHHHhcCCHHHHHHHHHHHH-hCCCCCCHHHHH-HHHHHHHhcCChHHHHHHHH
Q 004362          397 ------------------------LIKGLSQQGLILQALQLMNEMS-ESGCCPDMWTYN-IVINGLCKMGCVSDANNLVN  450 (759)
Q Consensus       397 ------------------------l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~  450 (759)
                                              -+++|.+..+...+.+-.+... ..+   |...+. .--..+...|++.+|.+++-
T Consensus       188 kt~s~~aAe~s~~~a~~k~~~~~ykVr~llq~~~Lk~~krevK~vmn~a~---~s~~~l~LKsq~eY~~gn~~kA~KlL~  264 (696)
T KOG2471|consen  188 KTLSPSAAERSFSTADLKLELQLYKVRFLLQTRNLKLAKREVKHVMNIAQ---DSSMALLLKSQLEYAHGNHPKAMKLLL  264 (696)
T ss_pred             ccCCcchhcccchhhccchhhhHhhHHHHHHHHHHHHHHHhhhhhhhhcC---CCcHHHHHHHHHHHHhcchHHHHHHHH
Confidence                                    1122222222222222222211 111   211111 11223445788888887765


Q ss_pred             HHHH---CCCCCC-----HhhHHHHHHHHHhcCCHHHHHHHHHHHHH-------CCCCCCH-----------HHHHHHHH
Q 004362          451 DAIS---KGYIPD-----IFTFNTLIDGYCKQLKMEIAIEILNTMWS-------HGVTPDV-----------ITYNSLLN  504 (759)
Q Consensus       451 ~~~~---~~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~~~~~~~-----------~~~~~l~~  504 (759)
                      ..--   .|...+     ...||.+.-.+.+.|.+..+..+|.+..+       .|+.|..           .+|| ...
T Consensus       265 ~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks~eilYN-cG~  343 (696)
T KOG2471|consen  265 VSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKSMEILYN-CGL  343 (696)
T ss_pred             hcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhcccchhhHHh-hhH
Confidence            4321   121112     22346666667788888888888888774       3444321           2233 344


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh
Q 004362          505 GLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK  543 (759)
Q Consensus       505 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  543 (759)
                      .|...|++-.|.+.|.+..+. +..++..|..+..+|..
T Consensus       344 ~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCim  381 (696)
T KOG2471|consen  344 LYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIM  381 (696)
T ss_pred             HHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHH
Confidence            577889999999999988876 45688899999988853

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=85.04  E-value=39  Score=32.76  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHH
Q 004362          409 QALQLMNEMSESGCCPDMWTYNI  431 (759)
Q Consensus       409 ~a~~~~~~~~~~~~~~~~~~~~~  431 (759)
                      +.+.+++.+.+.|+.-+..++.+
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~la  102 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLA  102 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHH
Confidence            34455566666666655555444

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=84.80  E-value=40  Score=32.75  Aligned_cols=129  Identities=12%  Similarity=0.099  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc-----C--
Q 004362          512 SEDVMETFKTMIEKRCVPNIITYSILGESLCK----AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS-----G--  580 (759)
Q Consensus       512 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g--  580 (759)
                      ..+|.++|....+.|   .......++..|..    ..+..+|..+++.+.+.|..+.......+...|..-     -  
T Consensus        93 ~~~A~~~~~~~a~~g---~~~a~~~lg~~~~~G~gv~~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~~  169 (292)
T COG0790          93 KTKAADWYRCAAADG---LAEALFNLGLMYANGRGVPLDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVAY  169 (292)
T ss_pred             HHHHHHHHHHHhhcc---cHHHHHhHHHHHhcCCCcccCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhcccH
Confidence            455555555444443   22233334444433    235666667777666665443222233333333332     1  


Q ss_pred             ChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC
Q 004362          581 DLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE----KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTG  651 (759)
Q Consensus       581 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  651 (759)
                      +...|...|.++....    ++.....++..|..    ..+..+|..+|++..+.|-   ......+. .+...|
T Consensus       170 ~~~~A~~~~~~aa~~~----~~~a~~~lg~~y~~G~Gv~~d~~~A~~wy~~Aa~~g~---~~a~~~~~-~~~~~g  236 (292)
T COG0790         170 DDKKALYLYRKAAELG----NPDAQLLLGRMYEKGLGVPRDLKKAFRWYKKAAEQGD---GAACYNLG-LMYLNG  236 (292)
T ss_pred             HHHhHHHHHHHHHHhc----CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHH-HHHhcC
Confidence            2346888888877663    55666667766654    3478888888888887763   33333343 445444

>smart00028 TPR Tetratricopeptide repeats

Probab=84.67  E-value=1.8  Score=24.36  Aligned_cols=26  Identities=8%  Similarity=0.156  Sum_probs=13.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          640 YRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       640 ~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      |..++..+...|++++|...++++++
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            34444455555555555555555544

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.40  E-value=22  Score=37.09  Aligned_cols=150  Identities=10%  Similarity=0.096  Sum_probs=93.0

Q ss_pred             hCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHH
Q 004362           52 FHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVH  131 (759)
Q Consensus        52 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  131 (759)
                      ..|+++.|..++-.+        ..+....++.-+-++|-.++|+++-.       .|+.     -.....+.|+++.|.
T Consensus       598 mrrd~~~a~~vLp~I--------~k~~rt~va~Fle~~g~~e~AL~~s~-------D~d~-----rFelal~lgrl~iA~  657 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTI--------PKEIRTKVAHFLESQGMKEQALELST-------DPDQ-----RFELALKLGRLDIAF  657 (794)
T ss_pred             hhccccccccccccC--------chhhhhhHHhHhhhccchHhhhhcCC-------Chhh-----hhhhhhhcCcHHHHH
Confidence            446666665533222        23455566777777777777766531       1221     123445777888877


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004362          132 KVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMG  211 (759)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  211 (759)
                      ++..+.      .+..-|..|..+....+++..|.+.|.....         |..|+-.+...|+.+....+-....+.|
T Consensus       658 ~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g  722 (794)
T KOG0276|consen  658 DLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQG  722 (794)
T ss_pred             HHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhc
Confidence            765553      3456688888888888888888888876543         4456666667777766666666665555


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 004362          212 ISPDIATFNKLIHTLCKKGNVRESEKLFNKV  242 (759)
Q Consensus       212 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  242 (759)
                      ..      |...-++...|+++++.+++..-
T Consensus       723 ~~------N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  723 KN------NLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             cc------chHHHHHHHcCCHHHHHHHHHhc
Confidence            32      23334566778888887777553

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.40  E-value=37  Score=31.99  Aligned_cols=59  Identities=14%  Similarity=0.149  Sum_probs=39.7

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      +......|..+|.+.+|.++.++....  .|-+...|..++..+...|+--.|.+.|+++.
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltl--dpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTL--DPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            344456677777777777777777766  66666667777777777777666666666554

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=84.36  E-value=36  Score=31.83  Aligned_cols=181  Identities=13%  Similarity=0.132  Sum_probs=88.7

Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHccCC----CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCCCHhhHH
Q 004362          570 GTLINGFCNSGDLDGAYQLFRRMEDQYKI----SHTTATYNIMINAFSEKLNFYMAEKLFYEMSE----KGCPPDNYTYR  641 (759)
Q Consensus       570 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~p~~~~~~  641 (759)
                      ..++.++.+.|.+.+|+.+...+......    +.-...+..=..+|....+..++..-+..+..    .-+||....-.
T Consensus       129 ~Kli~l~y~~~~YsdalalIn~ll~ElKk~DDK~~Li~vhllESKvyh~irnv~KskaSLTaArt~Ans~YCPpqlqa~l  208 (421)
T COG5159         129 CKLIYLLYKTGKYSDALALINPLLHELKKYDDKINLITVHLLESKVYHEIRNVSKSKASLTAARTLANSAYCPPQLQAQL  208 (421)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHhhcCccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhhccCCCHHHHHHH
Confidence            35677888899999998887766543322    22222333334455555555554444333321    13455544433


Q ss_pred             HHHH--HHHhcCChHHHHHHHHHHHhC--CCCCCHHHHHHHHHH---HHhcCcHHHHHHHHHHHHH-CCCCCc---hHHH
Q 004362          642 IMID--SFCKTGGINSGYCLLLENIDK--GFIPSLSTIGRVINC---LCVDHRVHEAVGFVHLMVQ-KGIVPE---VVNT  710 (759)
Q Consensus       642 ~l~~--~~~~~g~~~~A~~~~~~~~~~--g~~p~~~~~~~l~~~---~~~~g~~~~A~~~~~~~~~-~~~~p~---~~~~  710 (759)
                      -|..  ..+...++..|..+|-++.+-  .+..+......+--.   -...++.++.-.+++.=.. +.....   ....
T Consensus       209 DL~sGIlhcdd~dyktA~SYF~Ea~Egft~l~~d~kAc~sLkYmlLSkIMlN~~~evk~vl~~K~t~~~y~~r~I~am~a  288 (421)
T COG5159         209 DLLSGILHCDDRDYKTASSYFIEALEGFTLLKMDVKACVSLKYMLLSKIMLNRREEVKAVLRNKNTLKHYDDRMIRAMLA  288 (421)
T ss_pred             HHhccceeeccccchhHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHccchhHhhhhhhhHHHHHH
Confidence            3443  345667899999999998872  122333322222111   1345666655544432111 011111   1122


Q ss_pred             HHhc-c---ccccccchHHHHHHHhcCCCchHHHHHHHhhhhhh
Q 004362          711 IFEA-D---KREVASPKIVVEDLLKKSHITYYAYELLFDGIRDK  750 (759)
Q Consensus       711 ~~~~-~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  750 (759)
                      ..++ .   .-+++.|..-|+.=+..++...+.++.|++.+-++
T Consensus       289 vaea~~NRsL~df~~aL~qY~~el~~D~~iRsHl~~LYD~LLe~  332 (421)
T COG5159         289 VAEAFGNRSLKDFSDALAQYSDELHQDSFIRSHLQYLYDVLLEK  332 (421)
T ss_pred             HHHHhCCCcHhhHHHHHHHhhHHhccCHHHHHHHHHHHHHHHHh
Confidence            2222 1   22344555555554445555555566666655443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=83.69  E-value=74  Score=34.95  Aligned_cols=143  Identities=10%  Similarity=0.010  Sum_probs=73.0

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHH
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNIL  121 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  121 (759)
                      .|..... ..+.|++.++..+...+. ..|  +..-+-...+..-.....+++...++++....  +.....-...+..+
T Consensus        36 ~f~~A~~-a~~~g~~~~~~~~~~~l~-d~p--L~~yl~y~~L~~~l~~~~~~ev~~Fl~~~~~~--P~~~~Lr~~~l~~L  109 (644)
T PRK11619         36 RYQQIKQ-AWDNRQMDVVEQLMPTLK-DYP--LYPYLEYRQLTQDLMNQPAVQVTNFIRANPTL--PPARSLQSRFVNEL  109 (644)
T ss_pred             HHHHHHH-HHHCCCHHHHHHHHHhcc-CCC--cHhHHHHHHHHhccccCCHHHHHHHHHHCCCC--chHHHHHHHHHHHH
Confidence            3444443 347778888766665542 111  12222222222223344566666666655421  22222223344555


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCC
Q 004362          122 VEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENH  196 (759)
Q Consensus       122 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  196 (759)
                      .+.+++......+..     .+.+.........+....|+.++|......+-..+ ...+..++.++..+.+.|.
T Consensus       110 a~~~~w~~~~~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~~g~  178 (644)
T PRK11619        110 ARREDWRGLLAFSPE-----KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQSGK  178 (644)
T ss_pred             HHccCHHHHHHhcCC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHHcCC
Confidence            667777766653211     13455555666777777888777766666654444 3345556666655554443

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=83.59  E-value=70  Score=34.56  Aligned_cols=199  Identities=13%  Similarity=0.162  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHCCCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH----------HHHHHHHHHhcCC
Q 004362          445 ANNLVNDAISKGYIPD---IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVIT----------YNSLLNGLCKAAK  511 (759)
Q Consensus       445 a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~----------~~~l~~~~~~~~~  511 (759)
                      -...+.+|..+--.|+   ..+...++-.|....+++..+++.+.+...   ||..-          |...++--.+-|+
T Consensus       182 l~~~L~~mR~RlDnp~VL~~d~V~nlmlSyRDvQdY~amirLVe~Lk~i---P~t~~vve~~nv~f~YaFALNRRNr~GD  258 (1226)
T KOG4279|consen  182 LNDYLDKMRTRLDNPDVLHPDTVSNLMLSYRDVQDYDAMIRLVEDLKRI---PDTLKVVETHNVRFHYAFALNRRNRPGD  258 (1226)
T ss_pred             HHHHHHHHHhhcCCccccCHHHHHHHHhhhccccchHHHHHHHHHHHhC---cchhhhhccCceEEEeeehhcccCCCcc
Confidence            3345566665432333   445566666777788888888888888764   43211          1111111123467


Q ss_pred             HHHHHHHHHHHHHcC--CCCChhcHHHHHHH---------HHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC
Q 004362          512 SEDVMETFKTMIEKR--CVPNIITYSILGES---------LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG  580 (759)
Q Consensus       512 ~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  580 (759)
                      -++|+...-.+++..  +.||.  |...+..         |...+..+.|..+|++..+  +.|...+=..+...+...|
T Consensus       259 RakAL~~~l~lve~eg~vapDm--~Cl~GRIYKDmF~~S~ytDa~s~~~a~~WyrkaFe--veP~~~sGIN~atLL~aaG  334 (1226)
T KOG4279|consen  259 RAKALNTVLPLVEKEGPVAPDM--YCLCGRIYKDMFIASNYTDAESLNHAIEWYRKAFE--VEPLEYSGINLATLLRAAG  334 (1226)
T ss_pred             HHHHHHHHHHHHHhcCCCCCce--eeeechhhhhhhhccCCcchhhHHHHHHHHHHHhc--cCchhhccccHHHHHHHhh
Confidence            778887777776652  33443  3222222         2334556677778877765  3444433233333333333


Q ss_pred             C-hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHH
Q 004362          581 D-LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCL  659 (759)
Q Consensus       581 ~-~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  659 (759)
                      . ++...++=.-.             ..+...+.+.|.++.-.++|+-.          +   .+.+-.-.+++.+|+..
T Consensus       335 ~~Fens~Elq~Ig-------------mkLn~LlgrKG~leklq~YWdV~----------~---y~~asVLAnd~~kaiqA  388 (1226)
T KOG4279|consen  335 EHFENSLELQQIG-------------MKLNSLLGRKGALEKLQEYWDVA----------T---YFEASVLANDYQKAIQA  388 (1226)
T ss_pred             hhccchHHHHHHH-------------HHHHHHhhccchHHHHHHHHhHH----------H---hhhhhhhccCHHHHHHH
Confidence            3 33332221111             22344566777776666655432          1   23344567899999999


Q ss_pred             HHHHHhCCCCCCHHHHHHH
Q 004362          660 LLENIDKGFIPSLSTIGRV  678 (759)
Q Consensus       660 ~~~~~~~g~~p~~~~~~~l  678 (759)
                      .+.|.+  +.|-....-..
T Consensus       389 ae~mfK--Lk~P~WYLkS~  405 (1226)
T KOG4279|consen  389 AEMMFK--LKPPVWYLKST  405 (1226)
T ss_pred             HHHHhc--cCCceehHHHH
Confidence            999988  77654433333

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=83.59  E-value=35  Score=31.19  Aligned_cols=67  Identities=13%  Similarity=0.087  Sum_probs=52.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL  672 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  672 (759)
                      ..+.++..++...|++-++++.-.+.+... +-+...|..-+.+....-+.++|..=|.+.++  +.|..
T Consensus       231 pLllNy~QC~L~~~e~yevleh~seiL~~~-~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~--ldpsl  297 (329)
T KOG0545|consen  231 PLLLNYCQCLLKKEEYYEVLEHCSEILRHH-PGNVKAYFRRAKAHAAVWNEAEAKADLQKVLE--LDPSL  297 (329)
T ss_pred             HHHHhHHHHHhhHHHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHhhcCHHHHHHHHHHHHh--cChhh
Confidence            456677788888899999999988888662 34477777777788888888889888888888  77763

>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=83.54  E-value=52  Score=33.04  Aligned_cols=65  Identities=8%  Similarity=0.011  Sum_probs=38.4

Q ss_pred             CchhhHHHH---HHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH-HhcCChHHHHHHHHHHH
Q 004362          600 HTTATYNIM---INAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSF-CKTGGINSGYCLLLENI  664 (759)
Q Consensus       600 ~~~~~~~~l---~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~  664 (759)
                      .|...|.++   +..+.+.|.+..|.++.+-+...+..-|+......++.| .+.++++--+.+++...
T Consensus        98 eNR~fflal~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~  166 (360)
T PF04910_consen   98 ENRQFFLALFRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPL  166 (360)
T ss_pred             cchHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHh
Confidence            344444443   456667777888887777777554222555555566544 45566666666666543

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 [].

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=83.45  E-value=2.1  Score=26.97  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=11.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 004362          643 MIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       643 l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      |..+|...|+.+.|..++++.+.
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            44455555555555555555554

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=83.42  E-value=11  Score=28.64  Aligned_cols=62  Identities=6%  Similarity=-0.015  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          618 FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVIN  680 (759)
Q Consensus       618 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  680 (759)
                      .=++.+-++.+....+-|++.+..+.+.+|.+.+|+..|+++++-...+ ...+...|..++.
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            3345566666666688899999999999999999999999999977632 2223444544443

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.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=82.78  E-value=6.8  Score=40.28  Aligned_cols=85  Identities=11%  Similarity=-0.017  Sum_probs=36.3

Q ss_pred             CCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHH
Q 004362           53 HGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHK  132 (759)
Q Consensus        53 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  132 (759)
                      .|+...|.+.++.+....|.. .......++....+.|...+|-.++.+..... -..+.++..+++++.-..+.+.|++
T Consensus       620 ~gn~~~a~~cl~~a~~~~p~~-~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~~  697 (886)
T KOG4507|consen  620 VGNSTFAIACLQRALNLAPLQ-QDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGALE  697 (886)
T ss_pred             cCCcHHHHHHHHHHhccChhh-hcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHHH
Confidence            344555555555444443321 11122334444444444444544444433222 1223334444455555555555555


Q ss_pred             HHHHHHH
Q 004362          133 VYMRMRN  139 (759)
Q Consensus       133 ~~~~~~~  139 (759)
                      .|.+..+
T Consensus       698 ~~~~a~~  704 (886)
T KOG4507|consen  698 AFRQALK  704 (886)
T ss_pred             HHHHHHh
Confidence            5555444

>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=82.58  E-value=2.1  Score=23.21  Aligned_cols=19  Identities=21%  Similarity=0.163  Sum_probs=8.3

Q ss_pred             HHHHHHHhcCCHHHHHHHH
Q 004362          607 IMINAFSEKLNFYMAEKLF  625 (759)
Q Consensus       607 ~l~~~~~~~g~~~~A~~~~  625 (759)
                      .++.++...|++++|..++
T Consensus         6 ~la~~~~~~G~~~eA~~~l   24 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLL   24 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHH
Confidence            3444444444444444443

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

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=82.57  E-value=68  Score=34.83  Aligned_cols=57  Identities=12%  Similarity=0.086  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          324 YNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKA  382 (759)
Q Consensus       324 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  382 (759)
                      ..-++..|.+.|-.+.+.++.+.+-..-.  ...-|..-+..+.+.|+......+-..+
T Consensus       408 ~~k~l~iC~~~~L~~~a~~I~~~~~~~~~--~~~~~g~AL~~~~ra~d~~~v~~i~~~l  464 (566)
T PF07575_consen  408 AEKLLEICAELGLEDVAREICKILGQRLL--KEGRYGEALSWFIRAGDYSLVTRIADRL  464 (566)
T ss_dssp             HHHHHHHHHHHT-HHHHHHHHHHHHHHHH--HHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHH--HCCCHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            34444555555555555555444332211  1122334444444555544444443333

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.33  E-value=20  Score=27.55  Aligned_cols=47  Identities=13%  Similarity=0.192  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004362          514 DVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENK  560 (759)
Q Consensus       514 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  560 (759)
                      +..+-++.+...++.|++......+.+|.+.+++..|.++++-+..+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            44455556655667777777777777777777777777777777654

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 ....

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=82.08  E-value=11  Score=33.33  Aligned_cols=72  Identities=14%  Similarity=0.100  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCC--CCchhhHHHHHHHHHhcCCHHHH
Q 004362          549 EAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKI--SHTTATYNIMINAFSEKLNFYMA  621 (759)
Q Consensus       549 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A  621 (759)
                      .|.+.|-.+...+.-.++.....++..|. ..+.++++.++-++.+....  ..++..+..|+..+...|+++.|
T Consensus       124 ~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  124 EALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            34444444433332233333333333332 34444444444444433211  22344444444444444444444

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=81.85  E-value=27  Score=28.57  Aligned_cols=70  Identities=7%  Similarity=0.096  Sum_probs=54.5

Q ss_pred             CCCHhhHHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          634 PPDNYTYRIMIDSFCKTGG---INSGYCLLLENIDKGFIP--SLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       634 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      .+...+-..+.+++.++.+   ..+.+.+++...+. -.|  .....+.+.-.+++.++++++.++.+.+.+  ..|+
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~-~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~--~e~~  103 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKS-AHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE--TEPN  103 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhh-cCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh--hCCC
Confidence            5667778889999988765   66788999999862 334  345566777778999999999999999998  4555

>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=81.47  E-value=22  Score=31.55  Aligned_cols=72  Identities=14%  Similarity=0.029  Sum_probs=37.8

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhC---CCCCCHHHHHHHHHHHHhcCCHHHH
Q 004362          198 VEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKR---GVSPNLFTFNMFIQGLCRKGAISEA  270 (759)
Q Consensus       198 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a  270 (759)
                      +.|...|-++...+.--++.....|.. |....|.+++..++..+++.   +-.+|+..+.+|+..+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAt-yY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALAT-YYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHH-HHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            455566666555443333333333333 33345666666666655543   2244566666666666666666554

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.63  E-value=48  Score=30.69  Aligned_cols=93  Identities=9%  Similarity=0.060  Sum_probs=46.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCC----C-------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCh
Q 004362          464 FNTLIDGYCKQLKMEIAIEILNTMWSHGV----T-------PDVITYNSLLNGLCKAAKSEDVMETFKTMIEKR-CVPNI  531 (759)
Q Consensus       464 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~-------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~  531 (759)
                      -+.|...|...+.+....++++++.+.-.    .       .-...|..-+..|..+.+-.....+|++.+... -.|.+
T Consensus       148 NtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHP  227 (440)
T KOG1464|consen  148 NTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHP  227 (440)
T ss_pred             cchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCch
Confidence            34556666666666666666666543210    0       012345555566666666666666666655432 12332


Q ss_pred             hcHHHHHHHH-----HhcCCHHHHHHHHHHH
Q 004362          532 ITYSILGESL-----CKAHKITEAFNLLEEM  557 (759)
Q Consensus       532 ~~~~~l~~~~-----~~~~~~~~a~~~~~~~  557 (759)
                      . ....++-|     .+.|++++|..-|=++
T Consensus       228 l-ImGvIRECGGKMHlreg~fe~AhTDFFEA  257 (440)
T KOG1464|consen  228 L-IMGVIRECGGKMHLREGEFEKAHTDFFEA  257 (440)
T ss_pred             H-HHhHHHHcCCccccccchHHHHHhHHHHH
Confidence            2 22333333     3456676665443333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	759
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		3e-04

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 2/73 (2%)
Query: 517 ETFKTMIEKRCVPNIITYSILGESLCKAHKITE-AFNLLEEMENKGLTLDTVAFGTLING 575
           + FK MI  + VPN  T++  G  L  A    E AF+++++M+  G+     ++G  + G
Sbjct: 91  DIFKQMIVDKVVPNEATFTN-GARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFG 149
Query: 576 FCNSGDLDGAYQL 588
           FC  GD D AY++
Sbjct: 150 FCRKGDADKAYEV 162

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	759
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-18
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-15
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	1e-06
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	5e-06
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	5e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	1e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	2e-05
4g1t_A	472	Interferon-induced protein with tetratricopeptide	7e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 89.1 bits (219), Expect = 2e-18
 Identities = 35/232 (15%), Positives = 72/232 (31%), Gaps = 4/232 (1%)

Query: 200 AYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQ 259
           A  L D       SP      +L+     K ++   +    +  +  +S        F +
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 260 GLCRKGAISEAISLLDSL---GREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEG 316
                  +  A  LL       ++     +  YN +M G  +     E  Y L  + + G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 317 LEPDGFSYNAVIDGYCKAGMIS-SADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRA 375
           L PD  SY A +    +    + + ++ L     +G          L++   +   +   
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 376 MAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMW 427
             V          P  V  + L++ +  +   +   +L   +    C  +  
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQ 307

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 85.6 bits (210), Expect = 3e-17
 Identities = 20/230 (8%), Positives = 63/230 (27%), Gaps = 4/230 (1%)

Query: 305 AEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLIN 364
           A             P       ++        +                  +    +   
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 365 GLCQDGDVDRAMAV---YVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESG 421
                  +  A  +   +    +K    ++ +YN ++ G ++QG   + + ++  + ++G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 422 CCPDMWTYNIVINGLCKMG-CVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIA 480
             PD+ +Y   +  + +           +     +G          L+    +   ++  
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPN 530
            ++  T       P  +  + LL  +          +    +   +C+  
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 82.9 bits (203), Expect = 2e-16
 Identities = 21/191 (10%), Positives = 62/191 (32%), Gaps = 4/191 (2%)

Query: 415 NEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVN---DAISKGYIPDIFTFNTLIDGY 471
            + S++                     +  A++L+        K  +  +  +N ++ G+
Sbjct: 116 GQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGW 175

Query: 472 CKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMET-FKTMIEKRCVPN 530
            +Q   +  + +L  +   G+TPD+++Y + L  + +  +    +E   + M ++     
Sbjct: 176 ARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQ 235

Query: 531 IITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFR 590
            +  ++L     +A  +     +             V    L+             +L  
Sbjct: 236 ALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHL 295

Query: 591 RMEDQYKISHT 601
            ++    +   
Sbjct: 296 PLKTLQCLFEK 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 = 72.5 bits (176), Expect = 4e-13
 Identities = 24/160 (15%), Positives = 53/160 (33%), Gaps = 4/160 (2%)

Query: 86  YGRRGKVQEAVDVFER---MDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGI 142
                ++  A  +              T+  YN +M      G F ++  V   +++ G+
Sbjct: 137 CLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGL 196

Query: 143 VPDVYTFVIRIKSFCR-TRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAY 201
            PD+ ++   ++   R  +      R L+ M  +G +  A+    L++           +
Sbjct: 197 TPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVH 256

Query: 202 ELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNK 241
           ++          P     +KL+  +  K       KL   
Sbjct: 257 KVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLP 296

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 72.5 bits (176), Expect = 4e-13
 Identities = 28/188 (14%), Positives = 58/188 (30%), Gaps = 6/188 (3%)

Query: 23  ALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGV--HI 80
           A    +S  +  G +  LL +                 +LL+          L  +  + 
Sbjct: 113 APSGQHSQAQLSGQQQRLLAF---FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYN 169

Query: 81  GVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYM-RMRN 139
            VM  + R+G  +E V V   +      P +LSY   +  +      +   +  + +M  
Sbjct: 170 AVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQ 229

Query: 140 KGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVE 199
           +G+        + +    R        ++          P  V    L+   Y ++  V 
Sbjct: 230 EGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVS 289

Query: 200 AYELFDEM 207
             +L   +
Sbjct: 290 YPKLHLPL 297

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 72.2 bits (175), Expect = 4e-13
 Identities = 53/455 (11%), Positives = 127/455 (27%), Gaps = 24/455 (5%)

Query: 131 HKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLL---KNMPSQGFEPNAVAYCTL 187
                +     +       +   K    T +  +A  LL        +        Y  +
Sbjct: 112 QAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAV 171

Query: 188 IAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRES-EKLFNKVLKRG 246
           + G+  +    E   +   +   G++PD+ ++   +  + ++     + E+   ++ + G
Sbjct: 172 MLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEG 231

Query: 247 VSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAE 306
           +        + +    R   +     +  +       P  V  + L+    ++    +  
Sbjct: 232 LKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLL----RDVYAKDGR 287

Query: 307 YYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGL 366
               K+              +         + S +K       K       T  +L +  
Sbjct: 288 VSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEK--PTLPSKEVKHARKTLKTLRD-- 343

Query: 367 CQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDM 426
             +  + RA+      LE+ +          +  L ++ ++   LQ++  +   G     
Sbjct: 344 QWEKALCRALRETKNRLEREVYEGRFSLYPFLCLLDEREVVRMLLQVLQALPAQGESFTT 403

Query: 427 WTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEI------A 480
               +      +        +    A+   Y   +    +  +     L  +        
Sbjct: 404 LARELSARTFSRHVVQRQRVSGQVQALQNHYRKYLCLLASDAEVPEPCLPRQYWEALGAP 463

Query: 481 IEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPN-IITYSILGE 539
             +    W   V  ++     L   L +A +    ++        R VP     YS    
Sbjct: 464 EALREQPWPLPVQMELGKL--LAEMLVQATQMPCSLDKPHRS--SRLVPVLYHVYSFRNV 519

Query: 540 SLCKAHKITEAF-NLLEEMENKGLTLDTVAFGTLI 573
                 K   A+  LLE+     LT + V    L 
Sbjct: 520 QQIGILKPHPAYVQLLEKAAEPTLTFEAVDVPMLC 554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 69.8 bits (169), Expect = 2e-12
 Identities = 13/100 (13%), Positives = 30/100 (30%), Gaps = 2/100 (2%)

Query: 554 LEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH--TTATYNIMINA 611
             +     L+               +  L  A+ L      Q +     T   YN ++  
Sbjct: 115 SGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLG 174

Query: 612 FSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTG 651
           ++ +  F     + + + + G  PD  +Y   +    +  
Sbjct: 175 WARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQD 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 = 68.3 bits (165), Expect = 7e-12
 Identities = 17/195 (8%), Positives = 51/195 (26%), Gaps = 3/195 (1%)

Query: 459 PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKA---AKSEDV 515
           P       L+     +L +++            ++       +             +  +
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 516 METFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLING 575
           +       +KR +  +  Y+ +     +     E   +L  +++ GLT D +++   +  
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP 635
                   G  +       Q  +        ++++            K+    S     P
Sbjct: 210 MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLP 269

Query: 636 DNYTYRIMIDSFCKT 650
                  ++      
Sbjct: 270 PPVNTSKLLRDVYAK 284

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.9 bits (99), Expect = 4e-04
 Identities = 14/117 (11%), Positives = 35/117 (29%), Gaps = 1/117 (0%)

Query: 23  ALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGV 82
            + +   VK + G    LL+Y   +  +G            LE        L       +
Sbjct: 184 LVYVLFMVK-DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVL 242

Query: 83  MRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRN 139
           +    R   ++    V          P  ++ + ++  +          K+++ ++ 
Sbjct: 243 LSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKT 299

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 79.5 bits (195), Expect = 2e-15
 Identities = 107/761 (14%), Positives = 216/761 (28%), Gaps = 258/761 (33%)

Query: 24  LEMF-NSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGV 82
           L +F ++       K      K ++ K       EE++++++          L       
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMPKSILSK-------EEIDHIIMSKDAVSGTLRL----FWT 70

Query: 83  MRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMN-ILVEYGYFSQVHKVYMRMRNKG 141
           + +      VQ+ V+   R++          Y  +M+ I  E    S + ++Y+  R++ 
Sbjct: 71  LLSKQEEM-VQKFVEEVLRIN----------YKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119

Query: 142 I-VPDVYT--FVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNV 198
                V+    V R++ + + R+   AL  L+         N +       G        
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQ---ALLELRP------AKNVLID-----G-------- 157

Query: 199 EAYELFDEMLGMGISPDIATFNK--LIHTLCKKGNVRESEKLFNKV----LKRGVSPNLF 252
                   +LG G         K  +   +C    V+   K+  K+    LK   SP   
Sbjct: 158 --------VLGSG---------KTWVALDVCLSYKVQC--KMDFKIFWLNLKNCNSPETV 198

Query: 253 TFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTY--NTLMCGL----C-------KN 299
              +  Q L  +       S  D      L    +      L+       C       +N
Sbjct: 199 LEML--QKLLYQ-IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN 255

Query: 300 SKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTY 359
           +K   A                F      +  CK  ++++  K + D +         + 
Sbjct: 256 AKAWNA----------------F------NLSCKI-LLTTRFKQVTDFL-SAATTTHISL 291

Query: 360 CSLINGLCQDGDVDRAMAVYVKALE---KGLKPSIVLYNTLIKGLSQQGLILQALQLMNE 416
                 L  D       ++ +K L+   + L   ++  N               L ++ E
Sbjct: 292 DHHSMTLTPD----EVKSLLLKYLDCRPQDLPREVLTTNPR------------RLSIIAE 335

Query: 417 MSESGCCPDMWTY--NIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQ 474
               G     W    ++  + L  +  +  + N++  A  +     +  F          
Sbjct: 336 SIRDG--LATWDNWKHVNCDKLTTI--IESSLNVLEPAEYRKMFDRLSVFP-------PS 384

Query: 475 LKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETF--KTMIEKRCVPNII 532
               I   +L+ +W   +  DV                  V+      +++EK+  P   
Sbjct: 385 AH--IPTILLSLIWFDVIKSDV----------------MVVVNKLHKYSLVEKQ--PKES 424

Query: 533 TYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRM 592
           T SI          I     L  ++EN+                         Y L R +
Sbjct: 425 TISI--------PSI--YLELKVKLENE-------------------------YALHRSI 449

Query: 593 EDQYKIS-----------------------H-TTATYNIMINAFSEK-LNF-YMAEKLFY 626
            D Y I                        H     +   +  F    L+F ++ +K+ +
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRH 509

Query: 627 EMSEKGCPP-------DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVI 679
           + +                 Y+      C            + +    F+P +       
Sbjct: 510 DSTAWNASGSILNTLQQLKFYK---PYICDNDPKYERLVNAILD----FLPKIEE----- 557

Query: 680 NCLCVDHRVHEAVGFVHLMVQKGIVPEVVNTIFEADKREVA 720
           N +C  +           +++  ++ E    IFE   ++V 
Sbjct: 558 NLICSKYTD---------LLRIALMAE-DEAIFEEAHKQVQ 588

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 51.2 bits (122), Expect = 1e-06
 Identities = 46/292 (15%), Positives = 83/292 (28%), Gaps = 41/292 (14%)

Query: 317 LEPD-GFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEF-TYCSLINGLCQDGDVDR 374
           L P    +  +   G      +     +L  A   G  P +     S   G      + R
Sbjct: 187 LTPAQVVAIASNNGGKQALETVQRLLPVLCQAH--GLTPAQVVAIASHDGGKQALETMQR 244

Query: 375 AMAVYVKALEKGLKPS-IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDM-WTYNIV 432
            + V  +A    L P  +V   + I G      + + L ++ +       PD        
Sbjct: 245 LLPVLCQAHG--LPPDQVVAIASNIGGKQALETVQRLLPVLCQAHGLT--PDQVVAIASH 300

Query: 433 INGLCKMGCVSDANNLVNDAISKGYIPD-IFTFNTLIDGYCKQLKMEIAIEILNTMWSHG 491
             G   +  V     ++  A   G  PD +    +   G      ++  + +L    +HG
Sbjct: 301 GGGKQALETVQRLLPVLCQAH--GLTPDQVVAIASHDGGKQALETVQRLLPVLCQ--AHG 356

Query: 492 VTPD-VITYNSLLNGLCKAAKSEDVMETFKTMIE-----------KRCVPNIITYSILGE 539
           +TPD V+   S   G       + ++                         + T   L  
Sbjct: 357 LTPDQVVAIASNGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASNGGKQALETVQRLLP 416

Query: 540 SLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRR 591
            LC+AH +T                  VA  +   G      +     +  +
Sbjct: 417 VLCQAHGLT--------------PDQVVAIASHDGGKQALETVQRLLPVLCQ 454

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 49.3 bits (117), Expect = 5e-06
 Identities = 65/456 (14%), Positives = 124/456 (27%), Gaps = 66/456 (14%)

Query: 180 NAVAYCTLIAGFYE-ENHNVEAYELFDEMLGMGISPD-IATFNKLIHTLCKKGNVRESEK 237
             VA  +   G    E        +  +  G  ++P  +               ++    
Sbjct: 191 QVVAIASNNGGKQALETVQ-RLLPVLCQAHG--LTPAQVVAIASHDGGKQALETMQRLLP 247

Query: 238 LFNKVLKRGVSPNLF-TFNMFIQGLCRKGAISEAISLLDSLGREDLTPD-VVTYNTLMCG 295
           +  +    G+ P+        I G      +   + +L       LTPD VV   +   G
Sbjct: 248 VLCQAH--GLPPDQVVAIASNIGGKQALETVQRLLPVLCQAHG--LTPDQVVAIASHGGG 303

Query: 296 LCKNSKVVEAEYYLHKMVNEGLEPD-GFSYNAVIDGYCKAGMISSADKILNDAIFKGFVP 354
                 V      L +    GL PD   +  +   G      +     +L  A   G  P
Sbjct: 304 KQALETVQRLLPVLCQAH--GLTPDQVVAIASHDGGKQALETVQRLLPVLCQAH--GLTP 359

Query: 355 DEF-TYCSLINGLCQDGDVDRAMAVYVKALEKGLKP--SIVLYNTL-------------- 397
           D+     S   G      V R + V  +A   GL P   + + +                
Sbjct: 360 DQVVAIASNGGGKQALETVQRLLPVLCQAH--GLTPDQVVAIASNGGKQALETVQRLLPV 417

Query: 398 -----------IKGLSQQGLILQALQLMNEMSES-----GCCPD-MWTYNIVINGLCKMG 440
                      +  ++      QAL+ +  +        G  P  +        G   + 
Sbjct: 418 LCQAHGLTPDQVVAIASHDGGKQALETVQRLLPVLCQTHGLTPAQVVAIASHDGGKQALE 477

Query: 441 CVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD-VITY 499
            V     ++  A        +    + I G      ++  + +L    +HG+TPD V+  
Sbjct: 478 TVQQLLPVLCQAHGLTP-DQVVAIASNIGGKQALATVQRLLPVLCQ--AHGLTPDQVVAI 534

Query: 500 NSLLNGLCKAAKSEDVMETFKTMIEKRCVP-NIITYSILGESLCKAHKITEAFNLLEEME 558
            S   G       + ++            P  ++  +  G        +         + 
Sbjct: 535 ASNGGGKQALETVQRLLPVLCQAHG--LTPDQVVAIASNGGGKQALETVQRL----LPVL 588

Query: 559 NKGLTLDT---VAFGTLINGFCNSGDLDGAYQLFRR 591
            +   L     VA  + I G      +     +  +
Sbjct: 589 CQAHGLTQVQVVAIASNIGGKQALETVQRLLPVLCQ 624

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 42.3 bits (99), Expect = 5e-04
 Identities = 39/240 (16%), Positives = 72/240 (30%), Gaps = 20/240 (8%)

Query: 180 NAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLF 239
             VA  +   G        +   +  +  G+     +A  + +         V+    + 
Sbjct: 462 QVVAIASHDGGKQALETVQQLLPVLCQAHGLTPDQVVAIASNIG-GKQALATVQRLLPVL 520

Query: 240 NKVLKRGVSPNLFTFNMFIQGLCRK--GAISEAI-SLLDSLGREDLTPD-VVTYNTLMCG 295
            +    G++P+     +   G  ++    +   +  L  + G   LTPD VV   +   G
Sbjct: 521 CQAH--GLTPD-QVVAIASNGGGKQALETVQRLLPVLCQAHG---LTPDQVVAIASNGGG 574

Query: 296 LCKNSKVVEAEYYLHKMVNEGLEPD-GFSYNAVIDGYCKAGMISSADKILNDAIFKGFVP 354
                 V      L +    GL      +  + I G      +     +L  A   G  P
Sbjct: 575 KQALETVQRLLPVLCQAH--GLTQVQVVAIASNIGGKQALETVQRLLPVLCQAH--GLTP 630

Query: 355 DEF-TYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS-IVLYNTLIKGLSQQGLILQALQ 412
            +     S   G      V R + V  +A    L P  +V   +   G      + + L 
Sbjct: 631 AQVVAIASHDGGKQALETVQRLLPVLCQAHG--LTPDQVVAIASNGGGKQALETVQRLLP 688

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 47.8 bits (114), Expect = 1e-05
 Identities = 55/391 (14%), Positives = 103/391 (26%), Gaps = 67/391 (17%)

Query: 180 NAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIA-TFNKLIHTLCKKGNVRESEKL 238
             VA  +   G            +  +  G  ++P+                 V+    +
Sbjct: 105 QVVAIASHDGGKQALETVQRLLPVLCQAHG--LTPEQVVAIASHDGGKQALETVQALLPV 162

Query: 239 FNKVLKRGVSPNLF-TFNMFIQGLCRKGAISEAISLLD-SLGREDLTPD-VVTYNTLMCG 295
             +    G++P           G      +   + +L  + G   LTP  VV   +   G
Sbjct: 163 LCQAH--GLTPEQVVAIASNGGGKQALETVQRLLPVLCQAHG---LTPQQVVAIASNGGG 217

Query: 296 LCKNSKVVEAEYYLHKMVNEGLEPD--------GFSYNAV------IDGYCKA------- 334
                 V      L +    GL P         G    A+      +   C+A       
Sbjct: 218 KQALETVQRLLPVLCQAH--GLTPQQVVAIASNGGGKQALETVQRLLPVLCQAHGLTPQQ 275

Query: 335 -------GMISSADKILNDAI--FK---GFVPDEF-TYCSLINGLCQDGDVDRAMAVYVK 381
                       A + +   +       G  P +     S   G      V R + V  +
Sbjct: 276 VVAIASNSGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNGGGKQALETVQRLLPVLCQ 335

Query: 382 ALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES-----GCCPDM-WTYNIVING 435
           A    L P        +  ++      QAL+ +  +        G  P+          G
Sbjct: 336 AHG--LTP------QQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPEQVVAIASNGGG 387

Query: 436 LCKMGCVSDANNLVNDAISKGYIPD-IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTP 494
              +  V     ++  A      P+ +    +   G      ++  + +L    +HG+TP
Sbjct: 388 KQALETVQRLLPVLCQAHG--LTPEQVVAIASHDGGKQALETVQRLLPVLCQ--AHGLTP 443

Query: 495 D-VITYNSLLNGLCKAAKSEDVMETFKTMIE 524
             V+   S   G          +      + 
Sbjct: 444 QQVVAIASNGGGRPALESIVAQLSRPDPALA 474

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 34/264 (12%), Positives = 76/264 (28%), Gaps = 31/264 (11%)

Query: 340 ADKILNDAIFKGFVPDEF-TYCSLINGLCQDGDVDRAMAVYVKALEKGLKP-SIVLYNTL 397
            + +    +     P++     S   G      V R + V  +A    L P  +V   + 
Sbjct: 57  RNALTGAPL--NLTPEQVVAIASHDGGKQALETVQRLLPVLCQAHG--LTPQQVVAIASH 112

Query: 398 IKGLSQQGLILQALQLMN---EMSESGCCPDM-WTYNIVINGLCKMGCVSDANNLVNDAI 453
             G      + + L ++     ++     P+          G   +  V     ++  A 
Sbjct: 113 DGGKQALETVQRLLPVLCQAHGLT-----PEQVVAIASHDGGKQALETVQALLPVLCQAH 167

Query: 454 SKGYIPD-IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD-VITYNSLLNGLCKAAK 511
             G  P+ +    +   G      ++  + +L    +HG+TP  V+   S   G      
Sbjct: 168 --GLTPEQVVAIASNGGGKQALETVQRLLPVLCQ--AHGLTPQQVVAIASNGGGKQALET 223

Query: 512 SEDVMETFKTMIEKRCVPN-IITYSILGESLCKAHKITEAFNLLEEMENKGLTLD---TV 567
            + ++            P  ++  +  G        +     +L     +   L     V
Sbjct: 224 VQRLLPVLCQAHGLT--PQQVVAIASNGGGKQALETVQRLLPVL----CQAHGLTPQQVV 277

Query: 568 AFGTLINGFCNSGDLDGAYQLFRR 591
           A  +   G      +     +  +
Sbjct: 278 AIASNSGGKQALETVQRLLPVLCQ 301

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens} Length = 472

 Score = 41.8 bits (98), Expect = 7e-04
 Identities = 32/245 (13%), Positives = 67/245 (27%), Gaps = 38/245 (15%)

Query: 180 NAVAYC----TLIAGFYEENHNVEAYELFDEMLGMGISPDIA-TFNKLIHTLCKKGNVRE 234
           N          L     E     E  +L +E L    +P +            +K    +
Sbjct: 208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALE--KAPGVTDVLRSAAKFYRRKDEPDK 265

Query: 235 SEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMC 294
           + +L  K L+    PN   +     G C +  + + ++L ++                  
Sbjct: 266 AIELLKKALE--YIPN-NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRK----------- 311

Query: 295 GLCKNSKVVEAEYYLHKMVNEGLEPD-GFSYNAVIDGYCKAGMISSADKILNDAIFKGFV 353
                  +  A  +L K        +     + +   +  A     A+        K   
Sbjct: 312 ---LLELIGHAVAHLKKADE--ANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELT 366

Query: 354 PDE-----FTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLIL 408
           P         Y +    L Q    D+A+  +++ ++  +         +   L  Q +  
Sbjct: 367 PVAKQLLHLRYGNF--QLYQMKCEDKAIHHFIEGVK--INQKSREKEKMKDKL--QKIAK 420

Query: 409 QALQL 413
             L  
Sbjct: 421 MRLSK 425

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	759
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	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.91
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.85
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.84
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.82
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.81
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.81
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.8
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.79
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.79
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.76
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.73
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.73
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.71
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.7
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.7
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.69
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.69
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.68
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.68
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.67
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.66
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.66
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.66
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.65
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.65
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.64
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.63
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.62
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.62
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.62
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.61
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.6
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.6
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.59
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.58
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.57
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.56
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.55
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.55
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.55
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.54
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.53
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.53
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.52
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.5
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.5
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.49
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.49
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.45
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.45
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.44
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.41
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.41
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.39
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.38
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.36
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.34
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.32
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.3
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.29
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.29
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.29
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.28
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.26
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.26
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.25
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.22
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.2
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.19
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.18
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.17
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.16
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.16
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.16
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.15
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.15
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.14
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.14
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.13
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.12
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.12
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.11
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.09
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.08
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.08
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.08
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.08
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.05
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.03
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.03
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.01
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.0
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.97
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.96
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.94
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.94
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.92
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.92
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.92
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.92
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.91
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.9
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.9
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.9
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.89
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.87
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.87
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.86
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.85
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.85
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.85
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.83
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.83
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.82
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.82
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.81
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.8
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.8
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.8
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.79
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.79
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.78
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.78
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.78
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.77
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.77
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.77
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.74
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.73
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.72
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.72
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.72
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.68
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.67
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.64
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.64
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.63
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.62
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.62
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.61
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.54
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.53
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.53
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.53
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.53
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.51
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.48
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.47
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.47
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.47
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.47
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.47
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.46
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.46
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.45
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.43
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.42
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.4
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.39
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.38
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.38
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.34
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.33
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.33
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.3
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.3
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.28
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.25
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.13
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.12
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.12
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.04
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.04
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.03
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.03
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.02
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.96
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.91
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.9
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.82
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.74
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.71
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.64
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.61
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.55
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.53
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.46
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.46
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.36
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.29
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.2
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.11
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.05
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.89
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.73
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.66
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.64
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.48
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.46
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.46
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.29
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.2
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.15
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.07
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.01
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.88
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.79
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.63
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.44
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.38
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.08
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.02
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.87
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	94.42
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.1
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.03
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.96
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	93.85
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.83
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.55
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.51
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.33
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.17
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	93.13
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	92.22
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.54
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.23
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.81
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.63
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.43
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.94
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	87.21
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	85.94
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	84.36
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	84.27
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	83.86
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	83.2
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	80.07

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2e-39  Score=354.11  Aligned_cols=524  Identities=10%  Similarity=-0.055  Sum_probs=376.2

Q ss_pred             HHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhH
Q 004362           86 YGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVA  165 (759)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  165 (759)
                      +.+.|.+..+...+..+.    .+++..|+.++..|.+.|++++|..+|+++...  .|+..++..++.+|.+.|++++|
T Consensus        63 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A  136 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDS----LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARA  136 (597)
T ss_dssp             -----------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccccCccCCCCCccccch----HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHH
Confidence            345566666666666554    467888999999999999999999999999864  47888888999999999999999


Q ss_pred             HHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhC
Q 004362          166 LRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKR  245 (759)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  245 (759)
                      ..+|+.+...  +++..+++.++..|.+.|++++|+++|+++..     +..    ....+.+.++           ...
T Consensus       137 ~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~----~~~~~~~~~~-----------~~~  194 (597)
T 2xpi_A          137 KCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNP-----FRK----DEKNANKLLM-----------QDG  194 (597)
T ss_dssp             HHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCT-----TC--------------C-----------CCS
T ss_pred             HHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCC-----ccc----cccccccccc-----------ccc
Confidence            9999988654  57888999999999999999999999985321     110    0001111111           112


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHH--HH-HHHHHHCCCCCChh
Q 004362          246 GVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAE--YY-LHKMVNEGLEPDGF  322 (759)
Q Consensus       246 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~--~~-~~~~~~~~~~~~~~  322 (759)
                      +.+++..+|+.++.+|.+.|++++|.+.|+++.+.+ +.+...+..+...+...+..+.+.  .+ +..+...+..+...
T Consensus       195 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  273 (597)
T 2xpi_A          195 GIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRS  273 (597)
T ss_dssp             SCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHH
Confidence            344456666777777777777777777777766543 223334444443333222221111  11 34444443344445


Q ss_pred             cHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 004362          323 SYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLS  402 (759)
Q Consensus       323 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  402 (759)
                      +|..++..|.+.|++++|.++|+.+...  +++..+++.++..|.+.|++++|..+|+++.+.++. +..+++.++.++.
T Consensus       274 ~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~  350 (597)
T 2xpi_A          274 LYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLH  350 (597)
T ss_dssp             HHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHH
T ss_pred             HHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHH
Confidence            5666677777888888888888877665  467778888888888888888888888888877654 6777888888888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 004362          403 QQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIE  482 (759)
Q Consensus       403 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  482 (759)
                      +.|++++|..+++++.... +.+..++..++..|.+.|++++|..+|+++.+.. +.+..+|+.++..|.+.|++++|.+
T Consensus       351 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  428 (597)
T 2xpi_A          351 ESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAIS  428 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            8888888888888887653 3467778888888888888888888888887653 4467788888888888888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC--
Q 004362          483 ILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENK--  560 (759)
Q Consensus       483 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--  560 (759)
                      +|+++.+.+ +.+..+|..++.+|.+.|++++|.++|+++.+.. +.+..++..++..|.+.|++++|..+|+++.+.  
T Consensus       429 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  506 (597)
T 2xpi_A          429 AYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVK  506 (597)
T ss_dssp             HHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhh
Confidence            888888764 3467788888888888889999999888888764 346778888888888999999999998888765  


Q ss_pred             --CCCcc--HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004362          561 --GLTLD--TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD  636 (759)
Q Consensus       561 --~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  636 (759)
                        +..|+  ..+|..++.+|.+.|++++|.+.|+++.+.  .|++..+|..++.+|...|++++|.+.|+++.+.. +.+
T Consensus       507 ~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-p~~  583 (597)
T 2xpi_A          507 KTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLL--STNDANVHTAIALVYLHKKIPGLAITHLHESLAIS-PNE  583 (597)
T ss_dssp             HSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             ccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCC
Confidence              45666  778899999999999999999999999888  68888999999999999999999999999998763 334


Q ss_pred             HhhHHHHHHHHH
Q 004362          637 NYTYRIMIDSFC  648 (759)
Q Consensus       637 ~~~~~~l~~~~~  648 (759)
                      ...+..+..+|.
T Consensus       584 ~~~~~~l~~~~~  595 (597)
T 2xpi_A          584 IMASDLLKRALE  595 (597)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHh
Confidence            777777776553

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.9e-39  Score=354.23  Aligned_cols=487  Identities=11%  Similarity=0.005  Sum_probs=371.6

Q ss_pred             HHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 004362          181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQG  260 (759)
Q Consensus       181 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  260 (759)
                      ...|+.++..+.+.|++++|+.+|+++...  .|+..++..++.+|.+.|++++|..+|+.+...  +++..+++.++.+
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  159 (597)
T 2xpi_A           84 EDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFC  159 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHH
Confidence            444444444444444444444444444432  234344444444444444444444444444322  3344444444444


Q ss_pred             HHhcCCHHHHHHHHHHHh---------------hCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHH
Q 004362          261 LCRKGAISEAISLLDSLG---------------REDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYN  325 (759)
Q Consensus       261 ~~~~g~~~~a~~~~~~~~---------------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  325 (759)
                      |.+.|++++|.++|+++.               ..+.+++..+|+.++.+|.+.|++++|...|+++.+.+.. +...+.
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~  238 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFD  238 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHH
Confidence            444444444444444221               1233457889999999999999999999999999986422 444555


Q ss_pred             HHHHHHHHcCChhH--HHHH-HHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 004362          326 AVIDGYCKAGMISS--ADKI-LNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLS  402 (759)
Q Consensus       326 ~ll~~~~~~~~~~~--a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  402 (759)
                      .+...+...+..+.  +..+ +..+...+..+...+++.++..|.+.|++++|..+|+++.+.  +++..+|+.++..|.
T Consensus       239 ~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          239 QLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHH
T ss_pred             HHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHH
Confidence            55544433322222  1111 444554444445556777788999999999999999998876  469999999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 004362          403 QQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIE  482 (759)
Q Consensus       403 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  482 (759)
                      +.|++++|..+|+++.+.+. .+..++..++.++...|++++|..+++.+.... +.+..+++.++..|.+.|++++|.+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHH
Confidence            99999999999999998753 377789999999999999999999999998654 5578899999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004362          483 ILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGL  562 (759)
Q Consensus       483 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  562 (759)
                      +|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|...|++++|..+|+++.+. .
T Consensus       395 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~  471 (597)
T 2xpi_A          395 YFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL-F  471 (597)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C
Confidence            999998753 3468899999999999999999999999999874 457889999999999999999999999999986 4


Q ss_pred             CccHHHHHHHHHHHHccCChhhHHHHHHHHHHc----cCCCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004362          563 TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ----YKISHT-TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDN  637 (759)
Q Consensus       563 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  637 (759)
                      +.+..+|..++.+|.+.|++++|+++|+++.+.    ...|.+ ..+|..++.+|...|++++|++.++++.+.+ +.+.
T Consensus       472 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~  550 (597)
T 2xpi_A          472 QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDA  550 (597)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCH
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCh
Confidence            568899999999999999999999999999876    224443 7899999999999999999999999999774 4469


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          638 YTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       638 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      .+|..++.+|...|++++|..+++++++  +.|++......+..+
T Consensus       551 ~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~l~~~  593 (597)
T 2xpi_A          551 NVHTAIALVYLHKKIPGLAITHLHESLA--ISPNEIMASDLLKRA  593 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCChHHHHHHHHH
Confidence            9999999999999999999999999999  889877666555544

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1.6e-27  Score=244.40  Aligned_cols=364  Identities=15%  Similarity=0.044  Sum_probs=212.2

Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHH
Q 004362          295 GLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDR  374 (759)
Q Consensus       295 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  374 (759)
                      .+.+.|++++|...+..+.... +.+...+..+...+...|+++.|...++.+.... +.+...+..+...+.+.|++++
T Consensus         8 ~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~   85 (388)
T 1w3b_A            8 REYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            3444555555555555554431 1123334444445555555555555555555432 2244455555566666666666


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004362          375 AMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAIS  454 (759)
Q Consensus       375 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  454 (759)
                      |...|+++....+. +...|..+..++...|++++|...|+++.+.. +.+...+..+...+...|++++|...|+++..
T Consensus        86 A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  163 (388)
T 1w3b_A           86 AIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            66666665554332 44455556666666666666666666555542 11233444555555556666666666666555


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcH
Q 004362          455 KGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITY  534 (759)
Q Consensus       455 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  534 (759)
                      .. +.+..++..+...+...|++++|...|+++.+.+ +.+...+..+..++...|++++|+..|++..... +.+..++
T Consensus       164 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  240 (388)
T 1w3b_A          164 TQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHH
Confidence            42 2345556666666666666666666666666543 2245556666666666666666666666666542 2245566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh
Q 004362          535 SILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE  614 (759)
Q Consensus       535 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  614 (759)
                      ..++.++...|++++|...++++.+. .+.+..++..++.++.+.|++++|+..|+++.+.  .|++..++..++.++..
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~  317 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIEL-QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT-CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHH
Confidence            66666666666666666666666664 2334556666666666667777777777766666  56666666666777777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          615 KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      .|++++|+..++++.+.. +.+..++..++.++...|++++|+..++++++  +.|+
T Consensus       318 ~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~  371 (388)
T 1w3b_A          318 QGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPT  371 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTT
T ss_pred             cCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCC
Confidence            777777777777666431 22356666666666777777777777777666  5565

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1.8e-27  Score=243.98  Aligned_cols=378  Identities=14%  Similarity=0.074  Sum_probs=232.2

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHH
Q 004362          261 LCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSA  340 (759)
Q Consensus       261 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  340 (759)
                      +.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++...... +.+..+|..+...+.+.|++++|
T Consensus         9 ~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A   86 (388)
T 1w3b_A            9 EYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            334444455544444443331 2222333333444444555555555554444431 22344455555555555555555


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004362          341 DKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSES  420 (759)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  420 (759)
                      ...|+++.... +.+...+..++.++.+.|++++|...|.++.+..+. +...+..+...+...|++++|...|+++...
T Consensus        87 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  164 (388)
T 1w3b_A           87 IEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            55555554432 112334555555555555555555555555554333 3444555555555556666666666555554


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004362          421 GCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYN  500 (759)
Q Consensus       421 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  500 (759)
                      . +.+..++..+...+...|++++|...|+++.... +.+...+..+...+...|++++|...+++..... +.+..++.
T Consensus       165 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  241 (388)
T 1w3b_A          165 Q-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHH
Confidence            2 2234555556666666666666666666665543 3345566666677777777777777777766643 22466677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC
Q 004362          501 SLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG  580 (759)
Q Consensus       501 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  580 (759)
                      .+..++...|++++|++.|+++.+.+ +.+..++..++.++...|++++|...++++.+. .+.+..++..++.++...|
T Consensus       242 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g  319 (388)
T 1w3b_A          242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcC
Confidence            77777777777777777777777653 234566777777777888888888888887775 4567777888888888888


Q ss_pred             ChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcC
Q 004362          581 DLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTG  651 (759)
Q Consensus       581 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  651 (759)
                      ++++|+..|+++.+.  .|++..++..++.+|...|++++|+..|+++.+.  .|+ ...|..++.++...|
T Consensus       320 ~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          320 NIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             CHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHhHHHHHHHcc
Confidence            888888888888776  6777888888888888888888888888888754  454 677777777766655

>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=99.95  E-value=6.5e-27  Score=242.12  Aligned_cols=185  Identities=14%  Similarity=0.216  Sum_probs=130.3

Q ss_pred             HHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcC---------ChhHHHHHHHHHHhCCCCCChhhH
Q 004362          149 FVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEEN---------HNVEAYELFDEMLGMGISPDIATF  219 (759)
Q Consensus       149 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---------~~~~a~~~~~~~~~~~~~~~~~~~  219 (759)
                      ++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|.+.+         +.+.|.++|++|...|+.||..||
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            34444444444444444444444444444444444444444444333         346677777777777777788888


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhC
Q 004362          220 NKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKN  299 (759)
Q Consensus       220 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  299 (759)
                      +.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            88888888888888888888888777777788888888888888888888888888887777777888888888888888


Q ss_pred             CChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHH
Q 004362          300 SKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCK  333 (759)
Q Consensus       300 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  333 (759)
                      |++++|.++|++|.+.+..|+..||+.++..|..
T Consensus       189 g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          189 KNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            8888888888888777777788888777777665

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=1.2e-24  Score=232.57  Aligned_cols=457  Identities=11%  Similarity=0.002  Sum_probs=242.7

Q ss_pred             HHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 004362          181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQG  260 (759)
Q Consensus       181 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  260 (759)
                      ...+......+.+.|++++|+..|+++.+.+  |+...+..+..++.+.|++++|...++++++.+ +.+...+..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            3455556666666677777777777766653  466666666666666677777777666666553 2245566666666


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHH
Q 004362          261 LCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSA  340 (759)
Q Consensus       261 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  340 (759)
                      +...|++++|...|+.+...+ +++......++..+........+.+.+..+...+..|+...+..-........     
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----  156 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQE-----  156 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC--------------------------------
T ss_pred             HHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhcc-----
Confidence            666666666666666666554 23333333333333332222222222222222211111111110000000000     


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh---cCCHHHHHHHHHHH
Q 004362          341 DKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQ---QGLILQALQLMNEM  417 (759)
Q Consensus       341 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~  417 (759)
                                 ..|+....    ..+...........      ....+.+...+......+..   .|++++|...++++
T Consensus       157 -----------~~~~~~~~----~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  215 (514)
T 2gw1_A          157 -----------NLPSVTSM----ASFFGIFKPELTFA------NYDESNEADKELMNGLSNLYKRSPESYDKADESFTKA  215 (514)
T ss_dssp             -----------CCCCHHHH----HHHHTTSCCCCCCS------SCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHH
T ss_pred             -----------CCchhHHH----HHHHhhcCHHHHHH------HhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence                       01111000    00000000000000      00001123333333333333   56677777777666


Q ss_pred             Hh-----CCCCC--------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 004362          418 SE-----SGCCP--------DMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEIL  484 (759)
Q Consensus       418 ~~-----~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  484 (759)
                      ..     ....|        +..++..+...+...|++++|...++.+.....  +...+..+...|...|++++|...+
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~  293 (514)
T 2gw1_A          216 ARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFP--RVNSYIYMALIMADRNDSTEYYNYF  293 (514)
T ss_dssp             HHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHTSSCCTTGGGHH
T ss_pred             HHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCc--cHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            65     21111        233455556666666667777666666665532  2556666666666677777777777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 004362          485 NTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTL  564 (759)
Q Consensus       485 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  564 (759)
                      +++.... +.+...+..+..++...|++++|+..|+++.+.. +.+...+..++..+...|++++|...++++.+. .+.
T Consensus       294 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~  370 (514)
T 2gw1_A          294 DKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK-FPE  370 (514)
T ss_dssp             HHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH-STT
T ss_pred             HHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-ccc
Confidence            6666543 2245566666666667777777777777666653 224556666666666677777777777766654 233


Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCch------hhHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCC
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTT------ATYNIMINAFSE---KLNFYMAEKLFYEMSEKGCPP  635 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~p  635 (759)
                      +...+..++.+|...|++++|...|+++...  .|.+.      ..+..++.++..   .|++++|+..++++.+.. +.
T Consensus       371 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~  447 (514)
T 2gw1_A          371 APEVPNFFAEILTDKNDFDKALKQYDLAIEL--ENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PR  447 (514)
T ss_dssp             CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TT
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--hhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cc
Confidence            4556666666777777777777777766655  33332      266667777777   677777777777766542 23


Q ss_pred             CHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 004362          636 DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGR  677 (759)
Q Consensus       636 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  677 (759)
                      +..++..++.++...|++++|..+++++++  +.|+......
T Consensus       448 ~~~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~~~~~~  487 (514)
T 2gw1_A          448 SEQAKIGLAQMKLQQEDIDEAITLFEESAD--LARTMEEKLQ  487 (514)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSHHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hccccHHHHH
Confidence            366666677777777777777777777776  6666554433

>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=99.95  E-value=1.2e-26  Score=240.03  Aligned_cols=184  Identities=12%  Similarity=0.215  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC---------hhhHHHHHhhchhCCCCCCHHhH
Q 004362          114 YNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRR---------PHVALRLLKNMPSQGFEPNAVAY  184 (759)
Q Consensus       114 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~A~~~~~~~~~~~~~~~~~~~  184 (759)
                      ++.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.+.         .+.|.++|++|...|+.||..+|
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            444444444555555555555555444444555555555544443332         33455555555555555555555


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc
Q 004362          185 CTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRK  264 (759)
Q Consensus       185 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  264 (759)
                      +++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+|++|+.+|++.
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             CCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHH
Q 004362          265 GAISEAISLLDSLGREDLTPDVVTYNTLMCGLC  297 (759)
Q Consensus       265 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  297 (759)
                      |++++|.+++++|.+.+..|+..||+.++..+.
T Consensus       189 g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~  221 (501)
T 4g26_A          189 KNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFK  221 (501)
T ss_dssp             TCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Confidence            555555555555555555555555555554444

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=6.2e-24  Score=227.11  Aligned_cols=459  Identities=10%  Similarity=-0.031  Sum_probs=332.4

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 004362          146 VYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHT  225 (759)
Q Consensus       146 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  225 (759)
                      ...+......+.+.|++++|...|+++...+  |+..+|..++..+...|++++|+..|+++.+.+ +.+..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            5667888899999999999999999999986  789999999999999999999999999999875 3366788999999


Q ss_pred             HHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHH
Q 004362          226 LCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEA  305 (759)
Q Consensus       226 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  305 (759)
                      +...|++++|...|+.+...+. ++......++..+........+.+.+..+...+..|+...+......          
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~----------  151 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKER----------  151 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC--------------------------------
T ss_pred             HHHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHH----------
Confidence            9999999999999999998854 34444455555554444444444444444333222222221111000          


Q ss_pred             HHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh---cCCHHHHHHHHHHH
Q 004362          306 EYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQ---DGDVDRAMAVYVKA  382 (759)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~A~~~~~~~  382 (759)
                            .......|+......    +..........      .....+.+...+......+..   .|++++|..+|+++
T Consensus       152 ------~~~~~~~~~~~~~~~----~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  215 (514)
T 2gw1_A          152 ------KDKQENLPSVTSMAS----FFGIFKPELTF------ANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKA  215 (514)
T ss_dssp             -----------CCCCHHHHHH----HHTTSCCCCCC------SSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHH
T ss_pred             ------HhhccCCchhHHHHH----HHhhcCHHHHH------HHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence                  000111222222111    11111100000      000001123344444444444   78889999988888


Q ss_pred             HH-----c--CC------CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 004362          383 LE-----K--GL------KPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLV  449 (759)
Q Consensus       383 ~~-----~--~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  449 (759)
                      ..     .  .+      +.+...+..+...+...|++++|...++++....  |+...+..+...+...|++++|...+
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~  293 (514)
T 2gw1_A          216 ARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYF  293 (514)
T ss_dssp             HHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHH
T ss_pred             HHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            77     3  11      1235577788888999999999999999988864  33778888889999999999999999


Q ss_pred             HHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004362          450 NDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVP  529 (759)
Q Consensus       450 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  529 (759)
                      +.+.... +.+..++..+...|...|++++|...++++.+... .+...+..+..++...|++++|+..++++.+.. +.
T Consensus       294 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  370 (514)
T 2gw1_A          294 DKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PE  370 (514)
T ss_dssp             HHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TT
T ss_pred             HHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-cc
Confidence            9988764 44677888899999999999999999999988743 356788889999999999999999999998863 34


Q ss_pred             ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-Ccc----HHHHHHHHHHHHc---cCChhhHHHHHHHHHHccCCCCc
Q 004362          530 NIITYSILGESLCKAHKITEAFNLLEEMENKGL-TLD----TVAFGTLINGFCN---SGDLDGAYQLFRRMEDQYKISHT  601 (759)
Q Consensus       530 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~  601 (759)
                      +...+..++..+...|++++|...++++.+... .++    ...+..++.++..   .|++++|...|+++...  .|.+
T Consensus       371 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~  448 (514)
T 2gw1_A          371 APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKL--DPRS  448 (514)
T ss_dssp             CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHH--CTTC
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHh--Cccc
Confidence            677888999999999999999999999887421 111    3378889999999   99999999999999988  7888


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHH
Q 004362          602 TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIM  643 (759)
Q Consensus       602 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l  643 (759)
                      ..++..++.+|...|++++|...|+++.+.  .|+ ...+..+
T Consensus       449 ~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~  489 (514)
T 2gw1_A          449 EQAKIGLAQMKLQQEDIDEAITLFEESADL--ARTMEEKLQAI  489 (514)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--ccccHHHHHHH
Confidence            999999999999999999999999999976  466 4444443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.93  E-value=1.2e-22  Score=212.86  Aligned_cols=325  Identities=10%  Similarity=0.008  Sum_probs=209.2

Q ss_pred             hhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 004362          321 GFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKG  400 (759)
Q Consensus       321 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  400 (759)
                      ...+..+...+.+.|++++|...|+.+.... +.+...+..++.++...|++++|...|+++.+.++. +...+..+...
T Consensus        26 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~  103 (450)
T 2y4t_A           26 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHH
Confidence            3344445555555555555555555554432 223444455555555555555555555555544333 34445555555


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC
Q 004362          401 LSQQGLILQALQLMNEMSESGCCPDM----WTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLK  476 (759)
Q Consensus       401 ~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  476 (759)
                      |...|++++|...|+++....  |+.    ..+..+...+..                       ..+..+...+...|+
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~~  158 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEM-----------------------QRLRSQALNAFGSGD  158 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTC
T ss_pred             HHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHcCC
Confidence            555555555555555554432  221    222222222100                       011222444667788


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          477 MEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEE  556 (759)
Q Consensus       477 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  556 (759)
                      +++|...|+++.+.. +.+...+..++.+|...|++++|+..|+++.+.. +.+..++..++.++...|++++|...+++
T Consensus       159 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          159 YTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            888888888777653 3366777777778888888888888888777653 34567777778888888888888888888


Q ss_pred             HHHCCCCccHHHHHHH------------HHHHHccCChhhHHHHHHHHHHccCCCCc----hhhHHHHHHHHHhcCCHHH
Q 004362          557 MENKGLTLDTVAFGTL------------INGFCNSGDLDGAYQLFRRMEDQYKISHT----TATYNIMINAFSEKLNFYM  620 (759)
Q Consensus       557 ~~~~~~~~~~~~~~~l------------~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~  620 (759)
                      +... .+.+...+..+            +.+|...|++++|+..|+++...  .|.+    ..++..++.++...|++++
T Consensus       237 ~~~~-~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~  313 (450)
T 2y4t_A          237 CLKL-DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVE  313 (450)
T ss_dssp             HHHH-CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHh-CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHH
Confidence            7765 23344444443            78888899999999999999887  5655    3477888899999999999


Q ss_pred             HHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          621 AEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVIN  680 (759)
Q Consensus       621 A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  680 (759)
                      |+..++++.+.. +.+..+|..++.+|...|++++|+..++++++  +.|++......+.
T Consensus       314 A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~  370 (450)
T 2y4t_A          314 AIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGLE  370 (450)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHHH
Confidence            999999988653 34588899999999999999999999999998  7887655544443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.93  E-value=1.8e-23  Score=224.73  Aligned_cols=445  Identities=12%  Similarity=0.048  Sum_probs=233.7

Q ss_pred             HHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 004362          181 AVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQG  260 (759)
Q Consensus       181 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  260 (759)
                      ...|..+...+.+.|++++|++.|+++.+.. +.+..++..+..++.+.|++++|.+.++++++.+ +.+...+..+...
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4556666677777777777777777776653 2255666667777777777777777777776653 2255666666677


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCC--CCCChhcHHHHHHHHHHcCChh
Q 004362          261 LCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEG--LEPDGFSYNAVIDGYCKAGMIS  338 (759)
Q Consensus       261 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~  338 (759)
                      +...|++++|...|+.+. .  .|+.  ....+..+...+...+|...++.+....  ..+........+..+....+.+
T Consensus       103 ~~~~g~~~~A~~~~~~~~-~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLS-L--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHHHHh-c--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            777777777777775332 1  1111  1111223333333445555555553320  0000011112222233333333


Q ss_pred             HHHHHHHHHHhCCCCCCcc---cHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHH
Q 004362          339 SADKILNDAIFKGFVPDEF---TYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMN  415 (759)
Q Consensus       339 ~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  415 (759)
                      .+...+....    ..+..   ....+...+...+                           .......+++++|..+++
T Consensus       178 ~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~---------------------------~~~~~a~~~~~~A~~~~~  226 (537)
T 3fp2_A          178 LEVSSVNTSS----NYDTAYALLSDALQRLYSATD---------------------------EGYLVANDLLTKSTDMYH  226 (537)
T ss_dssp             HHHHTSCCCC----SSCSSHHHHHHHHHHHHTCSH---------------------------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcc----ccccHHHHHHHHHHHHHHhhh---------------------------hhhHHHHHHHHHHHHHHH
Confidence            3222211111    00100   1111111111000                           000011234566666666


Q ss_pred             HHHhCCCCCCH-------HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          416 EMSESGCCPDM-------WTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMW  488 (759)
Q Consensus       416 ~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  488 (759)
                      ++.+.... +.       .++..+...+...|++++|...++.+...  .|+...+..+...|...|++++|...++++.
T Consensus       227 ~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  303 (537)
T 3fp2_A          227 SLLSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAV  303 (537)
T ss_dssp             HHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHH
T ss_pred             HHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHh
Confidence            66554211 11       13444445555666666666666666654  2335556666666666666666666666666


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHH
Q 004362          489 SHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVA  568 (759)
Q Consensus       489 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  568 (759)
                      +.. +.+..++..+..++...|++++|+..|+++.+.. +.+...+..++.++...|++++|...++++.+. .+.+...
T Consensus       304 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~  380 (537)
T 3fp2_A          304 DLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK-FPTLPEV  380 (537)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCTHH
T ss_pred             ccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCChHH
Confidence            543 2245566666666666677777777766666653 224456666666666677777777777666665 2445556


Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCch------hhHHHHHHHHHhc----------CCHHHHHHHHHHHHHcC
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTT------ATYNIMINAFSEK----------LNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~  632 (759)
                      +..++.++...|++++|+..|+++...  .|.+.      ..+..++.++...          |++++|+..++++.+..
T Consensus       381 ~~~l~~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  458 (537)
T 3fp2_A          381 PTFFAEILTDRGDFDTAIKQYDIAKRL--EEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD  458 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHc--CCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC
Confidence            666666677777777777777766554  22221      1233445556666          77777777777766542


Q ss_pred             CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          633 CPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       633 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                       +.+..++..++.+|...|++++|+..|+++++  +.|+...
T Consensus       459 -p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~~~~~~  497 (537)
T 3fp2_A          459 -PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI--LARTMDE  497 (537)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HC--CHH
T ss_pred             -CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHH
Confidence             33366666677777777777777777777776  5555433

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.93  E-value=2.1e-22  Score=211.00  Aligned_cols=366  Identities=12%  Similarity=0.023  Sum_probs=257.1

Q ss_pred             HHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHH
Q 004362          269 EAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAI  348 (759)
Q Consensus       269 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  348 (759)
                      .+...+..+.... +.+...+..+...+.+.|++++|...|+++.... +.+..++..+...+...|++++|...++.+.
T Consensus        10 ~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   87 (450)
T 2y4t_A           10 GVDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVI   87 (450)
T ss_dssp             --------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3444455554333 5567788999999999999999999999999863 4467889999999999999999999999999


Q ss_pred             hCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH---HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 004362          349 FKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSI---VLYNTLIKGLSQQGLILQALQLMNEMSESGCCPD  425 (759)
Q Consensus       349 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  425 (759)
                      ..+ +.+...+..++.+|.+.|++++|...|+++....+. +.   ..+..++..+...                     
T Consensus        88 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~---------------------  144 (450)
T 2y4t_A           88 QLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQ---------------------  144 (450)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHH---------------------
T ss_pred             hcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHH---------------------
Confidence            875 336778899999999999999999999999987543 44   5666665442111                     


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004362          426 MWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNG  505 (759)
Q Consensus       426 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  505 (759)
                        .+..+...+...|++++|...++.+.... +.+..++..++.+|...|++++|...|+++.+.. +.+..++..++.+
T Consensus       145 --~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  220 (450)
T 2y4t_A          145 --RLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTL  220 (450)
T ss_dssp             --HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence              12223334555666666666666666543 3355666666666667777777777776666542 2356666666777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhcHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCcc----HHHH
Q 004362          506 LCKAAKSEDVMETFKTMIEKRCVPNIITYSIL------------GESLCKAHKITEAFNLLEEMENKGLTLD----TVAF  569 (759)
Q Consensus       506 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~  569 (759)
                      |...|++++|+..|+++.... +.+...+..+            +..+...|++++|...++++.+.. +.+    ...+
T Consensus       221 ~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~  298 (450)
T 2y4t_A          221 YYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSIAEYTVRSK  298 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CSSHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CcchHHHHHHH
Confidence            777777777777777766542 1223333333            778888899999999999888752 222    3467


Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHH--
Q 004362          570 GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDS--  646 (759)
Q Consensus       570 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~--  646 (759)
                      ..++.++.+.|++++|+..++++...  .|++..+|..++.+|...|++++|+..++++.+.  .|+ ..++..+..+  
T Consensus       299 ~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~  374 (450)
T 2y4t_A          299 ERICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH--NENDQQIREGLEKAQR  374 (450)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcchHHHHHHHHHHHH
Confidence            88888899999999999999998887  7888889999999999999999999999999854  565 6677766643  


Q ss_pred             ----------HHhcC-----ChHHHHHHHHH-HHhCCCCCC
Q 004362          647 ----------FCKTG-----GINSGYCLLLE-NIDKGFIPS  671 (759)
Q Consensus       647 ----------~~~~g-----~~~~A~~~~~~-~~~~g~~p~  671 (759)
                                |...|     +.+++.+.+++ +++  ..|+
T Consensus       375 ~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~--~~pd  413 (450)
T 2y4t_A          375 LLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQ--WHPD  413 (450)
T ss_dssp             HHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHH--SCGG
T ss_pred             HhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHH--hCCC
Confidence                      33333     55677777776 555  4454

>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=99.92  E-value=5e-22  Score=213.50  Aligned_cols=444  Identities=12%  Similarity=0.028  Sum_probs=301.5

Q ss_pred             CHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 004362          145 DVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIH  224 (759)
Q Consensus       145 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  224 (759)
                      ....+..+...+.+.|++++|...|+++...+ |.+..+|..+...+...|++++|++.|+++.+.+ +.+..++..+..
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            35678888999999999999999999999886 6788999999999999999999999999999875 336778888999


Q ss_pred             HHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CCCCcchHHHHHHHHHhCCCh
Q 004362          225 TLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGRED--LTPDVVTYNTLMCGLCKNSKV  302 (759)
Q Consensus       225 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  302 (759)
                      ++...|++++|...|+ ....  .|+.  ....+..+...+....|...++.+....  ..+........+..+....+.
T Consensus       102 ~~~~~g~~~~A~~~~~-~~~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLS-VLSL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDS  176 (537)
T ss_dssp             HHHHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCH
T ss_pred             HHHHcCCHHHHHHHHH-HHhc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcCh
Confidence            9999999999999997 4333  2222  2223445556667788999999987542  122233344555666667776


Q ss_pred             HHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          303 VEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKA  382 (759)
Q Consensus       303 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  382 (759)
                      +.+...+.....    .+. .+..+...+...             ...    +      ........|++++|..+++++
T Consensus       177 ~~~~~~~~~~~~----~~~-~~~~~~~~l~~~-------------~~~----~------~~~~~~a~~~~~~A~~~~~~~  228 (537)
T 3fp2_A          177 HLEVSSVNTSSN----YDT-AYALLSDALQRL-------------YSA----T------DEGYLVANDLLTKSTDMYHSL  228 (537)
T ss_dssp             HHHHHTSCCCCS----SCS-SHHHHHHHHHHH-------------HTC----S------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccc----ccc-HHHHHHHHHHHH-------------HHh----h------hhhhHHHHHHHHHHHHHHHHH
Confidence            666544333221    111 122222222111             000    0      000111133455555555555


Q ss_pred             HHcCCCCCH-------HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 004362          383 LEKGLKPSI-------VLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISK  455 (759)
Q Consensus       383 ~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  455 (759)
                      .+..+. +.       .++..+...+...|++++|...++++...  .|+...+..+...+...|++++|...++.+...
T Consensus       229 l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  305 (537)
T 3fp2_A          229 LSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDL  305 (537)
T ss_dssp             HC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH
T ss_pred             HHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc
Confidence            554332 21       23444555666677777777777777765  344666667777777777777777777777765


Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHH
Q 004362          456 GYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYS  535 (759)
Q Consensus       456 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  535 (759)
                      . +.+..++..+...|...|++++|...++++.+... .+...+..+..++...|++++|+..++++.+.. +.+...+.
T Consensus       306 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~  382 (537)
T 3fp2_A          306 N-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPT  382 (537)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHH
T ss_pred             C-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            3 34567777777888888888888888888776532 245677778888888888888888888887763 33566777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCC-----CCccHHHHHHHHHHHHcc----------CChhhHHHHHHHHHHccCCCC
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKG-----LTLDTVAFGTLINGFCNS----------GDLDGAYQLFRRMEDQYKISH  600 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~  600 (759)
                      .++..+...|++++|...++++.+..     .......+.....++...          |++++|+..|+++...  .|.
T Consensus       383 ~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~  460 (537)
T 3fp2_A          383 FFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPR  460 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCC
Confidence            88888888888888888888877531     111222244555667777          9999999999999888  788


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       601 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      +..++..++.+|...|++++|++.|+++.+.
T Consensus       461 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          461 SEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            8889999999999999999999999998865

>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=99.91  E-value=8e-18  Score=183.72  Aligned_cols=377  Identities=12%  Similarity=0.123  Sum_probs=234.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHH
Q 004362          220 NKLIHTLCKKGNVRESEKLFNKVLKRGV--SPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLC  297 (759)
Q Consensus       220 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  297 (759)
                      ...+.+|...|.+.+|.++++++.-.+-  ..+....+.++.+..+. +..+..+..+.....       ....+...+.
T Consensus       989 s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~-------d~~eIA~Iai 1060 (1630)
T 1xi4_A          989 SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY-------DAPDIANIAI 1060 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-------cHHHHHHHHH
Confidence            4455666677777777777777763311  12334455566555555 445555555554311       1333556666


Q ss_pred             hCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHH
Q 004362          298 KNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMA  377 (759)
Q Consensus       298 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  377 (759)
                      ..|.+++|..+|++...     .....+.+   +...+++++|.++.++.      .++.+|..+..++...|++++|+.
T Consensus      1061 ~lglyEEAf~IYkKa~~-----~~~A~~VL---ie~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAId 1126 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFDV-----NTSAVQVL---IEHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAID 1126 (1630)
T ss_pred             hCCCHHHHHHHHHHcCC-----HHHHHHHH---HHHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            77777777777777421     11112222   22566677777776644      245667777777777777777777


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 004362          378 VYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGY  457 (759)
Q Consensus       378 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  457 (759)
                      .|.+.      .+...|..++.++.+.|++++|.+.|....+..  +++...+.++.+|++.+++++...+    +.   
T Consensus      1127 sYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~f----I~--- 1191 (1630)
T 1xi4_A         1127 SYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEF----IN--- 1191 (1630)
T ss_pred             HHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHH----Hh---
Confidence            77553      266667777777777777777777777666543  2322333466677777766643333    21   


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHH
Q 004362          458 IPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSIL  537 (759)
Q Consensus       458 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  537 (759)
                      .++...+..+...|...|++++|...|..+         ..|..++.++.+.|++++|++.+++.      .+..+|..+
T Consensus      1192 ~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev 1256 (1630)
T 1xi4_A         1192 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV 1256 (1630)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHH
Confidence            334555666777777777777777777764         25677777777777777777777765      245677777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc--
Q 004362          538 GESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK--  615 (759)
Q Consensus       538 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  615 (759)
                      ..+|...|++..|......     +..++..+..++..|.+.|.+++|+.+++.....  .+.+...|..++.+|.+.  
T Consensus      1257 ~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L--eraH~gmftELaiLyaKy~p 1329 (1630)
T 1xi4_A         1257 CFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKP 1329 (1630)
T ss_pred             HHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--ChhHhHHHHHHHHHHHhCCH
Confidence            7777777777777765553     2235555667777777777777777777777666  455666666666666643  


Q ss_pred             CCHHHHHHHHHHHHHcCCCC------CHhhHHHHHHHHHhcCChHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPP------DNYTYRIMIDSFCKTGGINSGY  657 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~A~  657 (759)
                      ++..++.++|..-.  +++|      +...|..++-.|.+.|+++.|.
T Consensus      1330 eklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1330 QKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            45566666655443  3333      3556777777777777777776

>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=99.90  E-value=9.9e-17  Score=175.27  Aligned_cols=570  Identities=11%  Similarity=0.089  Sum_probs=379.1

Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCC-CCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHH
Q 004362           37 KHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVD-DSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYN  115 (759)
Q Consensus        37 ~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  115 (759)
                      +.++.--...++.|..+|.+.+|+++++++..... .+.....-+.++++..+. +..+..++..+...    .+   ..
T Consensus       982 ~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~----~d---~~ 1053 (1630)
T 1xi4_A          982 TQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDN----YD---AP 1053 (1630)
T ss_pred             ccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhh----cc---HH
Confidence            34455556788889999999999999999985442 222455666677777766 55666666665541    22   33


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcC
Q 004362          116 TIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEEN  195 (759)
Q Consensus       116 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  195 (759)
                      .+...+...|.+++|..+|++..     -.....+.++.   ..+++++|.++.+++      .+..+|..+..++...|
T Consensus      1054 eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G 1119 (1630)
T 1xi4_A         1054 DIANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKG 1119 (1630)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCC
Confidence            47788889999999999999963     12223333332   668899999998865      24788899999999999


Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004362          196 HNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLD  275 (759)
Q Consensus       196 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  275 (759)
                      ++++|++.|.+.      -|...|..++..+.+.|++++|.+.+....+..  ++....+.++.+|++.+++++..... 
T Consensus      1120 ~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI- 1190 (1630)
T 1xi4_A         1120 MVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI- 1190 (1630)
T ss_pred             CHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH-
Confidence            999999999664      367778889999999999999999998887764  33333445888899998888644432 


Q ss_pred             HHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCC
Q 004362          276 SLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPD  355 (759)
Q Consensus       276 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  355 (759)
                        .    .++...|..+...|...|++++|..+|...         ..|..+...+.+.|+++.|.+.+++..      +
T Consensus      1191 --~----~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~------n 1249 (1630)
T 1xi4_A         1191 --N----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN------S 1249 (1630)
T ss_pred             --h----CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC------C
Confidence              1    456667778888999999999999999885         368889999999999999999998762      6


Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004362          356 EFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVING  435 (759)
Q Consensus       356 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  435 (759)
                      ..+|..+..+|...|++..|..+...+.     .++..+..++..|.+.|.+++|+.+++...... +.....|+-+...
T Consensus      1250 ~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiL 1323 (1630)
T 1xi4_A         1250 TRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAIL 1323 (1630)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHH
Confidence            6888888899999999999988776432     367777788999999999999999998887653 2233455555555


Q ss_pred             HHh--cCChHHHHHHHHHHHHCC----CCCCHhhHHHHHHHHHhcCCHHHHHHH-------------HHHHHHCCCCCCH
Q 004362          436 LCK--MGCVSDANNLVNDAISKG----YIPDIFTFNTLIDGYCKQLKMEIAIEI-------------LNTMWSHGVTPDV  496 (759)
Q Consensus       436 ~~~--~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~-------------~~~~~~~~~~~~~  496 (759)
                      +++  -++..++.+.|..-....    ...+...|..++..|.+.|+++.|...             |...+..  ..++
T Consensus      1324 yaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~k--v~n~ 1401 (1630)
T 1xi4_A         1324 YSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITK--VANV 1401 (1630)
T ss_pred             HHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcc--cccH
Confidence            554  334444555554332210    012456788888999999999988732             2222221  3366


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHH
Q 004362          497 ITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGF  576 (759)
Q Consensus       497 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  576 (759)
                      ..|...+..|...  ...++.-+...+..     ..-+...+..+.+.++..-+..+++.+...+   +..+-..+.+.|
T Consensus      1402 elyykai~Fyl~~--~P~~lndLl~~l~~-----rlD~~R~V~l~~~~~~l~lik~yl~~vq~~n---~~~Vneal~el~ 1471 (1630)
T 1xi4_A         1402 ELYYRAIQFYLEF--KPLLLNDLLMVLSP-----RLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLF 1471 (1630)
T ss_pred             HHHHHHHHHHHhh--ChHHHHHHHHHhhh-----cCChHHHHHHHHHcCChHHhHHHHHHHHHhc---chhhhHHHHHHh
Confidence            6777777766632  22222222222211     1123445556666777777777776665432   222233444444


Q ss_pred             HccCChhhH------------HHHHHHHHHccCCCCchhhHHHHH-HHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHH
Q 004362          577 CNSGDLDGA------------YQLFRRMEDQYKISHTTATYNIMI-NAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIM  643 (759)
Q Consensus       577 ~~~g~~~~A------------~~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l  643 (759)
                      ....+++.-            ..+-+++.+.     ...-+..++ .+|.++|+|..|++++++..         -|.-.
T Consensus      1472 ieeed~~~Lr~si~~~~nfd~~~La~~lekh-----eLl~frrIAa~ly~~n~~~~~ai~l~k~d~---------l~~dA 1537 (1630)
T 1xi4_A         1472 ITEEDYQALRTSIDAYDNFDNISLAQRLEKH-----ELIEFRRIAAYLFKGNNRWKQSVELCKKDS---------LYKDA 1537 (1630)
T ss_pred             cCccchHHHHHHHhhccCcCHHHHHHHhhhh-----hHHHHHHHHHHHHHhcCcHHHHHHHHHhcc---------CHHHH
Confidence            444443321            1111222211     112223343 45556688988888887652         34456


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHH
Q 004362          644 IDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVG  693 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~  693 (759)
                      +.+..++|+.+.+..++.-.+..   -+.+.+-..+-.++..-+.|-+.+
T Consensus      1538 m~~a~~S~d~e~~e~ll~~F~~~---~~~E~f~a~Ly~cy~l~~pd~vle 1584 (1630)
T 1xi4_A         1538 MQYASESKDTELAEELLQWFLQE---EKRECFGACLFTCYDLLRPDVVLE 1584 (1630)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc---CChhHHHHHHHHHhccCCchHHHH
Confidence            66778888888888887777763   245556666666666666666665

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=5.8e-20  Score=186.07  Aligned_cols=318  Identities=10%  Similarity=0.022  Sum_probs=172.3

Q ss_pred             cHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHH
Q 004362          323 SYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLS  402 (759)
Q Consensus       323 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  402 (759)
                      .+..+...+...|++++|...++.+.... +.+...+..+...+...|++++|...++++.+..+. +...+..+...+.
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~   82 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHHH
Confidence            34444445555555555555555554432 123444445555555555555555555555544322 3444455555555


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHH
Q 004362          403 QQGLILQALQLMNEMSESGCCP----DMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKME  478 (759)
Q Consensus       403 ~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  478 (759)
                      ..|++++|...++++.+.  .|    +...+..+.....                       ...+..+...+...|+++
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~~  137 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADYT  137 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCHH
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCHH
Confidence            555555555555555443  12    1111111110000                       001112244555666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          479 IAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEME  558 (759)
Q Consensus       479 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  558 (759)
                      +|...++++.+.. +.+...+..+..++...|++++|+..++++.+.. +.+..++..++..+...|++++|...++++.
T Consensus       138 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          138 AAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6666666665542 2345556666666666666666666666666542 3345556666666666666666666666666


Q ss_pred             HCCCCccHHHHH------------HHHHHHHccCChhhHHHHHHHHHHccCCCCchh----hHHHHHHHHHhcCCHHHHH
Q 004362          559 NKGLTLDTVAFG------------TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTA----TYNIMINAFSEKLNFYMAE  622 (759)
Q Consensus       559 ~~~~~~~~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~  622 (759)
                      +. .+.+...+.            .++..+...|++++|+..++++...  .|.+..    .+..++.++...|++++|+
T Consensus       216 ~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          216 KL-DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HH-CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hh-CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            54 122332222            2255566777777777777777766  444442    2445666777777777777


Q ss_pred             HHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          623 KLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       623 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      ..++++.+.. +.+..+|..++.++...|++++|...++++++  +.|++...
T Consensus       293 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~~  342 (359)
T 3ieg_A          293 RICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQQI  342 (359)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHH
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChHH
Confidence            7777776542 33466777777777777777777777777777  66664443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=3.1e-20  Score=188.07  Aligned_cols=302  Identities=12%  Similarity=0.050  Sum_probs=166.4

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHH
Q 004362          390 SIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLID  469 (759)
Q Consensus       390 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  469 (759)
                      ++..+..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45567777777888888888888888877753 2356677777777888888888888888877653 335677777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHH
Q 004362          470 GYCKQLKMEIAIEILNTMWSHGVT--PDVITYNSL------------LNGLCKAAKSEDVMETFKTMIEKRCVPNIITYS  535 (759)
Q Consensus       470 ~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  535 (759)
                      .+...|++++|...++++.+....  .+...+..+            ...+...|++++|++.++++.+.. +.+...+.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHH
Confidence            888888888888888887765310  133333333            244445555555555555555442 22344445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHH-------
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIM-------  608 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l-------  608 (759)
                      .++..+...|++++|...++++.+. .+.+...+..++.+|...|++++|...|+++...  .|.+...+..+       
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~  235 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKL-KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLN  235 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CccchHHHHHHHHHHHHH
Confidence            5555555555555555555555543 2334445555555555555555555555555544  34443333211       


Q ss_pred             -----HHHHHhcCCHHHHHHHHHHHHHcCCCCCH----hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHH
Q 004362          609 -----INAFSEKLNFYMAEKLFYEMSEKGCPPDN----YTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-LSTIGRV  678 (759)
Q Consensus       609 -----~~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l  678 (759)
                           +..+...|++++|+..++++.+.. +.+.    ..+..++.++...|++++|+..++++++  ..|+ ...+..+
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~  312 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQ--MEPDNVNALKDR  312 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCcccHHHHHHH
Confidence                 334444555555555555544431 1112    1123344444555555555555555554  3342 2333333


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHH
Q 004362          679 INCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       679 ~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ...+...|++++|.+.++++.+
T Consensus       313 ~~~~~~~g~~~~A~~~~~~a~~  334 (359)
T 3ieg_A          313 AEAYLIEEMYDEAIQDYEAAQE  334 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            3444445555555555555444

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=3e-18  Score=180.68  Aligned_cols=382  Identities=12%  Similarity=0.052  Sum_probs=245.9

Q ss_pred             ChhcHHHHHHHHHH----cCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCH
Q 004362          320 DGFSYNAVIDGYCK----AGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQ----DGDVDRAMAVYVKALEKGLKPSI  391 (759)
Q Consensus       320 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~  391 (759)
                      +...+..+...|..    .++++.|...|+...+.+   ++..+..+...|..    .+++++|..+|++..+.+   ++
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            44455555555555    566777777777666553   44556666666666    667777777777766653   55


Q ss_pred             HhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHhh
Q 004362          392 VLYNTLIKGLSQ----QGLILQALQLMNEMSESGCCPDMWTYNIVINGLCK----MGCVSDANNLVNDAISKGYIPDIFT  463 (759)
Q Consensus       392 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  463 (759)
                      ..+..|...|..    .+++++|+..|++..+.|   +...+..+...|..    .+++++|...|++..+.+   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            556666666666    567777777777766654   45555666666665    567777777777776653   5666


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhcHH
Q 004362          464 FNTLIDGYCK----QLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCK----AAKSEDVMETFKTMIEKRCVPNIITYS  535 (759)
Q Consensus       464 ~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  535 (759)
                      +..+...|..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|..+|++..+.+   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            6666666666    677777777777777653   45566666666665    667777777777776653   445566


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc-----CChhhHHHHHHHHHHccCCCCchhhHH
Q 004362          536 ILGESLCK----AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS-----GDLDGAYQLFRRMEDQYKISHTTATYN  606 (759)
Q Consensus       536 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~  606 (759)
                      .++..+..    .+++++|..+|++..+.+   +...+..+...|...     +++++|+..|+++.+.    .++..+.
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~  332 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ----GDATAQA  332 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT----TCHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc----CCHHHHH
Confidence            66666666    677777777777776653   445566666666665     7777777777777665    2445667


Q ss_pred             HHHHHHHhcC---CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          607 IMINAFSEKL---NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK----TGGINSGYCLLLENIDKGFIPSLSTIGRVI  679 (759)
Q Consensus       607 ~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  679 (759)
                      .++.+|...|   ++++|+++|+++.+.   .++..+..|+..|..    .+++++|+.+|+++.+.|   +...+..+.
T Consensus       333 ~lg~~y~~~g~~~~~~~A~~~~~~a~~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg  406 (490)
T 2xm6_A          333 NLGAIYFRLGSEEEHKKAVEWFRKAAAK---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLG  406 (490)
T ss_dssp             HHHHHHHHSCCHHHHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHhCCCcccHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHH
Confidence            7777777655   677777777777765   356677777777777    677788888888777743   344555566


Q ss_pred             HHHHh----cCcHHHHHHHHHHHHHCCCC-Cc--hHHHHHhc-cccccccchHHHHHHHhc
Q 004362          680 NCLCV----DHRVHEAVGFVHLMVQKGIV-PE--VVNTIFEA-DKREVASPKIVVEDLLKK  732 (759)
Q Consensus       680 ~~~~~----~g~~~~A~~~~~~~~~~~~~-p~--~~~~~~~~-~~~~~~~a~~~~~~~~~~  732 (759)
                      ..+..    .++.++|..+++++.+.+.. |+  .....+.. .....+.+....+++.+.
T Consensus       407 ~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~~~~a~~~a~~~~~~  467 (490)
T 2xm6_A          407 EIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAKQLQQAELLSQQYIEK  467 (490)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhHHHHHHHHHHHHHHH
Confidence            65655    67788888888877775543 22  11112222 223334455555555554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.88  E-value=1.7e-17  Score=174.87  Aligned_cols=352  Identities=14%  Similarity=0.076  Sum_probs=265.9

Q ss_pred             CcchHHHHHHHHHh----CCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHH----cCChhHHHHHHHHHHhCCCCCCc
Q 004362          285 DVVTYNTLMCGLCK----NSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCK----AGMISSADKILNDAIFKGFVPDE  356 (759)
Q Consensus       285 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~  356 (759)
                      +...+..+...|..    .+++++|...|++..+.|   +...+..+...|..    .+++++|.+.|++....+   ++
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            44445555555555    566666666666666543   44455566666666    667777777777776654   44


Q ss_pred             ccHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHH
Q 004362          357 FTYCSLINGLCQ----DGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQ----QGLILQALQLMNEMSESGCCPDMWT  428 (759)
Q Consensus       357 ~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  428 (759)
                      ..+..+...|..    .+++++|...|++..+.+   ++..+..|...|..    .+++++|+..|++..+.|   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            556666666666    677788888887777664   56667777777766    677888888888877764   5667


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004362          429 YNIVINGLCK----MGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCK----QLKMEIAIEILNTMWSHGVTPDVITYN  500 (759)
Q Consensus       429 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~  500 (759)
                      +..+...|..    .+++++|..+|+...+.+   +...+..+...|..    .+++++|...|++..+.+   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            7777777776    788888888888877764   56667777777775    788888888888888753   556677


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCccHHHHHH
Q 004362          501 SLLNGLCK----AAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKA-----HKITEAFNLLEEMENKGLTLDTVAFGT  571 (759)
Q Consensus       501 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~  571 (759)
                      .+...|..    .+++++|+..|++..+.+   +...+..++..|...     +++++|...+++..+.+   +...+..
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  333 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQAN  333 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHH
Confidence            77777777    788999999999888764   556777788888776     89999999999998864   4567778


Q ss_pred             HHHHHHccC---ChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 004362          572 LINGFCNSG---DLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE----KLNFYMAEKLFYEMSEKGCPPDNYTYRIMI  644 (759)
Q Consensus       572 l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  644 (759)
                      +..+|...|   ++++|++.|++..+.    .++..+..++.+|..    .+++++|+.+|+++.+.+   ++..+..|+
T Consensus       334 lg~~y~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg  406 (490)
T 2xm6_A          334 LGAIYFRLGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLG  406 (490)
T ss_dssp             HHHHHHHSCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHH
Confidence            888887766   789999999999876    367889999999998    899999999999998764   577888899


Q ss_pred             HHHHh----cCChHHHHHHHHHHHhCC
Q 004362          645 DSFCK----TGGINSGYCLLLENIDKG  667 (759)
Q Consensus       645 ~~~~~----~g~~~~A~~~~~~~~~~g  667 (759)
                      ..|..    .+++++|..+|+++.+.|
T Consensus       407 ~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          407 EIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            99988    899999999999999843

>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=99.86  E-value=3.9e-19  Score=177.63  Aligned_cols=292  Identities=9%  Similarity=-0.009  Sum_probs=185.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHH
Q 004362          390 SIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLID  469 (759)
Q Consensus       390 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  469 (759)
                      +...+..+...+...|++++|..+++++.+.. +.+...+..++..+...|++++|..+++++.... +.+...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            34444455555555555555555555555442 1233344444555555566666666666655542 234555666666


Q ss_pred             HHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHH
Q 004362          470 GYCKQL-KMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKIT  548 (759)
Q Consensus       470 ~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  548 (759)
                      .+...| ++++|...|+++.... +.+...|..+..++...|++++|+..|+++.+.. +.+...+..++..+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            666666 6666777766666543 2245566666777777777777777777776653 224455666777777777777


Q ss_pred             HHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccC-------CCCchhhHHHHHHHHHhcCCHHHH
Q 004362          549 EAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK-------ISHTTATYNIMINAFSEKLNFYMA  621 (759)
Q Consensus       549 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A  621 (759)
                      +|...++++.+. .+.+...+..++.++...|++++|...++++.....       .|....++..++.++...|++++|
T Consensus       177 ~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSI-APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHh-CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            777777777765 345667777777777778888888888777766421       145566778888888888888888


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHH-HhcCcHH
Q 004362          622 EKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI-GRVINCL-CVDHRVH  689 (759)
Q Consensus       622 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~-~~~g~~~  689 (759)
                      +..++++.+.. +.+..+|..++.++...|++++|..+++++++  +.|++... ..+..++ ...|+.+
T Consensus       256 ~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          256 LDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALG--LRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT--TCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHc--cCCCchHHHHHHHHHHHHHhCchh
Confidence            88888877653 33467777888888888888888888888877  66754433 4444444 3445543

>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=99.86  E-value=6.8e-19  Score=175.82  Aligned_cols=292  Identities=11%  Similarity=-0.036  Sum_probs=220.9

Q ss_pred             CCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004362          353 VPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIV  432 (759)
Q Consensus       353 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  432 (759)
                      +.+...+..++..+...|++++|..+|+++....+. +...+..++..+...|++++|...++++.+.. +.+...+..+
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            345566667777777777888888877777776544 55566666677777778888888877777653 2355667777


Q ss_pred             HHHHHhcC-ChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004362          433 INGLCKMG-CVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAK  511 (759)
Q Consensus       433 ~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  511 (759)
                      ...+...| ++++|...++.+.... +.+...+..+...+...|++++|...++++.+... .+...+..+...+...|+
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhh
Confidence            77777777 7888888888777654 33566777788888888888888888888777532 245566667788888888


Q ss_pred             HHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCC--------CCccHHHHHHHHHHHHccCChh
Q 004362          512 SEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKG--------LTLDTVAFGTLINGFCNSGDLD  583 (759)
Q Consensus       512 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~  583 (759)
                      +++|...++++.+.. +.+...+..++..+...|++++|...++++.+..        .+....++..++.+|...|+++
T Consensus       175 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          175 SKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            888888888887763 3456778888888888888888888888887631        1344568888999999999999


Q ss_pred             hHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHH-HhcCCh
Q 004362          584 GAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP-DNYTYRIMIDSF-CKTGGI  653 (759)
Q Consensus       584 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~-~~~g~~  653 (759)
                      +|+..|+++.+.  .|.+..++..++.++...|++++|...++++.+.  .| +...+..++.++ ...|+.
T Consensus       254 ~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          254 EALDYHRQALVL--IPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL--RRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT--CSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHHHHhh--CccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc--CCCchHHHHHHHHHHHHHhCch
Confidence            999999999988  7888899999999999999999999999999854  45 477888888877 455554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.85  E-value=2.3e-17  Score=175.78  Aligned_cols=436  Identities=9%  Similarity=0.071  Sum_probs=225.7

Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 004362          204 FDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLT  283 (759)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  283 (759)
                      |++.++.. +-+...|..++. +.+.|+++.|..+|+++++. .+.+...|..++..+.+.|++++|..+|++....  .
T Consensus         2 le~al~~~-P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~   76 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--V   76 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--C
T ss_pred             hhhHhhhC-CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--C
Confidence            44444442 336677887777 46788899999999888876 3446778888888888888999999999888866  3


Q ss_pred             CCcchHHHHHHHH-HhCCChHHHHH----HHHHHHHC-CCCC-ChhcHHHHHHHHHH---------cCChhHHHHHHHHH
Q 004362          284 PDVVTYNTLMCGL-CKNSKVVEAEY----YLHKMVNE-GLEP-DGFSYNAVIDGYCK---------AGMISSADKILNDA  347 (759)
Q Consensus       284 ~~~~~~~~l~~~~-~~~~~~~~a~~----~~~~~~~~-~~~~-~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~  347 (759)
                      |+...|...+... ...|+.++|.+    +|+..... |..| +...|...+....+         .|+++.|..+|+++
T Consensus        77 p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~a  156 (530)
T 2ooe_A           77 LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRG  156 (530)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHH
Confidence            5666676666433 34566666654    55555442 4333 33455555554433         45555555555555


Q ss_pred             HhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 004362          348 IFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMW  427 (759)
Q Consensus       348 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  427 (759)
                      +..   |... ...+...|..   ++...             +..+...++.  ...+++..|..++..+...       
T Consensus       157 l~~---P~~~-~~~~~~~~~~---~e~~~-------------~~~~~~~~l~--~~~~~~~~A~~~~~~~~~~-------  207 (530)
T 2ooe_A          157 CVN---PMIN-IEQLWRDYNK---YEEGI-------------NIHLAKKMIE--DRSRDYMNARRVAKEYETV-------  207 (530)
T ss_dssp             TTS---CCTT-HHHHHHHHHH---HHHHH-------------CHHHHHHHHH--TTHHHHHHHHHHHHHHHHH-------
T ss_pred             Hhc---hhhh-HHHHHHHHHH---HHHhh-------------chhHHHHHHH--HhhHHHHHHHHHHHHHHHH-------
Confidence            542   1110 0000001100   00000             0000000000  0112233343333321100       


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCC---CCCC--------HhhHHHHHHHHHhc----CCH----HHHHHHHHHHH
Q 004362          428 TYNIVINGLCKMGCVSDANNLVNDAISKG---YIPD--------IFTFNTLIDGYCKQ----LKM----EIAIEILNTMW  488 (759)
Q Consensus       428 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~--------~~~~~~l~~~~~~~----~~~----~~A~~~~~~~~  488 (759)
                                            ....+..   ++|+        ...|...+......    ++.    ..+..+|++++
T Consensus       208 ----------------------~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al  265 (530)
T 2ooe_A          208 ----------------------MKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCL  265 (530)
T ss_dssp             ----------------------HHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHH
T ss_pred             ----------------------HHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHH
Confidence                                  0000000   1111        12222222211111    111    24555565555


Q ss_pred             HCCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHH
Q 004362          489 SHGVTPDVITYNSLLNGLCK-------AAKSE-------DVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLL  554 (759)
Q Consensus       489 ~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  554 (759)
                      ... +.+...|..++..+.+       .|+++       +|..+|++.++.-.+.+...+..++..+...|++++|..+|
T Consensus       266 ~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~  344 (530)
T 2ooe_A          266 LVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIY  344 (530)
T ss_dssp             HHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            532 2245556555555543       45554       66666666664211224555666666666666666666666


Q ss_pred             HHHHHCCCCccH-HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH-HHhcCCHHHHHHHHHHHHHcC
Q 004362          555 EEMENKGLTLDT-VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA-FSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       555 ~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~  632 (759)
                      +++++.. +.+. ..|..++..+.+.|++++|+.+|+++.+.  .|.+...|...+.. +...|++++|..+|+++++..
T Consensus       345 ~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~  421 (530)
T 2ooe_A          345 NRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY  421 (530)
T ss_dssp             HHHHHSS-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             HHHhCcc-ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC
Confidence            6666641 2222 35666666666666677777777666655  33344444333332 234666777777777666542


Q ss_pred             CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          633 CPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKG-FIPS--LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       633 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g-~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                       +.++..|..++..+...|+.++|..+|++++..+ ..|+  ...|...+......|+.+.+.++.+++.+
T Consensus       422 -p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          422 -GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             -TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             2236666666666666677777777777776631 1221  22344444444556777777777766665

>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=99.84  E-value=2.3e-19  Score=182.38  Aligned_cols=286  Identities=12%  Similarity=-0.037  Sum_probs=200.2

Q ss_pred             cCCHHHHHH-HHHHHHhCCC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHH
Q 004362          404 QGLILQALQ-LMNEMSESGC---CPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEI  479 (759)
Q Consensus       404 ~~~~~~a~~-~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  479 (759)
                      .|++++|+. .+++......   ..+...+..+...+...|++++|...++.+.+.. +.+..++..+..+|...|++++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHH
Confidence            355666665 5554433211   0123345556666666666666666666666653 3355666666666777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHH----------------HHHHHHHh
Q 004362          480 AIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYS----------------ILGESLCK  543 (759)
Q Consensus       480 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----------------~l~~~~~~  543 (759)
                      |...|+++.+.. +.+..++..+..++...|++++|+..++++...... +...+.                .+...+ .
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  193 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLL-S  193 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHH-H
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHh-h
Confidence            777777666653 235666666677777777777777777777665321 111111                233344 8


Q ss_pred             cCCHHHHHHHHHHHHHCCCCc--cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHH
Q 004362          544 AHKITEAFNLLEEMENKGLTL--DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMA  621 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  621 (759)
                      .|++++|...++++.+.. +.  +..++..++.+|...|++++|+..|+++...  .|.+..++..++.++...|++++|
T Consensus       194 ~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHH
Confidence            889999999999998763 33  5788889999999999999999999999888  788889999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC------------HHHHHHHHHHHHhcCcHH
Q 004362          622 EKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS------------LSTIGRVINCLCVDHRVH  689 (759)
Q Consensus       622 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~------------~~~~~~l~~~~~~~g~~~  689 (759)
                      +..++++.+.. +.+..++..++.+|...|++++|+..++++++  +.|+            ...+..+..++...|+++
T Consensus       271 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  347 (368)
T 1fch_A          271 VAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALN--MQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  347 (368)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHHTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCCCccccccchhhHHHHHHHHHHHHhCChH
Confidence            99999998763 34588899999999999999999999999987  4443            466777888888999999


Q ss_pred             HHHHHHHHHH
Q 004362          690 EAVGFVHLMV  699 (759)
Q Consensus       690 ~A~~~~~~~~  699 (759)
                      +|..++++..
T Consensus       348 ~A~~~~~~~l  357 (368)
T 1fch_A          348 AYGAADARDL  357 (368)
T ss_dssp             GHHHHHTTCH
T ss_pred             hHHHhHHHHH
Confidence            9998887644

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.84  E-value=6.2e-17  Score=172.50  Aligned_cols=440  Identities=9%  Similarity=0.006  Sum_probs=254.7

Q ss_pred             HHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 004362           27 FNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYN  106 (759)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  106 (759)
                      |+...+..|  -+...|..++.. .+.|++++|..+|+++....|.  +..+|...+..+.+.|++++|..+|+++....
T Consensus         2 le~al~~~P--~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~P~--~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~   76 (530)
T 2ooe_A            2 AEKKLEENP--YDLDAWSILIRE-AQNQPIDKARKTYERLVAQFPS--SGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV   76 (530)
T ss_dssp             HHHHHHHCT--TCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC
T ss_pred             hhhHhhhCC--CCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Confidence            444444433  256667777763 5677777777777777777776  77777777777777777777777777777553


Q ss_pred             CCCCHHHHHHHHHHH-HHcCChhHHHH----HHHHHHHC-CCCC-CHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCC
Q 004362          107 CEPTVLSYNTIMNIL-VEYGYFSQVHK----VYMRMRNK-GIVP-DVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEP  179 (759)
Q Consensus       107 ~~~~~~~~~~l~~~~-~~~~~~~~a~~----~~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  179 (759)
                        |++..|...+... ...|+.+.|.+    +|++.+.. |..| +...|...+........             .+   
T Consensus        77 --p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~-------------~~---  138 (530)
T 2ooe_A           77 --LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEA-------------VG---  138 (530)
T ss_dssp             --CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCC-------------CS---
T ss_pred             --CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCC-------------cc---
Confidence              4666666666433 34566665544    55555432 3222 34555555544332000             00   


Q ss_pred             CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 004362          180 NAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQ  259 (759)
Q Consensus       180 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  259 (759)
                                .+...|+++.|..+|++.++....+....|..........|. ..+..++.                   
T Consensus       139 ----------~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~-------------------  188 (530)
T 2ooe_A          139 ----------SYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINI-HLAKKMIE-------------------  188 (530)
T ss_dssp             ----------STTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCH-HHHHHHHH-------------------
T ss_pred             ----------cHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhch-hHHHHHHH-------------------
Confidence                      001134444555555554442100001111111110000000 00000000                   


Q ss_pred             HHHhcCCHHHHHHHHHH------HhhCC---CCCC--------cchHHHHHHHHHhC----CCh----HHHHHHHHHHHH
Q 004362          260 GLCRKGAISEAISLLDS------LGRED---LTPD--------VVTYNTLMCGLCKN----SKV----VEAEYYLHKMVN  314 (759)
Q Consensus       260 ~~~~~g~~~~a~~~~~~------~~~~~---~~~~--------~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~  314 (759)
                        .+.+++..|..++..      .....   ++|+        ...|...+......    ++.    ..+..+|++...
T Consensus       189 --~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~  266 (530)
T 2ooe_A          189 --DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLL  266 (530)
T ss_dssp             --TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHH
T ss_pred             --HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHH
Confidence              011122223322222      11110   1222        12333333222221    122    356667777766


Q ss_pred             CCCCCChhcHHHHHHHHHH-------cCChh-------HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHH
Q 004362          315 EGLEPDGFSYNAVIDGYCK-------AGMIS-------SADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYV  380 (759)
Q Consensus       315 ~~~~~~~~~~~~ll~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  380 (759)
                      .. +.+...|...+..+.+       .|+++       .|..++++++..-.+.+...+..++..+.+.|++++|..+|+
T Consensus       267 ~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~  345 (530)
T 2ooe_A          267 VL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYN  345 (530)
T ss_dssp             HH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            52 3355666666666654       57776       788888888763223456778888888888888888888888


Q ss_pred             HHHHcCCCCCH-HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCChHHHHHHHHHHHHCCCC
Q 004362          381 KALEKGLKPSI-VLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVING-LCKMGCVSDANNLVNDAISKGYI  458 (759)
Q Consensus       381 ~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~  458 (759)
                      ++++..+. +. ..|..++..+.+.|++++|..+|++..+... .+...+...... +...|++++|..+|+..++.. +
T Consensus       346 ~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p  422 (530)
T 2ooe_A          346 RLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-G  422 (530)
T ss_dssp             HHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-T
T ss_pred             HHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-C
Confidence            88886433 32 4788888888888888889888888887532 223333332222 335788999999998887763 3


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          459 PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGV-TP--DVITYNSLLNGLCKAAKSEDVMETFKTMIEK  525 (759)
Q Consensus       459 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  525 (759)
                      .++..|..++..+.+.|+.++|..+|++....+. .|  ....|...+......|+.+.+..+++++.+.
T Consensus       423 ~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          423 DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4678888888888888999999999998887632 22  2447877788878889999999888888775

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.82  E-value=1.3e-18  Score=176.83  Aligned_cols=309  Identities=10%  Similarity=-0.032  Sum_probs=206.1

Q ss_pred             HHHHcCChhHHHH-HHHHHHhCCCC---CCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC
Q 004362          330 GYCKAGMISSADK-ILNDAIFKGFV---PDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQG  405 (759)
Q Consensus       330 ~~~~~~~~~~a~~-~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  405 (759)
                      .+...|+++.|.+ .+++.......   .+...+..+...+...|++++|...|+++.+..+. +...+..+...+...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCc
Confidence            3445566666666 66654433111   12445666667777777777777777777766543 5666666667777777


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 004362          406 LILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILN  485 (759)
Q Consensus       406 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  485 (759)
                      ++++|...++++.+.. +.+..++..+...+...|++++|...++.+...... +...+..+...       ..      
T Consensus       113 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~-------~~------  177 (368)
T 1fch_A          113 QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG-------AG------  177 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC--------------------
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH-------hh------
Confidence            7777777777666653 235556666666666666666666666666655311 22111111000       00      


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 004362          486 TMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVP-NIITYSILGESLCKAHKITEAFNLLEEMENKGLTL  564 (759)
Q Consensus       486 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  564 (759)
                       .    ..+ ...+..+...+ ..|++++|+..|+++.+..... +..++..++..+...|++++|...++++.+. .+.
T Consensus       178 -~----~~~-~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~~~  249 (368)
T 1fch_A          178 -G----AGL-GPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV-RPN  249 (368)
T ss_dssp             --------------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTT
T ss_pred             -h----hcc-cHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcC
Confidence             0    000 01111233333 7889999999999998864221 4678888999999999999999999999886 355


Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--------
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--------  636 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--------  636 (759)
                      +..++..++.+|...|++++|+..|+++...  .|.+..++..++.+|...|++++|+..|+++.+.. +.+        
T Consensus       250 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~  326 (368)
T 1fch_A          250 DYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ-RKSRGPRGEGG  326 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HTC------CC
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCCCcccccc
Confidence            7888999999999999999999999999988  78889999999999999999999999999988652 222        


Q ss_pred             ---HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          637 ---NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       637 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                         ..+|..++.+|...|++++|..++++.++
T Consensus       327 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          327 AMSENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             CCCHHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             chhhHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence               57899999999999999999998876554

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.82  E-value=1.5e-18  Score=176.03  Aligned_cols=262  Identities=12%  Similarity=-0.033  Sum_probs=191.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004362          428 TYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLC  507 (759)
Q Consensus       428 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  507 (759)
                      .+..+...+.+.|++++|...|+.++... +.+..++..+...|...|++++|...|+++.+.. +.+..++..+..+|.
T Consensus        67 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  144 (365)
T 4eqf_A           67 GAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYT  144 (365)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            45555666666666666666666666543 3356666667777777777777777777766653 224666777777777


Q ss_pred             hcCCHHHHHHHHHHHHHcCCC---------CChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc--cHHHHHHHHHHH
Q 004362          508 KAAKSEDVMETFKTMIEKRCV---------PNIITYSILGESLCKAHKITEAFNLLEEMENKGLTL--DTVAFGTLINGF  576 (759)
Q Consensus       508 ~~~~~~~a~~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~  576 (759)
                      ..|++++|+..|+++.+....         .....+..++..+...|++++|..+++++.+.. +.  +..++..++.+|
T Consensus       145 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~  223 (365)
T 4eqf_A          145 NTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLF  223 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHH
Confidence            777777777777777664211         012233345778888999999999999998863 33  688899999999


Q ss_pred             HccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHH
Q 004362          577 CNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSG  656 (759)
Q Consensus       577 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  656 (759)
                      ...|++++|+..|+++.+.  .|.+..+|..++.+|...|++++|+..|+++++.. +.+..+|..++.+|...|++++|
T Consensus       224 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          224 HLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999988  78889999999999999999999999999998763 33488899999999999999999


Q ss_pred             HHHHHHHHhCCCCCC-------------HHHHHHHHHHHHhcCcHHHHHHHHHH
Q 004362          657 YCLLLENIDKGFIPS-------------LSTIGRVINCLCVDHRVHEAVGFVHL  697 (759)
Q Consensus       657 ~~~~~~~~~~g~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~  697 (759)
                      +..++++++  +.|+             ...+..+..++...|+.+.|.+..++
T Consensus       301 ~~~~~~al~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALS--LQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHH--HHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHH--hCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999987  4443             35566777777888999888877665

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.81  E-value=8.9e-17  Score=169.26  Aligned_cols=386  Identities=10%  Similarity=-0.062  Sum_probs=201.6

Q ss_pred             hhcHHHHHHHHHHcCChhHHHHHHHHHHhC-----C---CCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcC-----C
Q 004362          321 GFSYNAVIDGYCKAGMISSADKILNDAIFK-----G---FVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKG-----L  387 (759)
Q Consensus       321 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~  387 (759)
                      ...|+.+...+...|++++|++.|++.++.     +   .+....+|..+..+|...|++++|...++++.+..     .
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            345666666666677777777777665431     0   11123455666666666677777766666655420     0


Q ss_pred             --CCCHHhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH---HHhcCChHHHHHHHHHHHHCCCCCC
Q 004362          388 --KPSIVLYNTLIKGLSQQ--GLILQALQLMNEMSESGCCPDMWTYNIVING---LCKMGCVSDANNLVNDAISKGYIPD  460 (759)
Q Consensus       388 --~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~  460 (759)
                        .....++..+..++...  +++++|+..|++..+... -+...+..+..+   +...++.++|...+++.++.. +.+
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p-~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~  208 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKP-KNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDN  208 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSC
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccc
Confidence              01233444444444332  346666666666665421 123333333322   223455556666666655542 223


Q ss_pred             HhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHH
Q 004362          461 IFTFNTLIDGYCK----QLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSI  536 (759)
Q Consensus       461 ~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  536 (759)
                      ..++..+...+..    .+++++|.+.+++..... +.+...+..+...|...|++++|+..+++..+.. +.+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            4444444333332    345556666666555542 2245555566666666666666666666665542 223334444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL  616 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  616 (759)
                      ++.+|...+...         ... ..      ..........+.+++|...++++...  .|.+..++..++.+|...|
T Consensus       287 lg~~y~~~~~~~---------~~~-~~------~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~lg~~~~~~~  348 (472)
T 4g1t_A          287 IGCCYRAKVFQV---------MNL-RE------NGMYGKRKLLELIGHAVAHLKKADEA--NDNLFRVCSILASLHALAD  348 (472)
T ss_dssp             HHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHH--CTTTCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh---------hhH-HH------HHHHHHHHHHhhHHHHHHHHHHHhhc--CCchhhhhhhHHHHHHHhc
Confidence            444432211000         000 00      00000111123467899999999888  7888999999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCH--hhHHHHHH-HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHH
Q 004362          617 NFYMAEKLFYEMSEKGCPPDN--YTYRIMID-SFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVG  693 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~-~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~  693 (759)
                      ++++|+..|+++++...+|..  ..+..++. .....|++++|+..|+++++  +.|+.......         .+.+.+
T Consensus       349 ~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~--i~~~~~~~~~~---------~~~l~~  417 (472)
T 4g1t_A          349 QYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK--INQKSREKEKM---------KDKLQK  417 (472)
T ss_dssp             CHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH--SCCCCHHHHHH---------HHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCcccHHHHHH---------HHHHHH
Confidence            999999999999976433321  23444443 34578999999999999999  88876544333         234455


Q ss_pred             HHHHHHHC-CCCCchHHHHHhc--cccccccchHHHHHHHhcCCCchHH
Q 004362          694 FVHLMVQK-GIVPEVVNTIFEA--DKREVASPKIVVEDLLKKSHITYYA  739 (759)
Q Consensus       694 ~~~~~~~~-~~~p~~~~~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~  739 (759)
                      ++++.... +-.+..+..+...  ..|++++|...|+++++.++...+.
T Consensus       418 ~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a  466 (472)
T 4g1t_A          418 IAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSA  466 (472)
T ss_dssp             HHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------------
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcH
Confidence            56665552 2233355544444  7899999999999999998874443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.81  E-value=9.6e-17  Score=169.02  Aligned_cols=277  Identities=14%  Similarity=-0.005  Sum_probs=137.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH---HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChH
Q 004362          371 DVDRAMAVYVKALEKGLKPSIVLYNTLIKGL---SQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCK----MGCVS  443 (759)
Q Consensus       371 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~  443 (759)
                      ++++|+..|+++.+..+. ++..+..+..++   ...++.++|++.+++..+.. +.+..++..+...+..    .++++
T Consensus       153 ~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~  230 (472)
T 4g1t_A          153 QNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEG  230 (472)
T ss_dssp             HHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------C
T ss_pred             cHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHH
Confidence            455555555555554433 333333333332   22344455555555554432 1133333333333222    23445


Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---------------
Q 004362          444 DANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCK---------------  508 (759)
Q Consensus       444 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------------  508 (759)
                      +|...+++..... +.+..++..+...|...|++++|...++++.+.. +.+..++..+..+|..               
T Consensus       231 ~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~  308 (472)
T 4g1t_A          231 EGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYG  308 (472)
T ss_dssp             HHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------C
T ss_pred             HHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            5555555555442 3344555555555666666666666666555542 1134444444443322               


Q ss_pred             ----cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHH--HHHHHHH-HHHccCC
Q 004362          509 ----AAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTV--AFGTLIN-GFCNSGD  581 (759)
Q Consensus       509 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~-~~~~~g~  581 (759)
                          .+..++|...++...+.. +.+..++..++..+...|++++|...|+++++...++...  .+..+.. .+...|+
T Consensus       309 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~  387 (472)
T 4g1t_A          309 KRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKC  387 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSC
T ss_pred             HHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCC
Confidence                223456677777766653 3355667777777777788888888887777653332221  1222222 2345677


Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLL  661 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  661 (759)
                      +++|+..|+++...  .|.+...          .+....+..++++.++.. |.++.+|..++.+|...|++++|+.+|+
T Consensus       388 ~~~Ai~~y~kal~i--~~~~~~~----------~~~~~~l~~~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~  454 (472)
T 4g1t_A          388 EDKAIHHFIEGVKI--NQKSREK----------EKMKDKLQKIAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSE  454 (472)
T ss_dssp             HHHHHHHHHHHHHS--CCCCHHH----------HHHHHHHHHHHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC-------
T ss_pred             HHHHHHHHHHHHhc--CcccHHH----------HHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            77777777777766  4443221          122233445555555442 3446777777777777777777777777


Q ss_pred             HHHh
Q 004362          662 ENID  665 (759)
Q Consensus       662 ~~~~  665 (759)
                      ++++
T Consensus       455 kALe  458 (472)
T 4g1t_A          455 RGLE  458 (472)
T ss_dssp             ----
T ss_pred             HHHh
Confidence            7777

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.80  E-value=1.5e-17  Score=160.84  Aligned_cols=272  Identities=13%  Similarity=0.059  Sum_probs=187.0

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHH
Q 004362          401 LSQQGLILQALQLMNEMSESGCCPDM--WTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKME  478 (759)
Q Consensus       401 ~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  478 (759)
                      ....|++..|+..++.....  .|+.  .....+.++|...|+++.|...++.    ..+|+..++..+...+...++.+
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHH
Confidence            44567777777777665433  2222  2344556777777777777765543    12445566677777777777788


Q ss_pred             HHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          479 IAIEILNTMWSHGVTP-DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEM  557 (759)
Q Consensus       479 ~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  557 (759)
                      +|++.++++...+..| +...+..+..++...|++++|++.+++      +.+...+..++..+.+.|++++|...++++
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            8888888777655333 455666666777788888888877776      346667777788888888888888888888


Q ss_pred             HHCCCCccHH-H--HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 004362          558 ENKGLTLDTV-A--FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCP  634 (759)
Q Consensus       558 ~~~~~~~~~~-~--~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  634 (759)
                      .+..  |+.. .  ...++..+...|++++|..+|+++.+.  .|+++.+++.++.++...|++++|+..++++++.. |
T Consensus       157 ~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p  231 (291)
T 3mkr_A          157 QDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-S  231 (291)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            7652  3321 1  122334445568888888888888887  78888888888888888888888888888888663 3


Q ss_pred             CCHhhHHHHHHHHHhcCChHH-HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHH
Q 004362          635 PDNYTYRIMIDSFCKTGGINS-GYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGF  694 (759)
Q Consensus       635 p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  694 (759)
                      .++.++..++.++...|+.++ +..+++++++  +.|+++....+   ..+.+.+++|..-
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~~~~d~---~~~~~~fd~~~~~  287 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHPFIKEY---RAKENDFDRLVLQ  287 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHHHHH---HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCChHHHHH---HHHHHHHHHHHHH
Confidence            347888888888888888866 5688888888  77876654322   2344555555443

>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=99.80  E-value=1.6e-17  Score=165.55  Aligned_cols=261  Identities=13%  Similarity=-0.002  Sum_probs=179.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004362          431 IVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA  510 (759)
Q Consensus       431 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  510 (759)
                      .....+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+..++...|
T Consensus        26 ~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~  103 (327)
T 3cv0_A           26 EEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH  103 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcC
Confidence            33344444444444544444444432 2234444445555555555555555555554432 224445555555555555


Q ss_pred             CHHHHHHHHHHHHHcCCCCChhcHHHH--------------HH-HHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHH
Q 004362          511 KSEDVMETFKTMIEKRCVPNIITYSIL--------------GE-SLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLING  575 (759)
Q Consensus       511 ~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  575 (759)
                      ++++|+..++++.+.. +.+...+..+              .. .+...|++++|...++++.+. .+.+...+..++.+
T Consensus       104 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~  181 (327)
T 3cv0_A          104 NANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM-NPNDAQLHASLGVL  181 (327)
T ss_dssp             CHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHH-STTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh-CCCCHHHHHHHHHH
Confidence            5555555555555442 1122222222              22 366778899999999999876 35578888999999


Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  655 (759)
                      |...|++++|...++++...  .|.+..++..++.++...|++++|+..++++.+.. +.+..++..++.++...|++++
T Consensus       182 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~  258 (327)
T 3cv0_A          182 YNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDL  258 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHH
Confidence            99999999999999999988  78888999999999999999999999999998763 4458889999999999999999


Q ss_pred             HHHHHHHHHhCCCCCC-------------HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          656 GYCLLLENIDKGFIPS-------------LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      |+..++++++  ..|+             ...+..+...+...|++++|..++++..+
T Consensus       259 A~~~~~~a~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          259 AAKQLVRAIY--MQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHHHHHHHH--HHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             HHHHHHHHHH--hCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            9999999988  5566             44556677777899999999998876543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.79  E-value=1.1e-17  Score=169.50  Aligned_cols=274  Identities=9%  Similarity=-0.043  Sum_probs=182.6

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004362          356 EFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVING  435 (759)
Q Consensus       356 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  435 (759)
                      ...+..+...+.+.|++++|..+|+++....+. +..++..+...+...|++++|+..|+++.... +.+..++..+...
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            334556666666666666666666666665443 55556666666666666666666666655542 1234455555555


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004362          436 LCKMGCVSDANNLVNDAISKGYIPD-IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSED  514 (759)
Q Consensus       436 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  514 (759)
                      |...|++++|...++++.+..  |+ ...+..+.                         .....+..+...+...|++++
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~-------------------------~~~~~~~~l~~~~~~~g~~~~  195 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKK-------------------------GSPGLTRRMSKSPVDSSVLEG  195 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC--------------------------------------------CCHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhc-------------------------cchHHHHHHHHHHhhhhhHHH
Confidence            555555555555555554431  11 11111000                         012234445677788888888


Q ss_pred             HHHHHHHHHHcCCC-CChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHH
Q 004362          515 VMETFKTMIEKRCV-PNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRME  593 (759)
Q Consensus       515 a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  593 (759)
                      |+..|+++.+.... ++..++..++..+...|++++|...++++.+. .+.+..++..++.+|...|++++|+..|+++.
T Consensus       196 A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  274 (365)
T 4eqf_A          196 VKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTV-RPEDYSLWNRLGATLANGDRSEEAVEAYTRAL  274 (365)
T ss_dssp             HHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88888888876422 15678888888888899999999999998876 45578888999999999999999999999998


Q ss_pred             HccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-------------CHhhHHHHHHHHHhcCChHHHHHHH
Q 004362          594 DQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP-------------DNYTYRIMIDSFCKTGGINSGYCLL  660 (759)
Q Consensus       594 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-------------~~~~~~~l~~~~~~~g~~~~A~~~~  660 (759)
                      ..  .|.+..++..++.+|...|++++|+..|+++.+.  .|             +..+|..+..++...|+.+.+..+.
T Consensus       275 ~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  350 (365)
T 4eqf_A          275 EI--QPGFIRSRYNLGISCINLGAYREAVSNFLTALSL--QRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAAN  350 (365)
T ss_dssp             HH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH--HHCC------------CHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             hc--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            88  7888899999999999999999999999998864  22             2578999999999999999988877


Q ss_pred             HHH
Q 004362          661 LEN  663 (759)
Q Consensus       661 ~~~  663 (759)
                      ++.
T Consensus       351 ~~~  353 (365)
T 4eqf_A          351 LGD  353 (365)
T ss_dssp             TTC
T ss_pred             Hhh
Confidence            664

>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=99.79  E-value=1.5e-16  Score=155.87  Aligned_cols=289  Identities=11%  Similarity=0.051  Sum_probs=103.3

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHh
Q 004362            9 HVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGR   88 (759)
Q Consensus         9 ~~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   88 (759)
                      -+..++...|+.++|.++++..       +.+.+|..++.++.+.|++++|++.|.++.       +...+..++..+..
T Consensus         8 a~~~ll~~~~~ld~A~~fae~~-------~~~~vWs~La~A~l~~g~~~eAIdsfika~-------D~~~y~~V~~~ae~   73 (449)
T 1b89_A            8 AVQVLIEHIGNLDRAYEFAERC-------NEPAVWSQLAKAQLQKGMVKEAIDSYIKAD-------DPSSYMEVVQAANT   73 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHccCHHHHHHHHHhC-------CChHHHHHHHHHHHHcCCHHHHHHHHHcCC-------CHHHHHHHHHHHHh
Confidence            3555666777888888888875       123577788888888888888888886531       33467777777778


Q ss_pred             cCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHH
Q 004362           89 RGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRL  168 (759)
Q Consensus        89 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  168 (759)
                      .|++++|+.+++...+.  .+++.+.+.++.+|.+.|++.++.++++       .|+..+|..++..|...|.+++|...
T Consensus        74 ~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~  144 (449)
T 1b89_A           74 SGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLL  144 (449)
T ss_dssp             -------------------------------------CHHHHTTTTT-------CC----------------CTTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888877666643  3446667778888888888887776663       26666788888888888888888888


Q ss_pred             HhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCC
Q 004362          169 LKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVS  248 (759)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  248 (759)
                      |..+         ..|..++..+.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+     .
T Consensus       145 Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~  204 (449)
T 1b89_A          145 YNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----V  204 (449)
T ss_dssp             HHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----T
T ss_pred             HHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----H
Confidence            8765         35777888888888888888888777      26677788888888888888875544332     2


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCC------Ch
Q 004362          249 PNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNE-GLEP------DG  321 (759)
Q Consensus       249 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~------~~  321 (759)
                      ..+.-...++..|.+.|.+++|..+++...... +.....|+-|.-.+++- .+++..+.++..... +++|      +.
T Consensus       205 ~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~  282 (449)
T 1b89_A          205 VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQA  282 (449)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTT
T ss_pred             hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            233334457777777888888888777776543 33344455554444432 233322222222111 1222      33


Q ss_pred             hcHHHHHHHHHHcCChhHHHH
Q 004362          322 FSYNAVIDGYCKAGMISSADK  342 (759)
Q Consensus       322 ~~~~~ll~~~~~~~~~~~a~~  342 (759)
                      ..|..+.-.|...++++.|..
T Consensus       283 ~~w~e~~~ly~~~~e~d~A~~  303 (449)
T 1b89_A          283 HLWAELVFLYDKYEEYDNAII  303 (449)
T ss_dssp             TCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhhchHHHHHH
Confidence            455555555555555555544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.79  E-value=2.4e-17  Score=159.39  Aligned_cols=255  Identities=13%  Similarity=0.117  Sum_probs=202.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004362          433 INGLCKMGCVSDANNLVNDAISKGYIPD--IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA  510 (759)
Q Consensus       433 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  510 (759)
                      ++.....|++..|+..++.....  .|+  ......+..+|...|+++.|+..++..    -+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCC
Confidence            34556789999999988776443  333  235566788999999999999876542    3567778888888999999


Q ss_pred             CHHHHHHHHHHHHHcCCCC-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHH
Q 004362          511 KSEDVMETFKTMIEKRCVP-NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLF  589 (759)
Q Consensus       511 ~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  589 (759)
                      +.++|++.++++...+..| +...+..++.++...|++++|+..+++      +.+...+..++.+|.+.|++++|.+.|
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            9999999999998875444 556677888999999999999999987      567888899999999999999999999


Q ss_pred             HHHHHccCCCCchhhHHH--HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 004362          590 RRMEDQYKISHTTATYNI--MINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKG  667 (759)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  667 (759)
                      +++...  .|++......  ++..+...|++++|+.+|+++.+. .+.++..|+.++.++...|++++|...++++++  
T Consensus       154 ~~~~~~--~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~--  228 (291)
T 3mkr_A          154 KKMQDQ--DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALD--  228 (291)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             HHHHhh--CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--
Confidence            999988  5655432222  234444568999999999999987 356688999999999999999999999999999  


Q ss_pred             CCCC-HHHHHHHHHHHHhcCcHHH-HHHHHHHHHHCCCCCc
Q 004362          668 FIPS-LSTIGRVINCLCVDHRVHE-AVGFVHLMVQKGIVPE  706 (759)
Q Consensus       668 ~~p~-~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~~p~  706 (759)
                      ..|+ ...+..++..+...|+.++ +.++++++.+  +.|+
T Consensus       229 ~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~  267 (291)
T 3mkr_A          229 KDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRS  267 (291)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTT
T ss_pred             hCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCC
Confidence            7786 4456677777788898876 5689999887  5666

>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=99.77  E-value=3.6e-17  Score=163.01  Aligned_cols=281  Identities=9%  Similarity=-0.054  Sum_probs=203.1

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          355 DEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVIN  434 (759)
Q Consensus       355 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  434 (759)
                      +...+..+...+...|++++|..+|+++.+..+. +...+..+...+...|++++|...++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            3445566777777788888888888877776544 66677777777777777777777777777653 235566666677


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-HH-HHHhcCCH
Q 004362          435 GLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSL-LN-GLCKAAKS  512 (759)
Q Consensus       435 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l-~~-~~~~~~~~  512 (759)
                      .+...|++++|...++.+.... +.+...+..+...                      .|+......+ .. .+...|++
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~  154 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQA----------------------DVDIDDLNVQSEDFFFAAPNEY  154 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC------------------------------------------CCTTSHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHH----------------------HHHHHHHHHHHHhHHHHHcccH
Confidence            7777777777777777776653 1122222222100                      0111111122 22 25677888


Q ss_pred             HHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHH
Q 004362          513 EDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRM  592 (759)
Q Consensus       513 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  592 (759)
                      ++|...++++.+.. +.+...+..++..+...|++++|...++++.+. .+.+...+..++.++...|++++|...|+++
T Consensus       155 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  232 (327)
T 3cv0_A          155 RECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL-RPDDAQLWNKLGATLANGNRPQEALDAYNRA  232 (327)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888888888764 336778888888889999999999999998876 3556788889999999999999999999999


Q ss_pred             HHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC------------CHhhHHHHHHHHHhcCChHHHHHHH
Q 004362          593 EDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP------------DNYTYRIMIDSFCKTGGINSGYCLL  660 (759)
Q Consensus       593 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p------------~~~~~~~l~~~~~~~g~~~~A~~~~  660 (759)
                      ...  .|.+..++..++.++...|++++|.+.++++.+.. +.            +..+|..++.++...|++++|..++
T Consensus       233 ~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  309 (327)
T 3cv0_A          233 LDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQ-VGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTY  309 (327)
T ss_dssp             HHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHT
T ss_pred             HHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            888  78888999999999999999999999999988653 22            3678889999999999999999998


Q ss_pred             HHHHh
Q 004362          661 LENID  665 (759)
Q Consensus       661 ~~~~~  665 (759)
                      +++++
T Consensus       310 ~~~l~  314 (327)
T 3cv0_A          310 AQNVE  314 (327)
T ss_dssp             TCCSH
T ss_pred             HHHHH
Confidence            87654

>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=99.76  E-value=8.3e-17  Score=157.74  Aligned_cols=346  Identities=13%  Similarity=0.109  Sum_probs=130.1

Q ss_pred             CCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHH
Q 004362          299 NSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAV  378 (759)
Q Consensus       299 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  378 (759)
                      .|++++|.++++++.      ++.+|..++.++.+.|++++|++.|.+.      +|...|..++..+...|++++|+.+
T Consensus        16 ~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~y   83 (449)
T 1b89_A           16 IGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKY   83 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            344555555555541      1235555555555555555555555431      2444555555555556666666665


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 004362          379 YVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYI  458 (759)
Q Consensus       379 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  458 (759)
                      ++..++.  .+++.+.+.++.+|.+.|++.++.++++       .|+..+|..+...|...|.+++|..+|..+      
T Consensus        84 l~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------  148 (449)
T 1b89_A           84 LQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------  148 (449)
T ss_dssp             ---------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT------
T ss_pred             HHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------
Confidence            5544442  2234555556666666666666555542       245556666666666777777777666644      


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHH
Q 004362          459 PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILG  538 (759)
Q Consensus       459 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  538 (759)
                         ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......+.     .++.....++
T Consensus       149 ---~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~lv  214 (449)
T 1b89_A          149 ---SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELI  214 (449)
T ss_dssp             ---TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHH
T ss_pred             ---hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHH
Confidence               35667777777777777777777766      156677777777777777777754443321     2333344566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc--CChhhHHHHHHHHHHccCCCC------chhhHHHHHH
Q 004362          539 ESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS--GDLDGAYQLFRRMEDQYKISH------TTATYNIMIN  610 (759)
Q Consensus       539 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~~~~~~~------~~~~~~~l~~  610 (759)
                      ..|.+.|++++|+.+++..+... +-....|..+.-+|++-  +++.+.++.|.   ..-+.|+      +...|..+..
T Consensus       215 ~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          215 NYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHH
Confidence            67777777777777777776553 44555566665555542  23333444333   2222232      4667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHH
Q 004362          611 AFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHE  690 (759)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~  690 (759)
                      .|...++++.|...   |.+.  +|+..--...-....+..+.+--.+...=-+.  ..|  ..++.++..+...=+...
T Consensus       291 ly~~~~e~d~A~~t---m~~h--~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~--~~p--~~l~~ll~~l~~~ld~~r  361 (449)
T 1b89_A          291 LYDKYEEYDNAIIT---MMNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLE--FKP--LLLNDLLMVLSPRLDHTR  361 (449)
T ss_dssp             HHHHTTCHHHHHHH---HHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH--HCG--GGHHHHHHHHGGGCCHHH
T ss_pred             HHHhhchHHHHHHH---HHhC--ChhhhhhHHHHHHHhchhHHHHHHHHHHHHHh--cCH--HHHHHHHHHHHhccCcHH
Confidence            77777777777653   3332  33332223333333444443332222222222  223  224445555555555555


Q ss_pred             HHHHHHHH
Q 004362          691 AVGFVHLM  698 (759)
Q Consensus       691 A~~~~~~~  698 (759)
                      +...+++.
T Consensus       362 ~v~~~~~~  369 (449)
T 1b89_A          362 AVNYFSKV  369 (449)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHc
Confidence            55555443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.73  E-value=9.1e-16  Score=146.86  Aligned_cols=223  Identities=15%  Similarity=0.082  Sum_probs=142.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CC----HHHHHH
Q 004362          428 TYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVT--PD----VITYNS  501 (759)
Q Consensus       428 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~----~~~~~~  501 (759)
                      .+..+...+...|++++|...++.+.+..  .+...+..+...|...|++++|...++++.+....  ++    ..++..
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            34445555555566666666665555544  45555556666666666666666666655543110  11    355666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCC
Q 004362          502 LLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGD  581 (759)
Q Consensus       502 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  581 (759)
                      +..++...|++++|+..|+++.+..  |+       ...+...|++++|...++.+... .+.+...+..++..+...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~--~~-------~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH--RT-------ADILTKLRNAEKELKKAEAEAYV-NPEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CC-------HHHHHHHHHHHHHHHHHHHHHHC-CHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--ch-------hHHHHHHhHHHHHHHHHHHHHHc-CcchHHHHHHHHHHHHHhcC
Confidence            6666667777777777777666642  33       23345556677777777777664 23455566677777777777


Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLL  661 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  661 (759)
                      +++|+..|+++...  .|.+..++..++.++...|++++|+..++++++.. +.+..+|..++.++...|++++|...++
T Consensus       155 ~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          155 WPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            77777777777776  66677777777777777777777777777777652 3336677777777777777777777777


Q ss_pred             HHHh
Q 004362          662 ENID  665 (759)
Q Consensus       662 ~~~~  665 (759)
                      ++++
T Consensus       232 ~a~~  235 (258)
T 3uq3_A          232 AART  235 (258)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7776

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.73  E-value=2.4e-16  Score=145.48  Aligned_cols=198  Identities=10%  Similarity=0.018  Sum_probs=130.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHH
Q 004362          494 PDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLI  573 (759)
Q Consensus       494 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  573 (759)
                      ++...+..+...+.+.|++++|+..|++.++.. +.+...+..++.++...|++++|+..++++++. .|.+...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVAR-TPRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCcHHHHHHHH
Confidence            344555556666666666666666666666543 234556666666666666666666666666654 244555666666


Q ss_pred             HHHHcc-----------CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHH
Q 004362          574 NGFCNS-----------GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRI  642 (759)
Q Consensus       574 ~~~~~~-----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  642 (759)
                      .++...           |++++|+..|+++.+.  .|.+...+..++.++...|++++|+..|+++++..  .++..+..
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            666666           8888888888888887  78888888888888888888888888888888775  66788888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHH
Q 004362          643 MIDSFCKTGGINSGYCLLLENIDKGFIPSLS-TIGRVINCLCVDHRVHEAVGFVHLMV  699 (759)
Q Consensus       643 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~  699 (759)
                      ++.++...|++++|+..|+++++  +.|++. .+..+...+...|++++|++.+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~--~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALE--QAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            88888888888888888888888  677644 44455556678888888888887754

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.71  E-value=2e-15  Score=156.22  Aligned_cols=188  Identities=12%  Similarity=0.057  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhc----CCHHHHHHHHHHHHHCCCCccHHHHH
Q 004362          498 TYNSLLNGLCKAA---KSEDVMETFKTMIEKRCVPNIITYSILGESLCKA----HKITEAFNLLEEMENKGLTLDTVAFG  570 (759)
Q Consensus       498 ~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~  570 (759)
                      .+..+...|...|   +.++|++.|++..+.+ .++...+..++..|...    +++++|..+|++..    +-++..+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa----~g~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA----PGYPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG----GGSTHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc----CCCHHHHH
Confidence            4445555555555   5555555555555544 22333334444444332    45555555555554    22334444


Q ss_pred             HHHHH-H--HccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC-----CHHHHHHHHHHHHHcCCCCCHhhHHH
Q 004362          571 TLING-F--CNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL-----NFYMAEKLFYEMSEKGCPPDNYTYRI  642 (759)
Q Consensus       571 ~l~~~-~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~~~~~~~~~~p~~~~~~~  642 (759)
                      .+..+ |  ...+++++|+..|++..+.    .++.++..++.+|. .|     ++++|+.+|+++.    +-++..+..
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~----g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa----~g~~~A~~~  323 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAA----DQPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV----GREVAADYY  323 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT----TTCHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh----CCCHHHHHH
Confidence            44444 2  3455555666666555543    14455555555555 33     5566666655554    223445555


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHCC
Q 004362          643 MIDSFCK----TGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCV----DHRVHEAVGFVHLMVQKG  702 (759)
Q Consensus       643 l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  702 (759)
                      |+..|..    ..++++|..+|+++.+.|.   ......+...+..    ..+.++|..+++++.+.|
T Consensus       324 Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          324 LGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            5554443    2255666666666555331   1222233333321    235556666666655544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.70  E-value=3.3e-15  Score=154.50  Aligned_cols=377  Identities=12%  Similarity=0.040  Sum_probs=224.6

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCCh---hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 004362          293 MCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMI---SSADKILNDAIFKGFVPDEFTYCSLINGLCQD  369 (759)
Q Consensus       293 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  369 (759)
                      ...+.+.|++++|..+|++..+.|   +...+..+...|...|+.   ++|...|++....    ++..+..+...+...
T Consensus        10 a~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~   82 (452)
T 3e4b_A           10 ANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAK   82 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHTC
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhC
Confidence            344445555666666665555543   222233333444445555   5666666665533    344444555534333


Q ss_pred             C-----CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 004362          370 G-----DVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLI---LQALQLMNEMSESGCCPDMWTYNIVINGLCKMGC  441 (759)
Q Consensus       370 ~-----~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  441 (759)
                      +     +.++|...|++..+.|..   ..+..|...|...+..   .++.+.+......|   +......+...|...+.
T Consensus        83 ~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~  156 (452)
T 3e4b_A           83 PGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGT  156 (452)
T ss_dssp             --CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTC
T ss_pred             CCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCC
Confidence            3     566666666666665422   2455555555544332   23444555544443   33445556666666664


Q ss_pred             hHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc----CCHHH
Q 004362          442 VSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQL---KMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKA----AKSED  514 (759)
Q Consensus       442 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~  514 (759)
                      ++++......+.+.-...++..+..+...|...|   +.++|++.|++..+.| +++...+..+...|...    +++++
T Consensus       157 ~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~  235 (452)
T 3e4b_A          157 YDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKT  235 (452)
T ss_dssp             GGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHH
T ss_pred             cccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHH
Confidence            4444333222222111224447778888888888   8888999998888876 34555556677777554    68899


Q ss_pred             HHHHHHHHHHcCCCCChhcHHHHHHH-H--HhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC-----ChhhHH
Q 004362          515 VMETFKTMIEKRCVPNIITYSILGES-L--CKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG-----DLDGAY  586 (759)
Q Consensus       515 a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~  586 (759)
                      |+..|++.. .   -+...+..++.. +  ...+++++|..+|++..+.|   +...+..+..+|. .|     ++++|+
T Consensus       236 A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~  307 (452)
T 3e4b_A          236 AQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAE  307 (452)
T ss_dssp             HHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHH
T ss_pred             HHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHH
Confidence            999999887 3   356677777776 4  46789999999999998876   6677778887777 55     899999


Q ss_pred             HHHHHHHHccCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHH
Q 004362          587 QLFRRMEDQYKISHTTATYNIMINAFSE----KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK----TGGINSGYC  658 (759)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~  658 (759)
                      ..|++..     +.++..+..++.+|..    ..++++|..+|++..+.|   ++.....|+..|..    ..+.++|..
T Consensus       308 ~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~  379 (452)
T 3e4b_A          308 AHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYV  379 (452)
T ss_dssp             HHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHH
T ss_pred             HHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHH
Confidence            9999887     4577888999988887    449999999999998765   34566777777764    468999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          659 LLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       659 ~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +|+++.+.|. |+.......+......++..+|..+.++-..
T Consensus       380 ~~~~A~~~g~-~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          380 FSQLAKAQDT-PEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHTTCC-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCC-HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            9999998652 1212111222222334566777777766544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.70  E-value=2.6e-15  Score=143.66  Aligned_cols=224  Identities=12%  Similarity=0.100  Sum_probs=192.5

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--CC----hhcH
Q 004362          461 IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCV--PN----IITY  534 (759)
Q Consensus       461 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  534 (759)
                      ...+..+...+...|++++|...|+++.+..  .+...+..+..++...|++++|+..++++.+....  ++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4567788889999999999999999999876  67889999999999999999999999998875311  12    4788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh
Q 004362          535 SILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE  614 (759)
Q Consensus       535 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  614 (759)
                      ..++..+...|++++|...++++.+.  .|+.       ..+...|++++|...++++...  .|.+...+..++.++..
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHH
Confidence            89999999999999999999999985  3443       3466678899999999999987  78888999999999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHH
Q 004362          615 KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVG  693 (759)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~  693 (759)
                      .|++++|+..++++.+.. +.+..+|..++.++...|++++|+..++++++  ..|+ ...+..+...+...|++++|.+
T Consensus       152 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~g~~~~A~~  228 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIE--KDPNFVRAYIRKATAQIAVKEYASALE  228 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            999999999999999763 44588899999999999999999999999998  6676 5556667777789999999999


Q ss_pred             HHHHHHH
Q 004362          694 FVHLMVQ  700 (759)
Q Consensus       694 ~~~~~~~  700 (759)
                      .++++.+
T Consensus       229 ~~~~a~~  235 (258)
T 3uq3_A          229 TLDAART  235 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999887

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.69  E-value=2.5e-15  Score=138.62  Aligned_cols=201  Identities=11%  Similarity=0.003  Sum_probs=142.0

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHH
Q 004362          458 IPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSIL  537 (759)
Q Consensus       458 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  537 (759)
                      +++...+..+...+.+.|++++|...|++.++.. +.+...+..+..++.+.|++++|+..|++.++.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            4456666777777777777777777777777653 2356677777777777777777877777777764 3355677777


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHH
Q 004362          538 GESLCKA-----------HKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYN  606 (759)
Q Consensus       538 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  606 (759)
                      +.++...           |++++|+..+++.++. .|.+...+..+..+|...|++++|+..|+++.+.  . +++..+.
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~-~~~~~~~  155 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV-NPRYAPLHLQRGLVYALLGERDKAEASLKQALAL--E-DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C-CCHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--c-cchHHHH
Confidence            7777777           8888888888888876 3456778888888888899999999999988887  4 6788888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          607 IMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       607 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .++.+|...|++++|+..|+++++.. |.+...+..++.++...|++++|+..+++...
T Consensus       156 ~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          156 ALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC----------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            88889999999999999999888753 33477888888888889999999888887653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.69  E-value=7.5e-15  Score=141.71  Aligned_cols=238  Identities=12%  Similarity=0.078  Sum_probs=118.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHh
Q 004362          431 IVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPD--VITYNSLLNGLCK  508 (759)
Q Consensus       431 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~  508 (759)
                      .....+...|++++|...++.+.+.. +.+...+..+...|...|++++|+..++++.+....|+  ...|..+..++..
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            34444555555555555555555442 22333455555555555555555555555554221111  2234555555555


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHH
Q 004362          509 AAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQL  588 (759)
Q Consensus       509 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  588 (759)
                      .|++++|+..|++..+.. +.+..++..++..+...|++++|...++++.+. .+.+...+..+...+...+++++|+..
T Consensus        87 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~  164 (272)
T 3u4t_A           87 KGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKADSS  164 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555542 223445555555555555555555555555544 233444444444222223455555555


Q ss_pred             HHHHHHccCCCCchhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcC-CCCC------HhhHHHHHHHHHhcCChHHHHH
Q 004362          589 FRRMEDQYKISHTTATYNIMINAFSEKLN---FYMAEKLFYEMSEKG-CPPD------NYTYRIMIDSFCKTGGINSGYC  658 (759)
Q Consensus       589 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~-~~p~------~~~~~~l~~~~~~~g~~~~A~~  658 (759)
                      |+++.+.  .|.+...+..++.++...|+   +++|+..++++.+.. -.|+      ..+|..++..|...|++++|+.
T Consensus       165 ~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  242 (272)
T 3u4t_A          165 FVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA  242 (272)
T ss_dssp             HHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            5555555  45555555555555555555   555555555554321 0122      1344555555555555555655


Q ss_pred             HHHHHHhCCCCCCHHHH
Q 004362          659 LLLENIDKGFIPSLSTI  675 (759)
Q Consensus       659 ~~~~~~~~g~~p~~~~~  675 (759)
                      +++++++  +.|++...
T Consensus       243 ~~~~al~--~~p~~~~a  257 (272)
T 3u4t_A          243 AWKNILA--LDPTNKKA  257 (272)
T ss_dssp             HHHHHHH--HCTTCHHH
T ss_pred             HHHHHHh--cCccHHHH
Confidence            5555555  55554433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.68  E-value=4e-15  Score=143.59  Aligned_cols=236  Identities=14%  Similarity=0.062  Sum_probs=173.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh----cHHHH
Q 004362          462 FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNII----TYSIL  537 (759)
Q Consensus       462 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l  537 (759)
                      ..+......+...|++++|+..|+++.+... .+...+..+..++...|++++|+..++++.+..  ++..    .+..+
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~l   80 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--NATKAKSADFEYY   80 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--CchhHHHHHHHHH
Confidence            3455666777888888888888888887642 245577778888888888888888888888742  3333    37788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCC
Q 004362          538 GESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLN  617 (759)
Q Consensus       538 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  617 (759)
                      +..+...|++++|...++++.+. .+.+..++..++.+|...|++++|+..|+++.+.  .|.+...+..++..+...++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~  157 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDR-DTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKE  157 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-STTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcccHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHH
Confidence            88888888888888888888875 3446677888888888888888888888888877  77788888888834444458


Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCC---hHHHHHHHHHHHhC-CCCCCH------HHHHHHHHHHHhcCc
Q 004362          618 FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGG---INSGYCLLLENIDK-GFIPSL------STIGRVINCLCVDHR  687 (759)
Q Consensus       618 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~-g~~p~~------~~~~~l~~~~~~~g~  687 (759)
                      +++|+..++++.+.. +.+...+..++.++...|+   +++|+..++++++. .-.|+.      ..+..+...+...|+
T Consensus       158 ~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          158 YVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            888888888888653 3336777778888888887   77888888888762 111331      344455666677888


Q ss_pred             HHHHHHHHHHHHHCCCCCc
Q 004362          688 VHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       688 ~~~A~~~~~~~~~~~~~p~  706 (759)
                      +++|.++++++.+  +.|+
T Consensus       237 ~~~A~~~~~~al~--~~p~  253 (272)
T 3u4t_A          237 KVKADAAWKNILA--LDPT  253 (272)
T ss_dssp             HHHHHHHHHHHHH--HCTT
T ss_pred             HHHHHHHHHHHHh--cCcc
Confidence            8888888888877  4555

>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=99.68  E-value=6.4e-15  Score=147.04  Aligned_cols=195  Identities=11%  Similarity=0.025  Sum_probs=100.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCCChhcHHHHHHH
Q 004362          462 FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAK-SEDVMETFKTMIEKRCVPNIITYSILGES  540 (759)
Q Consensus       462 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  540 (759)
                      ..|..+...+...|++++|+..+++++.... -+...|+.+..++...|+ +++|+..|+++++.+ +-+...|..++.+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P-~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            3444455555555555555555555555421 134455555555555554 555555555555543 2244455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh-cCCHH
Q 004362          541 LCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE-KLNFY  619 (759)
Q Consensus       541 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~  619 (759)
                      +...|++++|+..|+++++. -+.+...|..+..++...|++++|+..|+++++.  .|.+..+|+.++.++.. .|..+
T Consensus       176 ~~~~g~~~eAl~~~~kal~l-dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQ-DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHccCHHHHHHHHHHHHHh-CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcch
Confidence            55555555555555555554 2334455555555555555555555555555555  55555555555555555 33334


Q ss_pred             HH-----HHHHHHHHHcCCCCC-HhhHHHHHHHHHhcC--ChHHHHHHHHHH
Q 004362          620 MA-----EKLFYEMSEKGCPPD-NYTYRIMIDSFCKTG--GINSGYCLLLEN  663 (759)
Q Consensus       620 ~A-----~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g--~~~~A~~~~~~~  663 (759)
                      +|     +..|+++++.  .|+ ...|..++.++...|  ++++|+..+.++
T Consensus       253 eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~  302 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL  302 (382)
T ss_dssp             HHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh
Confidence            44     3555555543  232 445555555555544  355555555554

>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=99.67  E-value=2e-14  Score=143.40  Aligned_cols=241  Identities=10%  Similarity=0.045  Sum_probs=196.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004362          427 WTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLK-MEIAIEILNTMWSHGVTPDVITYNSLLNG  505 (759)
Q Consensus       427 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  505 (759)
                      ..+..+...+...|++++|+..+++++... +.+...|+.+..++...|+ +++|+..|++++.... -+...|..+..+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
Confidence            456666677778888888888888888764 4467788888888888886 9999999998888643 367888888999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc-cCChhh
Q 004362          506 LCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN-SGDLDG  584 (759)
Q Consensus       506 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~  584 (759)
                      +...|++++|+..|+++++.+ +-+...|..++.++...|++++|+..++++++. .+.+...|+.+..++.. .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l-~P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE-DVRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcCcchH
Confidence            999999999999999998875 336778889999999999999999999999987 35578888999888888 666588


Q ss_pred             H-----HHHHHHHHHccCCCCchhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC------
Q 004362          585 A-----YQLFRRMEDQYKISHTTATYNIMINAFSEKL--NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTG------  651 (759)
Q Consensus       585 A-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g------  651 (759)
                      |     +..|++++..  .|.+..+|+.++.++...|  ++++|++.++++ +. -+.+...+..++.+|...|      
T Consensus       254 A~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccc
Confidence            8     5889999988  8999999999999999988  689999999988 33 2344788899999998874      


Q ss_pred             --C-hHHHHHHHHHH-HhCCCCCCHHHHHH
Q 004362          652 --G-INSGYCLLLEN-IDKGFIPSLSTIGR  677 (759)
Q Consensus       652 --~-~~~A~~~~~~~-~~~g~~p~~~~~~~  677 (759)
                        + +++|+.+++++ ++  ++|....++.
T Consensus       330 ~~~~~~~A~~~~~~l~~~--~DP~r~~~w~  357 (382)
T 2h6f_A          330 KEDILNKALELCEILAKE--KDTIRKEYWR  357 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHT--TCGGGHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHH--hCchhHHHHH
Confidence              3 58999999999 88  8897655543

>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=99.66  E-value=2.8e-12  Score=136.66  Aligned_cols=474  Identities=12%  Similarity=0.080  Sum_probs=264.4

Q ss_pred             hhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC---hhHHHHH
Q 004362          162 PHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGN---VRESEKL  238 (759)
Q Consensus       162 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~  238 (759)
                      ..+.+..|+..+..+ +-|..+|..++..+.+.+.++.+..+|++++.. .+.....|...+..-.+.|+   ++.+..+
T Consensus        48 ~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~l  125 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPV  125 (679)
T ss_dssp             CSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHH
Confidence            444555556555555 567777888877777777777777778777765 23345556666666666677   7777777


Q ss_pred             HHHHhhCC-CCCCHHHHHHHHHHHHhcCCH--------HHHHHHHHHHhh-CCC-CCC-cchHHHHHHHHHh--------
Q 004362          239 FNKVLKRG-VSPNLFTFNMFIQGLCRKGAI--------SEAISLLDSLGR-EDL-TPD-VVTYNTLMCGLCK--------  298 (759)
Q Consensus       239 ~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~--------~~a~~~~~~~~~-~~~-~~~-~~~~~~l~~~~~~--------  298 (759)
                      |++.+... ..|++..|...+....+.++.        +.+.++|+.... .|. .++ ...|...+.....        
T Consensus       126 feRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~e  205 (679)
T 4e6h_A          126 LARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFE  205 (679)
T ss_dssp             HHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHH
Confidence            77777653 136777777766665554443        223355555432 233 232 3455555544322        


Q ss_pred             -CCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHH
Q 004362          299 -NSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMA  377 (759)
Q Consensus       299 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  377 (759)
                       .++++.+..+|++.+..  +.. . +..+-..|..   ++.       -.      +..+...++.-  ...+++.|..
T Consensus       206 eq~~~~~~R~iy~raL~i--P~~-~-~~~~w~~Y~~---fe~-------~~------~~~~a~~~~~e--~~~~y~~Ar~  263 (679)
T 4e6h_A          206 EQQRVQYIRKLYKTLLCQ--PMD-C-LESMWQRYTQ---WEQ-------DV------NQLTARRHIGE--LSAQYMNARS  263 (679)
T ss_dssp             HHHHHHHHHHHHHHHTTS--CCS-S-HHHHHHHHHH---HHH-------HH------CTTTHHHHHHH--HHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhC--ccH-H-HHHHHHHHHH---HHH-------hc------CcchHHHHHHH--hhHHHHHHHH
Confidence             12334455555555421  111 0 1111111100   000       00      00000011100  0112333333


Q ss_pred             HHHHHHHc--CCC---CCH-HhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-------ChH
Q 004362          378 VYVKALEK--GLK---PSI-VLYNTLIKGLSQQG-LILQALQLMNEMSESGCCPDMWTYNIVINGLCKMG-------CVS  443 (759)
Q Consensus       378 ~~~~~~~~--~~~---~~~-~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~  443 (759)
                      .+.++...  ++.   |.. ...+  ....-..+ .....+               ..|...+.---..+       ..+
T Consensus       264 ~~~e~~~~~~~l~r~~p~~~~~~~--~~~~p~~~~~~~~ql---------------~lW~~yi~fEk~~~~~l~~~~~~~  326 (679)
T 4e6h_A          264 LYQDWLNITKGLKRNLPITLNQAT--ESNLPKPNEYDVQQL---------------LIWLEWIRWESDNKLELSDDLHKA  326 (679)
T ss_dssp             HHHHHHHHTTTCCCCCCSSSTTCC--TTTSCCTTCCCHHHH---------------HHHHHHHHHHHTCTTCCCHHHHHH
T ss_pred             HHHHHHHHHHhHhhccccccccch--hccCCCCchhHHHHH---------------HHHHHHHHHHHhCCccccchhhHH
Confidence            33332211  000   000 0000  00000000 000001               12222222111111       122


Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          444 DANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAI-EILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTM  522 (759)
Q Consensus       444 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  522 (759)
                      .+..+|++++... +.....|...+..+...|+.++|. .+|++.... .+.+...|...+......|+++.|.++|+.+
T Consensus       327 Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~  404 (679)
T 4e6h_A          327 RMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSC  404 (679)
T ss_dssp             HHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3455666666542 446677777777777777777775 888877764 3345666667777777778888888888877


Q ss_pred             HHcCC---------CCC------------hhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc-C
Q 004362          523 IEKRC---------VPN------------IITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS-G  580 (759)
Q Consensus       523 ~~~~~---------~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g  580 (759)
                      ++...         .|+            ...|...+....+.|..+.|..+|.++++.........|...+..-.+. +
T Consensus       405 l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~  484 (679)
T 4e6h_A          405 IDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISK  484 (679)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCC
Confidence            75310         121            2356777777778888999999999998751122344555444444444 4


Q ss_pred             ChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHhhHHHHHHHHHhcCChHHHHH
Q 004362          581 DLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP--DNYTYRIMIDSFCKTGGINSGYC  658 (759)
Q Consensus       581 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~  658 (759)
                      +.+.|.++|+...+.  .|.++..|...+......|+.+.|..+|+++++...++  ....|..++..-...|+.+.+..
T Consensus       485 d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          485 DTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             CCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            589999999999988  77788888888888888899999999999998763212  24678888888888899999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          659 LLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       659 ~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      +.+++.+  ..|+......+...|
T Consensus       563 v~~R~~~--~~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          563 LEKRFFE--KFPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHHH--HSTTCCHHHHHHHHT
T ss_pred             HHHHHHH--hCCCCcHHHHHHHHh
Confidence            9999998  778766666665555

>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=99.66  E-value=2e-13  Score=131.61  Aligned_cols=223  Identities=8%  Similarity=-0.013  Sum_probs=141.9

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhcHH
Q 004362          460 DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCK----AAKSEDVMETFKTMIEKRCVPNIITYS  535 (759)
Q Consensus       460 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  535 (759)
                      ++.++..+...|...|++++|...|++..+.   .+...+..+...|..    .+++++|+..|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4455555666666666666666666666652   244556666666666    666666666666666654   455666


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc----cCChhhHHHHHHHHHHccCCCCchhhHHH
Q 004362          536 ILGESLCK----AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN----SGDLDGAYQLFRRMEDQYKISHTTATYNI  607 (759)
Q Consensus       536 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  607 (759)
                      .++..|..    .+++++|...+++..+.+   +...+..+..+|..    .+++++|+..|+++.+..    +...+..
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~----~~~a~~~  151 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN----DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT----CHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC----cHHHHHH
Confidence            66666666    667777777777666653   55566666666666    677777777777766651    4456666


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          608 MINAFSE----KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK----TGGINSGYCLLLENIDKGFIPSLSTIGRVI  679 (759)
Q Consensus       608 l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  679 (759)
                      ++.+|..    .+++++|+..|+++.+.+   +...+..++.+|..    .+++++|+.+++++++  ..| ...+..+.
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~--~~~-~~a~~~l~  225 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACE--LEN-GGGCFNLG  225 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHH--TTC-HHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHh--CCC-HHHHHHHH
Confidence            6666666    667777777777766542   34566666666666    6777777777777776  333 34445555


Q ss_pred             HHHHh----cCcHHHHHHHHHHHHHC
Q 004362          680 NCLCV----DHRVHEAVGFVHLMVQK  701 (759)
Q Consensus       680 ~~~~~----~g~~~~A~~~~~~~~~~  701 (759)
                      ..+..    .+++++|.++++++.+.
T Consensus       226 ~~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          226 AMQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHHHcCCCcccCHHHHHHHHHHHHHc
Confidence            55555    66777777777776663

>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=99.66  E-value=3.7e-14  Score=134.96  Aligned_cols=206  Identities=12%  Similarity=0.038  Sum_probs=105.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHH
Q 004362          462 FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESL  541 (759)
Q Consensus       462 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  541 (759)
                      ..+..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|.+.++++.+.. +.+...+..++..+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            334444555555555555555555555432 2234455555555555555555555555555442 22344455555555


Q ss_pred             HhcCCHHHHHHHHHHHHHCC-CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHH
Q 004362          542 CKAHKITEAFNLLEEMENKG-LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYM  620 (759)
Q Consensus       542 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  620 (759)
                      ...|++++|..+++++.+.+ .+.+...+..++.+|...|++++|...|+++...  .|.+...+..++.++...|++++
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHH
Confidence            55555555555555555411 1223444555555555555555555555555554  44455555555555555555555


Q ss_pred             HHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          621 AEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       621 A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                      |...++++.+.. +.+...+..++..+...|++++|..+++++++  ..|+...
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~  244 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKR--LYPGSLE  244 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTSHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH--HCCCCHH
Confidence            555555555331 22344455555555555555555555555555  4444433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.65  E-value=8.5e-15  Score=138.59  Aligned_cols=210  Identities=14%  Similarity=0.057  Sum_probs=125.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHH
Q 004362          460 DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGE  539 (759)
Q Consensus       460 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  539 (759)
                      ....+..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|+..++++.+.. +.+...+..++.
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            34455556666666777777777777766643 2356666666667777777777777777766653 234556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHH
Q 004362          540 SLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFY  619 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  619 (759)
                      .+...|++++|...++++.+. .+.+...+..++.++...|++++|+..++++...  .|.+...+..++.++...|+++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRA-GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH-TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHhccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHH
Confidence            677777777777777776664 2445566666677777777777777777777666  5666667777777777777777


Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 004362          620 MAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGR  677 (759)
Q Consensus       620 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  677 (759)
                      +|+..++++.+.. +.+..++..++.+|...|++++|+.+++++++  +.|++.....
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~  231 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAID--IQPDHMLALH  231 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH--HCTTCHHHHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc--cCcchHHHHH
Confidence            7777777766542 33466666777777777777777777777776  5565544433

>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=99.65  E-value=3.6e-13  Score=129.74  Aligned_cols=229  Identities=10%  Similarity=-0.023  Sum_probs=175.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004362          425 DMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCK----QLKMEIAIEILNTMWSHGVTPDVITYN  500 (759)
Q Consensus       425 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~  500 (759)
                      +..++..+...+...|++++|...|++..+.   .+...+..+...|..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4455666666677777777777777777663   245566667777777    778888888888777764   666777


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCccHHHHHHH
Q 004362          501 SLLNGLCK----AAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK----AHKITEAFNLLEEMENKGLTLDTVAFGTL  572 (759)
Q Consensus       501 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  572 (759)
                      .+...|..    .+++++|+..|++..+.+   +...+..++..|..    .+++++|...+++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            77777777    788888888888887764   56777778888887    888888888888888764   55667777


Q ss_pred             HHHHHc----cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 004362          573 INGFCN----SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE----KLNFYMAEKLFYEMSEKGCPPDNYTYRIMI  644 (759)
Q Consensus       573 ~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  644 (759)
                      ..+|..    .+++++|+..|++..+.    .++..+..++.+|..    .+++++|+..++++.+.+  | ...+..++
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~-~~a~~~l~  225 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--N-GGGCFNLG  225 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--C-HHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC--C-HHHHHHHH
Confidence            777877    88899999999888876    246778888888888    889999999999988763  2 66778888


Q ss_pred             HHHHh----cCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          645 DSFCK----TGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       645 ~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                      .+|..    .+++++|+.+++++++  ..|+...
T Consensus       226 ~~~~~g~~~~~~~~~A~~~~~~a~~--~~~~~a~  257 (273)
T 1ouv_A          226 AMQYNGEGVTRNEKQAIENFKKGCK--LGAKGAC  257 (273)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHH--HTCHHHH
T ss_pred             HHHHcCCCcccCHHHHHHHHHHHHH--cCCHHHH
Confidence            88888    8999999999999988  5565443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.64  E-value=6.8e-14  Score=130.49  Aligned_cols=199  Identities=9%  Similarity=0.002  Sum_probs=86.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHH
Q 004362          462 FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESL  541 (759)
Q Consensus       462 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  541 (759)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|.+.++++.+.. +.+..++..++..+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            334444444444445555544444444432 1233444444444444444444444444444432 12333444444444


Q ss_pred             Hhc-CCHHHHHHHHHHHHHCC-CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHH
Q 004362          542 CKA-HKITEAFNLLEEMENKG-LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFY  619 (759)
Q Consensus       542 ~~~-~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  619 (759)
                      ... |++++|...++++.+.+ .+.+...+..++.++...|++++|+..++++.+.  .|.+...+..++.++...|+++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHH
Confidence            444 44444444444444311 1112333444444444444444444444444444  3444444444444444444444


Q ss_pred             HHHHHHHHHHHcCCC-CCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          620 MAEKLFYEMSEKGCP-PDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       620 ~A~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +|...++++.+.. + .+...+..+...+...|+.+.|..+++.+.+
T Consensus       165 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          165 DADYYFKKYQSRV-EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            4444444444331 1 2233333333444444444444444444443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=2.4e-14  Score=138.35  Aligned_cols=244  Identities=9%  Similarity=-0.088  Sum_probs=160.6

Q ss_pred             cCChHHHHHHHHHHHHCCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004362          439 MGCVSDANNLVNDAISKGY---IPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDV  515 (759)
Q Consensus       439 ~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  515 (759)
                      .|++++|...++.+.+...   +.+..++..+...|...|++++|...|+++.+.. +.+..++..+..++...|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            4556667777766665421   1134556666777777777777777777777653 23566777777777777777777


Q ss_pred             HHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHc
Q 004362          516 METFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ  595 (759)
Q Consensus       516 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  595 (759)
                      +..|+++++.. +.+...+..++.++...|++++|...++++.+..  |+..........+...|++++|...++.....
T Consensus        97 ~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           97 YEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            77777777753 3356677777777777888888888887777642  22222233334445668888888888777766


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-----HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 004362          596 YKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-----NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIP  670 (759)
Q Consensus       596 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  670 (759)
                        .|++...+. ++..+...++.++|+..++++.+.  .|+     ..++..++.+|...|++++|+.+++++++  ..|
T Consensus       174 --~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p  246 (275)
T 1xnf_A          174 --SDKEQWGWN-IVEFYLGNISEQTLMERLKADATD--NTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NNV  246 (275)
T ss_dssp             --SCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCS--HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCC
T ss_pred             --CCcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcc--cccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh--CCc
Confidence              555554443 666667777778888888877643  232     46777888888888888888888888888  667


Q ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHH
Q 004362          671 SLSTIGRVINCLCVDHRVHEAVGFV  695 (759)
Q Consensus       671 ~~~~~~~l~~~~~~~g~~~~A~~~~  695 (759)
                      ++...  ....+...|++++|++.+
T Consensus       247 ~~~~~--~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          247 HNFVE--HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TTCHH--HHHHHHHHHHHHHC----
T ss_pred             hhHHH--HHHHHHHHHHHHhhHHHH
Confidence            54322  234556778888877765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.63  E-value=8.6e-14  Score=129.80  Aligned_cols=201  Identities=6%  Similarity=-0.065  Sum_probs=167.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN  574 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  574 (759)
                      +...+..+...+...|++++|++.++++.+.. +.+...+..++..+...|++++|...++++.+. .+.+...+..++.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSI-KPDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHh-CCCChHHHHHHHH
Confidence            56678888889999999999999999998864 345778888999999999999999999999886 3557788888999


Q ss_pred             HHHcc-CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCCh
Q 004362          575 GFCNS-GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGI  653 (759)
Q Consensus       575 ~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  653 (759)
                      +|... |++++|+..++++......|.+...+..++.++...|++++|+..++++.+.. +.+..++..++.++...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            99999 99999999999998833366678889999999999999999999999998763 33488888999999999999


Q ss_pred             HHHHHHHHHHHhCCCCC-CHHHHHHHH-HHHHhcCcHHHHHHHHHHHHH
Q 004362          654 NSGYCLLLENIDKGFIP-SLSTIGRVI-NCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       654 ~~A~~~~~~~~~~g~~p-~~~~~~~l~-~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ++|..+++++++  ..| +.......+ ..+...|+.++|..+++.+..
T Consensus       164 ~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          164 GDADYYFKKYQS--RVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHH--HHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--hCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            999999999988  666 544444444 444788999999999999876

>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=99.63  E-value=9.3e-14  Score=132.19  Aligned_cols=201  Identities=9%  Similarity=-0.076  Sum_probs=170.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHH
Q 004362          496 VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLING  575 (759)
Q Consensus       496 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  575 (759)
                      ...+..+...+...|++++|+..|+++.+.. +.+...+..++..+...|++++|...++++.+. .+.+...+..++.+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALAS-DSRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-CcCcHHHHHHHHHH
Confidence            5667888888999999999999999998874 346778889999999999999999999999886 35577888999999


Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  655 (759)
                      |...|++++|++.|+++......|.+...+..++.++...|++++|+..++++.+.. +.+..++..++.++...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998822367788899999999999999999999999998763 3458889999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHHC
Q 004362          656 GYCLLLENIDKGFIPSLS-TIGRVINCLCVDHRVHEAVGFVHLMVQK  701 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~  701 (759)
                      |..+++++++  ..|+.. .+..+...+...|++++|.++++++.+.
T Consensus       194 A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQ--GGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHT--TSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            9999999998  666544 4455556667899999999999999873

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.62  E-value=6.7e-14  Score=125.66  Aligned_cols=172  Identities=10%  Similarity=0.038  Sum_probs=115.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN  574 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  574 (759)
                      +...|..+..+|...|++++|++.|++.++.. +-+..++..++.++...|++++|...+..+... .+.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL-DTTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-CchhHHHHHHHHH
Confidence            45566666666777777777777777766653 224556666666777777777777777766654 3445556666666


Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGIN  654 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  654 (759)
                      .+...++++.|...+.++...  .|.+..++..++.+|...|++++|++.|+++++.. |.+..+|..++.+|...|+++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence            677777777777777777766  66667777777777777777777777777776542 333666777777777777777


Q ss_pred             HHHHHHHHHHhCCCCCCHH
Q 004362          655 SGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       655 ~A~~~~~~~~~~g~~p~~~  673 (759)
                      +|+..|+++++  +.|++.
T Consensus       159 ~A~~~~~~al~--~~p~~a  175 (184)
T 3vtx_A          159 EAVKYFKKALE--KEEKKA  175 (184)
T ss_dssp             HHHHHHHHHHH--TTHHHH
T ss_pred             HHHHHHHHHHh--CCccCH
Confidence            77777777777  666554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.62  E-value=7.9e-15  Score=141.83  Aligned_cols=223  Identities=9%  Similarity=-0.054  Sum_probs=140.2

Q ss_pred             cCCChHHHHHHHHHhhhcCCCCC--CHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChh
Q 004362           16 HQKNPLTALEMFNSVKREDGFKH--TLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQ   93 (759)
Q Consensus        16 ~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   93 (759)
                      .++++++|+..|+.+....+..+  ....+..++.++...|++++|...|+.+...+|.  +..++..++.+|...|+++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~--~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD--MPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHTTCHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC--cHHHHHHHHHHHHHccCHH
Confidence            45677888888887766422111  3456677777777788888888888887777776  6777777777888888888


Q ss_pred             HHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhch
Q 004362           94 EAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMP  173 (759)
Q Consensus        94 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  173 (759)
                      +|+..|+++.... +.+...+..++.++...|++++|...|+++.+..  |+.......+..+...|++++|...+++..
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            8888887777554 3456667777777777777777777777777643  433333333344455567777777776655


Q ss_pred             hCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHhhC
Q 004362          174 SQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISP---DIATFNKLIHTLCKKGNVRESEKLFNKVLKR  245 (759)
Q Consensus       174 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  245 (759)
                      ... +++...+. ++..+...++.++|++.+++........   +...+..+...+...|++++|...|++++..
T Consensus       172 ~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          172 EKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            543 33333333 4555556666666666666665432110   1344555555555666666666666655554

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.62  E-value=3.1e-14  Score=134.73  Aligned_cols=203  Identities=11%  Similarity=0.081  Sum_probs=155.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN  574 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  574 (759)
                      ....+..+...+...|++++|+..|+++.+.. +.+...+..++..+...|++++|...++++.+. .+.+...+..++.
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALEL-DSSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCcchHHHHHHHH
Confidence            45567777888889999999999999998763 446778888899999999999999999999876 3557788888999


Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGIN  654 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  654 (759)
                      +|...|++++|...++++...  .|.+...+..++.++...|++++|+..++++.+.. +.+..++..++.++...|+++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            999999999999999999888  77888899999999999999999999999998763 445888889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          655 SGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       655 ~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      +|+.+++++++  ..|+ ...+..+...+...|++++|.+.++++.+  ..|+
T Consensus       177 ~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~p~  225 (243)
T 2q7f_A          177 EALSQFAAVTE--QDPGHADAFYNAGVTYAYKENREKALEMLDKAID--IQPD  225 (243)
T ss_dssp             HHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH--HCTT
T ss_pred             HHHHHHHHHHH--hCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHc--cCcc
Confidence            99999999988  5665 45556677777889999999999999887  4555

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.61  E-value=1.6e-11  Score=130.89  Aligned_cols=444  Identities=10%  Similarity=0.028  Sum_probs=279.5

Q ss_pred             ChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCC---hhHH
Q 004362           19 NPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGK---VQEA   95 (759)
Q Consensus        19 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A   95 (759)
                      .+.+-+..|+..+...+  .+...|..++..+.+.+.++.+..+|+++....|.  ....|...+....+.|+   ++.+
T Consensus        47 ~~~d~i~~lE~~l~~np--~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~--~~~lW~~Yi~~E~~~~~~~~~~~v  122 (679)
T 4e6h_A           47 DESDVIGKLNDMIEEQP--TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPL--MANIWCMRLSLEFDKMEELDAAVI  122 (679)
T ss_dssp             CCSCHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHTC--CCCHHHH
T ss_pred             CCHHHHHHHHHHHHHCc--CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHhhCCcchHHHH
Confidence            45667777787777654  48899999999999999999999999999999998  88899999999889998   9999


Q ss_pred             HHHHHHhhhCC-CCCCHHHHHHHHHHHHHcCCh--------hHHHHHHHHHHHC-CC-CC-CHHHHHHHHHHHHc-----
Q 004362           96 VDVFERMDFYN-CEPTVLSYNTIMNILVEYGYF--------SQVHKVYMRMRNK-GI-VP-DVYTFVIRIKSFCR-----  158 (759)
Q Consensus        96 ~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~~~-~~-~~-~~~~~~~l~~~~~~-----  158 (759)
                      ..+|++..... .+|++..|...+....+.++.        +.+.++|+..+.. |. .+ +...|...+.....     
T Consensus       123 ~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~  202 (679)
T 4e6h_A          123 EPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVN  202 (679)
T ss_dssp             HHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCS
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccC
Confidence            99999998654 138888999888776665554        3355788887653 55 44 45678777765432     


Q ss_pred             ----cCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhH
Q 004362          159 ----TRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRE  234 (759)
Q Consensus       159 ----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  234 (759)
                          .++.+.++.+|+.+.......-..+|......-...+ ...+..++.+.                     ..+++.
T Consensus       203 ~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~-~~~a~~~~~e~---------------------~~~y~~  260 (679)
T 4e6h_A          203 KFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVN-QLTARRHIGEL---------------------SAQYMN  260 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHC-TTTHHHHHHHH---------------------HHHHHH
T ss_pred             cHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcC-cchHHHHHHHh---------------------hHHHHH
Confidence                3456778889988875321112233433222111111 11111111111                     011222


Q ss_pred             HHHHHHHHhhC--CC----C-----------C-----C---HHHHHHHHHHHHhcC-------CHHHHHHHHHHHhhCCC
Q 004362          235 SEKLFNKVLKR--GV----S-----------P-----N---LFTFNMFIQGLCRKG-------AISEAISLLDSLGREDL  282 (759)
Q Consensus       235 a~~~~~~~~~~--~~----~-----------~-----~---~~~~~~l~~~~~~~g-------~~~~a~~~~~~~~~~~~  282 (759)
                      |...+.++...  ++    +           |     +   ...|...+..--..+       ..+.+..+|++..... 
T Consensus       261 Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-  339 (679)
T 4e6h_A          261 ARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-  339 (679)
T ss_dssp             HHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-
T ss_pred             HHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-
Confidence            22222221100  00    0           0     0   123444444332222       1234455666665442 


Q ss_pred             CCCcchHHHHHHHHHhCCChHHHH-HHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCC---------C
Q 004362          283 TPDVVTYNTLMCGLCKNSKVVEAE-YYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKG---------F  352 (759)
Q Consensus       283 ~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------~  352 (759)
                      +.+...|...+..+...|+.++|. .+|++.... .+.+...|...+....+.|+++.|.++|+.++...         .
T Consensus       340 p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~  418 (679)
T 4e6h_A          340 CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMED  418 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            445666777777777777777775 777777764 33344455666677777778888888877776531         0


Q ss_pred             CC------------CcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhc-CCHHHHHHHHHHHHh
Q 004362          353 VP------------DEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQ-GLILQALQLMNEMSE  419 (759)
Q Consensus       353 ~~------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~  419 (759)
                      .|            ...+|...+....+.|+.+.|+.+|..+++..+......|...+..-.+. ++.+.|..+|+...+
T Consensus       419 ~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk  498 (679)
T 4e6h_A          419 DPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLK  498 (679)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHH
T ss_pred             cCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            12            12357777777777888888888888887751122333443333333333 447888888888877


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004362          420 SGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIP--DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHG  491 (759)
Q Consensus       420 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  491 (759)
                      . ++.+...+...+......|+.+.|..+|+..+....++  ....|...+..-.+.|+.+.+.++.+++.+.-
T Consensus       499 ~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          499 Y-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             H-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             H-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            6 34455666677777778888889999998888764321  34567777777778899999999999888763

>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=3.5e-15  Score=158.27  Aligned_cols=112  Identities=14%  Similarity=0.186  Sum_probs=58.6

Q ss_pred             HhHHHHHHHHHhcCChhHHHHHHHHHHh---CCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHH
Q 004362          182 VAYCTLIAGFYEENHNVEAYELFDEMLG---MGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFI  258 (759)
Q Consensus       182 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  258 (759)
                      .+||++|.+|++.|+.++|.++|++|.+   .|..||..|||.||.+|++.|++++|.++|++|.+.|+.||..||+++|
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            3455555555555555555555544432   2445555555555555555555555555555555555555555555555


Q ss_pred             HHHHhcCCH-HHHHHHHHHHhhCCCCCCcchHHHHH
Q 004362          259 QGLCRKGAI-SEAISLLDSLGREDLTPDVVTYNTLM  293 (759)
Q Consensus       259 ~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~l~  293 (759)
                      .++++.|+. ++|.++|++|...|+.||..+|+.++
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll  243 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLL  243 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCC
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhccccc
Confidence            555555542 44555555555555555555555444

>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=3.6e-15  Score=158.11  Aligned_cols=119  Identities=12%  Similarity=0.144  Sum_probs=97.4

Q ss_pred             CHHHHHHHHHHHHccCChhhHHHHHhhchh---CCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHH
Q 004362          145 DVYTFVIRIKSFCRTRRPHVALRLLKNMPS---QGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNK  221 (759)
Q Consensus       145 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  221 (759)
                      -..||+++|.+|++.|+.++|.++|+.|.+   .|+.||+.+||+||.+|++.|++++|.++|++|...|+.||..||+.
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            356788888888888888888888876553   46788888888888888888888888888888888888888888888


Q ss_pred             HHHHHHhcCCh-hHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh
Q 004362          222 LIHTLCKKGNV-RESEKLFNKVLKRGVSPNLFTFNMFIQGLCR  263 (759)
Q Consensus       222 l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  263 (759)
                      +|.++++.|+. +.|.++|++|.+.|+.||..+|+.++....+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR  248 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR  248 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH
Confidence            88888888874 6788888888888888888888887765544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.59  E-value=2.8e-14  Score=147.08  Aligned_cols=265  Identities=13%  Similarity=0.060  Sum_probs=165.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CCCCHHHHHHHH
Q 004362          433 INGLCKMGCVSDANNLVNDAISKGYIPDI----FTFNTLIDGYCKQLKMEIAIEILNTMWSH----G-VTPDVITYNSLL  503 (759)
Q Consensus       433 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~-~~~~~~~~~~l~  503 (759)
                      ...+...|++++|...++++.+.. +.+.    .++..+...|...|++++|...++++...    + .+.....+..+.
T Consensus        55 g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  133 (411)
T 4a1s_A           55 GERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLG  133 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHH
Confidence            334444455555555555444432 1111    23444455555555555555555544432    0 011234455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc----C-CCCChhcHHHHHHHHHhcCC-----------------HHHHHHHHHHHHHC-
Q 004362          504 NGLCKAAKSEDVMETFKTMIEK----R-CVPNIITYSILGESLCKAHK-----------------ITEAFNLLEEMENK-  560 (759)
Q Consensus       504 ~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~-  560 (759)
                      ..|...|++++|+..+++..+.    + ......++..++..+...|+                 +++|...+++..+. 
T Consensus       134 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  213 (411)
T 4a1s_A          134 NTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLM  213 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            6666666666666666665543    1 01123356666677777777                 77777777766542 


Q ss_pred             ---CC-CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          561 ---GL-TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT----TATYNIMINAFSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       561 ---~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  632 (759)
                         +. +.....+..+..+|...|++++|+..++++........+    ..++..++.+|...|++++|+..++++.+..
T Consensus       214 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  293 (411)
T 4a1s_A          214 RDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALA  293 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence               11 122346777888888899999999999888765211111    2377888999999999999999998877541


Q ss_pred             CC-C----CHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-------HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          633 CP-P----DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-------LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       633 ~~-p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      -. .    ...++..++.++...|++++|+.+++++++  +.++       ...+..+...+...|++++|.++++++.+
T Consensus       294 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          294 VELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLA--IAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            00 1    146788888999999999999999999886  3221       22445666677889999999999999987

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.58  E-value=2.5e-13  Score=121.93  Aligned_cols=169  Identities=10%  Similarity=0.010  Sum_probs=149.6

Q ss_pred             ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          530 NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       530 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +...|..++..+...|++++|+..|+++++. .|.+..++..++.+|...|++++|+..++.+...  .|.+...+..++
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA-DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            5678889999999999999999999999987 3567888999999999999999999999999988  788899999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCcH
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-STIGRVINCLCVDHRV  688 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~  688 (759)
                      ..+...++++.|...++++.+.. +.+...+..++.++...|++++|+..|+++++  +.|+. ..+..+..++...|++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~lg~~~~~~g~~  157 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTIS--IKPGFIRAYQSIGLAYEGKGLR  157 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHH--hcchhhhHHHHHHHHHHHCCCH
Confidence            99999999999999999998763 44588899999999999999999999999999  77864 5566777777899999


Q ss_pred             HHHHHHHHHHHHCCCCCc
Q 004362          689 HEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       689 ~~A~~~~~~~~~~~~~p~  706 (759)
                      ++|++.++++++  ++|+
T Consensus       158 ~~A~~~~~~al~--~~p~  173 (184)
T 3vtx_A          158 DEAVKYFKKALE--KEEK  173 (184)
T ss_dssp             HHHHHHHHHHHH--TTHH
T ss_pred             HHHHHHHHHHHh--CCcc
Confidence            999999999988  6676

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.57  E-value=8.6e-14  Score=143.22  Aligned_cols=271  Identities=14%  Similarity=0.074  Sum_probs=161.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHH
Q 004362          429 YNIVINGLCKMGCVSDANNLVNDAISKGYIPD----IFTFNTLIDGYCKQLKMEIAIEILNTMWSH----GVTP-DVITY  499 (759)
Q Consensus       429 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~  499 (759)
                      +......+...|++++|...++++.... +.+    ..++..+...|...|++++|...++++...    +-.| ...++
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   90 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   90 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHH
Confidence            3333444444444444444444444432 111    123444444555555555555555544321    1011 13344


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC----hhcHHHHHHHHHhcCC--------------------HHHHHHHH
Q 004362          500 NSLLNGLCKAAKSEDVMETFKTMIEKRC-VPN----IITYSILGESLCKAHK--------------------ITEAFNLL  554 (759)
Q Consensus       500 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~  554 (759)
                      ..+...+...|++++|+..+++..+... .++    ..++..++..+...|+                    +++|...+
T Consensus        91 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  170 (406)
T 3sf4_A           91 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFY  170 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            5555556666666666666665554310 001    2355666666666677                    77777777


Q ss_pred             HHHHHC----CC-CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC----chhhHHHHHHHHHhcCCHHHHHHHH
Q 004362          555 EEMENK----GL-TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH----TTATYNIMINAFSEKLNFYMAEKLF  625 (759)
Q Consensus       555 ~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~  625 (759)
                      ++..+.    +. +....++..+..+|...|++++|+..++++.......+    ...++..++.+|...|++++|+..+
T Consensus       171 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  250 (406)
T 3sf4_A          171 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  250 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            666542    11 11234577778888888888888888888876521111    1337788888899999999999999


Q ss_pred             HHHHHcC----CCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCcHHHHHHHH
Q 004362          626 YEMSEKG----CPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDK----GFIPS-LSTIGRVINCLCVDHRVHEAVGFV  695 (759)
Q Consensus       626 ~~~~~~~----~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~  695 (759)
                      +++.+..    -.+. ..++..++.+|...|++++|+.+++++++.    +-.+. ...+..+...+...|++++|..++
T Consensus       251 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  330 (406)
T 3sf4_A          251 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFA  330 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8876431    1111 457788888999999999999999988762    11111 334455666667889999999999


Q ss_pred             HHHHH
Q 004362          696 HLMVQ  700 (759)
Q Consensus       696 ~~~~~  700 (759)
                      +++.+
T Consensus       331 ~~al~  335 (406)
T 3sf4_A          331 EKHLE  335 (406)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.56  E-value=1.3e-13  Score=137.80  Aligned_cols=264  Identities=15%  Similarity=0.104  Sum_probs=160.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHH
Q 004362          434 NGLCKMGCVSDANNLVNDAISKGYIPD----IFTFNTLIDGYCKQLKMEIAIEILNTMWSH----GVT-PDVITYNSLLN  504 (759)
Q Consensus       434 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~-~~~~~~~~l~~  504 (759)
                      ..+...|++++|...++++.+.. +.+    ...+..+...|...|++++|...+++....    +.. ....++..+..
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~   91 (338)
T 3ro2_A           13 ERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   91 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            33444444455554444444432 111    233444445555555555555555544321    101 11334555556


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCC-CCC----hhcHHHHHHHHHhcCC--------------------HHHHHHHHHHHHH
Q 004362          505 GLCKAAKSEDVMETFKTMIEKRC-VPN----IITYSILGESLCKAHK--------------------ITEAFNLLEEMEN  559 (759)
Q Consensus       505 ~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~  559 (759)
                      .+...|++++|...+++..+... .++    ..++..++..+...|+                    +++|...+++...
T Consensus        92 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           92 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            66666666666666666554310 011    2255566666666676                    7777777766553


Q ss_pred             C----CC-CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCC----CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          560 K----GL-TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKI----SHTTATYNIMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       560 ~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      .    +. +....++..+...|...|++++|...++++......    +....++..++.++...|++++|...++++.+
T Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  251 (338)
T 3ro2_A          172 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  251 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2    11 112345777788888888888888888887654211    11233778888889999999999999988764


Q ss_pred             cC----CCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-------HHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 004362          631 KG----CPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-------LSTIGRVINCLCVDHRVHEAVGFVHLM  698 (759)
Q Consensus       631 ~~----~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~  698 (759)
                      ..    .++. ..++..++.++...|++++|..+++++++  +.|.       ...+..+...+...|++++|..+++++
T Consensus       252 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  329 (338)
T 3ro2_A          252 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA--IAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  329 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            31    1111 45778888899999999999999999876  3221       224455666678889999999999998


Q ss_pred             HH
Q 004362          699 VQ  700 (759)
Q Consensus       699 ~~  700 (759)
                      .+
T Consensus       330 ~~  331 (338)
T 3ro2_A          330 LE  331 (338)
T ss_dssp             HH
T ss_pred             HH
Confidence            76

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.55  E-value=3.8e-12  Score=124.70  Aligned_cols=221  Identities=11%  Similarity=0.016  Sum_probs=140.3

Q ss_pred             HHHHHHHHHHHHCCCCCCHhhHHHHHHHHH-------hcCCH-------HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004362          443 SDANNLVNDAISKGYIPDIFTFNTLIDGYC-------KQLKM-------EIAIEILNTMWSHGVTPDVITYNSLLNGLCK  508 (759)
Q Consensus       443 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  508 (759)
                      ++|..+|++++... +.++..|..++..+.       ..|++       ++|..+|++.+..-.+.+...|..++..+..
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            45556666665542 335556665555554       23654       6777777777762112245567777777777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCC-hh-cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHH-ccCChhhH
Q 004362          509 AAKSEDVMETFKTMIEKRCVPN-II-TYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFC-NSGDLDGA  585 (759)
Q Consensus       509 ~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A  585 (759)
                      .|++++|..+|+++++.  .|+ .. .|..++..+.+.|++++|..+|+++++.. +.+...|...+.... ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777777764  333 32 56667777777777777777777777652 334444444333322 25777777


Q ss_pred             HHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCC--HhhHHHHHHHHHhcCChHHHHHHHHH
Q 004362          586 YQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG-CPPD--NYTYRIMIDSFCKTGGINSGYCLLLE  662 (759)
Q Consensus       586 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~  662 (759)
                      ..+|+++.+.  .|.++..|..++..+...|++++|+.+|+++++.. ++|+  ...|..++..+...|+.++|..++++
T Consensus       189 ~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          189 FKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            7777777776  56677777777777777777777777777777642 3442  45667777777777777777777777


Q ss_pred             HHhCCCCCC
Q 004362          663 NIDKGFIPS  671 (759)
Q Consensus       663 ~~~~g~~p~  671 (759)
                      +++  ..|+
T Consensus       267 a~~--~~p~  273 (308)
T 2ond_A          267 RFT--AFRE  273 (308)
T ss_dssp             HHH--HTTT
T ss_pred             HHH--Hccc
Confidence            776  5554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.55  E-value=1.1e-13  Score=142.64  Aligned_cols=278  Identities=13%  Similarity=0.066  Sum_probs=171.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004362          360 CSLINGLCQDGDVDRAMAVYVKALEKGLKPSI----VLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVING  435 (759)
Q Consensus       360 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  435 (759)
                      ..+...+...|++++|+..|+++.+..+. +.    ..+..+...|...|++++|...+++.....              
T Consensus        52 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--------------  116 (411)
T 4a1s_A           52 ALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLA--------------  116 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--------------
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH--------------
Confidence            34445555566666666666665555332 22    244455555555555555555555543320              


Q ss_pred             HHhcCChHHHHHHHHHHHHCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CCCCHHHHHHHHHHHHhc
Q 004362          436 LCKMGCVSDANNLVNDAISKG-YIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSH----G-VTPDVITYNSLLNGLCKA  509 (759)
Q Consensus       436 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~  509 (759)
                                       ...+ .+....++..+...|...|++++|...++++...    + .+....++..+...|...
T Consensus       117 -----------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~  179 (411)
T 4a1s_A          117 -----------------KSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAK  179 (411)
T ss_dssp             -----------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------HHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHc
Confidence                             0000 0112234444555555555555555555554432    0 011233555666666666


Q ss_pred             CC-----------------HHHHHHHHHHHHHc----CC-CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----
Q 004362          510 AK-----------------SEDVMETFKTMIEK----RC-VPNIITYSILGESLCKAHKITEAFNLLEEMENKGL-----  562 (759)
Q Consensus       510 ~~-----------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----  562 (759)
                      |+                 +++|++.+++..+.    +. .....++..++..+...|++++|...+++..+...     
T Consensus       180 g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  259 (411)
T 4a1s_A          180 GKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDR  259 (411)
T ss_dssp             HHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             CcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCc
Confidence            66                 67777766665442    11 11233677778888888888888888888775310     


Q ss_pred             CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCC----CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC
Q 004362          563 TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKIS----HTTATYNIMINAFSEKLNFYMAEKLFYEMSEK----GCP  634 (759)
Q Consensus       563 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~  634 (759)
                      .....++..+..+|...|++++|+..++++.......    ....++..++.++...|++++|..+++++.+.    +..
T Consensus       260 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  339 (411)
T 4a1s_A          260 AAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDR  339 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCh
Confidence            0112367788889999999999999999887652111    12567888999999999999999999988754    111


Q ss_pred             CC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          635 PD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       635 p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      +. ..++..++.+|...|++++|..+++++++  +.+.
T Consensus       340 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~~~  375 (411)
T 4a1s_A          340 IGEARACWSLGNAHSAIGGHERALKYAEQHLQ--LAXX  375 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH--HHhh
Confidence            11 45788889999999999999999999998  5554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.55  E-value=9.3e-14  Score=142.95  Aligned_cols=276  Identities=11%  Similarity=0.063  Sum_probs=171.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004362          359 YCSLINGLCQDGDVDRAMAVYVKALEKGLKPS---IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVING  435 (759)
Q Consensus       359 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  435 (759)
                      +......+...|++++|...|+++....+...   ...+..+...+...|++++|...+++.....              
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------------   77 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA--------------   77 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--------------
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH--------------
Confidence            34455555566666666666666655533211   1344455555555555555555555543210              


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----CCCHHHHHHHHHHHHhc
Q 004362          436 LCKMGCVSDANNLVNDAISKGYI-PDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGV-----TPDVITYNSLLNGLCKA  509 (759)
Q Consensus       436 ~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~  509 (759)
                                       ...+.. ....++..+...|...|++++|...+++......     .....++..+...|...
T Consensus        78 -----------------~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~  140 (406)
T 3sf4_A           78 -----------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAK  140 (406)
T ss_dssp             -----------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------HhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHc
Confidence                             000000 0123344455555555555555555555443200     00133555666666667


Q ss_pred             CC--------------------HHHHHHHHHHHHHc----CCCC-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC----
Q 004362          510 AK--------------------SEDVMETFKTMIEK----RCVP-NIITYSILGESLCKAHKITEAFNLLEEMENK----  560 (759)
Q Consensus       510 ~~--------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  560 (759)
                      |+                    +++|+..+++....    +..| ...++..++..+...|++++|...++++.+.    
T Consensus       141 g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  220 (406)
T 3sf4_A          141 GKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEF  220 (406)
T ss_dssp             HHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHT
T ss_pred             CCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhc
Confidence            77                    77777777665542    1111 2336777788888888999888888887753    


Q ss_pred             CCC-ccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC----chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----
Q 004362          561 GLT-LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH----TTATYNIMINAFSEKLNFYMAEKLFYEMSEK----  631 (759)
Q Consensus       561 ~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----  631 (759)
                      +.+ ....++..++.+|...|++++|...++++.......+    ...++..++.+|...|++++|+..++++.+.    
T Consensus       221 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  300 (406)
T 3sf4_A          221 GDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  300 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhc
Confidence            111 1123678888899999999999999998876521111    1567888999999999999999999988753    


Q ss_pred             CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          632 GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       632 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +-.+. ..++..++.+|...|++++|+.+++++++
T Consensus       301 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          301 NDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            11111 56788899999999999999999999886

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.54  E-value=2.3e-13  Score=141.69  Aligned_cols=213  Identities=9%  Similarity=-0.017  Sum_probs=178.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHH
Q 004362          476 KMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKS-EDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLL  554 (759)
Q Consensus       476 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  554 (759)
                      .+++++..++...... +.+...+..+..++...|++ ++|++.|++.++.. +.+...+..++.+|...|++++|...|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3566677777666542 34678888888888999999 99999999988874 335778899999999999999999999


Q ss_pred             HHHHHCCCCccHHHHHHHHHHHHcc---------CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc--------CC
Q 004362          555 EEMENKGLTLDTVAFGTLINGFCNS---------GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK--------LN  617 (759)
Q Consensus       555 ~~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~  617 (759)
                      +++++.  .|+...+..+..+|...         |++++|+..|+++.+.  .|.+...|..++.+|...        |+
T Consensus       161 ~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          161 SGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccch
Confidence            999885  45678888899999998         9999999999999998  888999999999999998        99


Q ss_pred             HHHHHHHHHHHHHcCCCC----CHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCcHHHHH
Q 004362          618 FYMAEKLFYEMSEKGCPP----DNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS-TIGRVINCLCVDHRVHEAV  692 (759)
Q Consensus       618 ~~~A~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g~~~~A~  692 (759)
                      +++|+..|+++++.  .|    +...|..++.+|...|++++|+..|+++++  +.|+.. .+..+...+...|++++|+
T Consensus       237 ~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~a~~~l~~~~~~lg~~~eAi  312 (474)
T 4abn_A          237 SQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAA--LDPAWPEPQQREQQLLEFLSRLTSLL  312 (474)
T ss_dssp             HHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999976  45    588999999999999999999999999999  778755 4556666668889999999


Q ss_pred             HHHHHH
Q 004362          693 GFVHLM  698 (759)
Q Consensus       693 ~~~~~~  698 (759)
                      +.+.++
T Consensus       313 ~~~~~~  318 (474)
T 4abn_A          313 ESKGKT  318 (474)
T ss_dssp             HHTTTC
T ss_pred             HHhccc
Confidence            866553

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.53  E-value=4.8e-12  Score=123.92  Aligned_cols=218  Identities=8%  Similarity=-0.006  Sum_probs=163.6

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-------cCCH-------HHHHHHHHHHHHcCCCCChhcHHHHHHHHHh
Q 004362          478 EIAIEILNTMWSHGVTPDVITYNSLLNGLCK-------AAKS-------EDVMETFKTMIEKRCVPNIITYSILGESLCK  543 (759)
Q Consensus       478 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  543 (759)
                      ++|..+|++++... +.++..|..++..+..       .|++       ++|..+|++.++.-.+.+...|..++..+..
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            67888888888753 3467788888777653       4775       8899999988873112345578888888888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCccHH-HHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHH-hcCCHHHH
Q 004362          544 AHKITEAFNLLEEMENKGLTLDTV-AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFS-EKLNFYMA  621 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A  621 (759)
                      .|++++|..+|+++++.. +.+.. +|..++..+.+.|++++|+.+|+++.+.  .|++...|...+.... ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHHH
Confidence            899999999999988752 22343 7888888888889999999999998887  5666666665554433 36889999


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHH
Q 004362          622 EKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDK-GFIPS--LSTIGRVINCLCVDHRVHEAVGFVHLM  698 (759)
Q Consensus       622 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~  698 (759)
                      ..+|+++++.. +.+...|..++..+...|++++|+.+|+++++. .+.|+  ...|..++......|+.++|..+++++
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999888652 334788888888888889999999999998884 23553  345555666667789999999998888


Q ss_pred             HH
Q 004362          699 VQ  700 (759)
Q Consensus       699 ~~  700 (759)
                      .+
T Consensus       268 ~~  269 (308)
T 2ond_A          268 FT  269 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            87

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.53  E-value=9.9e-13  Score=133.71  Aligned_cols=231  Identities=9%  Similarity=-0.014  Sum_probs=167.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CC-----ChhcHH
Q 004362          467 LIDGYCKQLKMEIAIEILNTMWSH----GVTP-DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRC-VP-----NIITYS  535 (759)
Q Consensus       467 l~~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-----~~~~~~  535 (759)
                      ....+...|++++|...+++..+.    +-.+ ...++..+..+|...|++++|+..+++..+... .+     ...++.
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            455677888889998888888764    1111 245677888888889999999988888776411 11     134677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCC-ccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc---CC-CCchhhHH
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENK----GLT-LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY---KI-SHTTATYN  606 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~-~~~~~~~~  606 (759)
                      .++.+|...|++++|...++++.+.    +.+ ....++..++.+|...|++++|+..|+++....   .. |....++.
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            8888889999999999999888753    111 112467888899999999999999999887721   13 66677888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC---CCC-HhhHHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCCCHH-HHHHH
Q 004362          607 IMINAFSEKLNFYMAEKLFYEMSEKGC---PPD-NYTYRIMIDSFCKTGG---INSGYCLLLENIDKGFIPSLS-TIGRV  678 (759)
Q Consensus       607 ~l~~~~~~~g~~~~A~~~~~~~~~~~~---~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~g~~p~~~-~~~~l  678 (759)
                      .++.+|...|++++|...++++.+..-   .|. ...+..++..+...|+   +++|+.++++.   +..|+.. .+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            999999999999999999998775310   122 3345677788888888   77777777765   2334333 34456


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHH
Q 004362          679 INCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       679 ~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ...+...|++++|..+++++.+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            6666889999999999999875

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.52  E-value=2.7e-13  Score=135.41  Aligned_cols=276  Identities=11%  Similarity=0.072  Sum_probs=166.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          361 SLINGLCQDGDVDRAMAVYVKALEKGLKPS----IVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGL  436 (759)
Q Consensus       361 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  436 (759)
                      .....+...|++++|...|+++.+..+. +    ...+..+...+...|++++|...+++.....               
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---------------   73 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA---------------   73 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh---------------
Confidence            3445555566666666666666555332 2    2344455555555566666655555543310               


Q ss_pred             HhcCChHHHHHHHHHHHHCCC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcC
Q 004362          437 CKMGCVSDANNLVNDAISKGY-IPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGV-TPD----VITYNSLLNGLCKAA  510 (759)
Q Consensus       437 ~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~  510 (759)
                                      ...+. +....++..+...|...|++++|...+++..+... .++    ..++..+...+...|
T Consensus        74 ----------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~  137 (338)
T 3ro2_A           74 ----------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKG  137 (338)
T ss_dssp             ----------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------hcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcC
Confidence                            00000 01123344445555555555555555555433200 011    224555555666666


Q ss_pred             C--------------------HHHHHHHHHHHHHc----CCC-CChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC----C
Q 004362          511 K--------------------SEDVMETFKTMIEK----RCV-PNIITYSILGESLCKAHKITEAFNLLEEMENK----G  561 (759)
Q Consensus       511 ~--------------------~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~  561 (759)
                      +                    +++|.+.+++....    +.. ....++..++..+...|++++|...++++.+.    +
T Consensus       138 ~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~  217 (338)
T 3ro2_A          138 KSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFG  217 (338)
T ss_dssp             HTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHT
T ss_pred             cccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcC
Confidence            6                    66666666655432    111 12335667777888888888888888887653    1


Q ss_pred             C-CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC----chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----C
Q 004362          562 L-TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH----TTATYNIMINAFSEKLNFYMAEKLFYEMSEK----G  632 (759)
Q Consensus       562 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~  632 (759)
                      . .....++..++.++...|++++|...++++.......+    ...++..++.++...|++++|...++++.+.    +
T Consensus       218 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~  297 (338)
T 3ro2_A          218 DKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELK  297 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcC
Confidence            1 11233677888888999999999999988876521111    1567788899999999999999999988653    1


Q ss_pred             CCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 004362          633 CPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIP  670 (759)
Q Consensus       633 ~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  670 (759)
                      -++. ..++..++.+|...|++++|..+++++++  +.+
T Consensus       298 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~  334 (338)
T 3ro2_A          298 DRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE--ISR  334 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--C--
T ss_pred             CcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH--HHH
Confidence            1111 45788899999999999999999999998  544

>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=99.50  E-value=2e-12  Score=120.64  Aligned_cols=151  Identities=13%  Similarity=0.058  Sum_probs=72.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHH
Q 004362          460 DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGE  539 (759)
Q Consensus       460 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  539 (759)
                      ++..+......+...|++++|+..|++..+...+++...+..+..++...|++++|+..|++.++.. +.+...+..++.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            3444455555555555555555555555544322344444445555555555555555555555432 113334445555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCccH-------HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC--chhhHHHHHH
Q 004362          540 SLCKAHKITEAFNLLEEMENKGLTLDT-------VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH--TTATYNIMIN  610 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~~l~~  610 (759)
                      ++...|++++|...++++++. .+.+.       ..|..+...+...|++++|+..|+++.+.  .|.  +...+..++.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA-VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH-CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            555555555555555555443 12222       23444444445555555555555555444  444  4444455554


Q ss_pred             HHHh
Q 004362          611 AFSE  614 (759)
Q Consensus       611 ~~~~  614 (759)
                      +|..
T Consensus       162 ~~~~  165 (228)
T 4i17_A          162 LFYN  165 (228)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.50  E-value=2.2e-12  Score=131.13  Aligned_cols=231  Identities=8%  Similarity=-0.046  Sum_probs=174.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C----CCCHHHHH
Q 004362          432 VINGLCKMGCVSDANNLVNDAISK----GYIP-DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHG--V----TPDVITYN  500 (759)
Q Consensus       432 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~----~~~~~~~~  500 (759)
                      ....+...|++++|...+++....    +.++ ...++..+...|...|+++.|...+++..+..  .    .....+++
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            445566788888888888887754    1111 23567778888888899988888888876531  1    11235677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhcHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CccHHHHH
Q 004362          501 SLLNGLCKAAKSEDVMETFKTMIEKRCV-PN----IITYSILGESLCKAHKITEAFNLLEEMENK----GL-TLDTVAFG  570 (759)
Q Consensus       501 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  570 (759)
                      .+..+|...|++++|++.|++.++.... ++    ..++..++.+|...|++++|...+++..+.    +. +....++.
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            8888899999999999999888764111 11    237888999999999999999999998872    23 44567788


Q ss_pred             HHHHHHHccCChhhHHHHHHHHHHccC---CCCchhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCC-HhhHHHH
Q 004362          571 TLINGFCNSGDLDGAYQLFRRMEDQYK---ISHTTATYNIMINAFSEKLN---FYMAEKLFYEMSEKGCPPD-NYTYRIM  643 (759)
Q Consensus       571 ~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~-~~~~~~l  643 (759)
                      .++.+|...|++++|...++++.....   .|.....+..++..+...|+   +.+|+.++++.   +..|+ ..++..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            999999999999999999999876521   23333446778889999999   88888888876   33344 5678889


Q ss_pred             HHHHHhcCChHHHHHHHHHHHh
Q 004362          644 IDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +..|...|++++|..+++++++
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999886

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.49  E-value=8.7e-13  Score=137.28  Aligned_cols=213  Identities=9%  Similarity=-0.039  Sum_probs=163.8

Q ss_pred             hHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004362          442 VSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKM-EIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFK  520 (759)
Q Consensus       442 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  520 (759)
                      ++++...++...... +.+...+..+...|...|++ ++|++.|+++.+.. +.+...|..+..+|...|++++|++.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            445555555544432 34666777777777777887 88888887777653 2246777778888888888888888888


Q ss_pred             HHHHcCCCCChhcHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc--------CChh
Q 004362          521 TMIEKRCVPNIITYSILGESLCKA---------HKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS--------GDLD  583 (759)
Q Consensus       521 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~  583 (759)
                      +.++.  .|+...+..++.++...         |++++|...++++++. .+.+...|..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM-DVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            88775  35567777778888777         8888888888888876 355677888888888888        8899


Q ss_pred             hHHHHHHHHHHccCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHH
Q 004362          584 GAYQLFRRMEDQYKIS---HTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLL  660 (759)
Q Consensus       584 ~A~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  660 (759)
                      +|+..|+++...  .|   .++..|..++.+|...|++++|+..|+++.+.. +.+..++..+..++...|++++|+..+
T Consensus       239 ~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          239 QALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999887  67   788899999999999999999999999988763 334778888888899889888888765


Q ss_pred             HH
Q 004362          661 LE  662 (759)
Q Consensus       661 ~~  662 (759)
                      .+
T Consensus       316 ~~  317 (474)
T 4abn_A          316 GK  317 (474)
T ss_dssp             TT
T ss_pred             cc
Confidence            44

>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=99.49  E-value=5.9e-12  Score=117.38  Aligned_cols=205  Identities=11%  Similarity=-0.065  Sum_probs=114.4

Q ss_pred             ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          530 NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       530 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      ++..+...+..+...|++++|+..|+++++...+++...+..++.++...|++++|+..|+++...  .|.+..+|..++
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~   83 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKS   83 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHH
Confidence            344555556666666666666666666665432245555555666666666666666666666665  566666666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCH-------hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHH-HHHH
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEKGCPPDN-------YTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS--LSTI-GRVI  679 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~-~~l~  679 (759)
                      .+|...|++++|+..++++++.. +.+.       .+|..++..+...|++++|+..++++++  +.|+  .... ..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD--VTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SSCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh--cCCCcccHHHHHHHH
Confidence            66666666666666666666542 2223       3466666666666777777777777766  5665  3333 3333


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHCCC-CCchHHHHHhccccccccchHHHHHHHhcCCCchHHHHHHH
Q 004362          680 NCLCVDHRVHEAVGFVHLMVQKGI-VPEVVNTIFEADKREVASPKIVVEDLLKKSHITYYAYELLF  744 (759)
Q Consensus       680 ~~~~~~g~~~~A~~~~~~~~~~~~-~p~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  744 (759)
                      ..+...|+     ..++++...+. .+..+........+.+++|...++++++.+|....+..++.
T Consensus       161 ~~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~  221 (228)
T 4i17_A          161 VLFYNNGA-----DVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLSPNRTEIKQMQD  221 (228)
T ss_dssp             HHHHHHHH-----HHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHH-----HHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHH
Confidence            33333332     22333333111 11122222222445567777777777777776555544443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.46  E-value=1.5e-12  Score=128.30  Aligned_cols=237  Identities=13%  Similarity=0.037  Sum_probs=118.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc------CC-
Q 004362          462 FTFNTLIDGYCKQLKMEIAIEILNTMWSH-------GVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEK------RC-  527 (759)
Q Consensus       462 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-  527 (759)
                      .++..+...+...|++++|...++++.+.       ..+.....+..+..+|...|++++|...+++.+..      +. 
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            34444555555555555555555555441       11122344555555555556666666555555442      11 


Q ss_pred             CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC------C-CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHc-----
Q 004362          528 VPNIITYSILGESLCKAHKITEAFNLLEEMENK------G-LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ-----  595 (759)
Q Consensus       528 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----  595 (759)
                      +....++..++..+...|++++|...++++.+.      + .+.....+..++.+|...|++++|+.+|+++...     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            112334555566666666666666666665542      1 1223344566666667777777777777666554     


Q ss_pred             -cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-------CCCCC-Hhh------HHHHHHHHHhcCChHHHHHHH
Q 004362          596 -YKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK-------GCPPD-NYT------YRIMIDSFCKTGGINSGYCLL  660 (759)
Q Consensus       596 -~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~p~-~~~------~~~l~~~~~~~g~~~~A~~~~  660 (759)
                       ...|....++..++.+|...|++++|+..++++.+.       ...+. ...      +..+...+...+.+.+|...+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  267 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWY  267 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Confidence             223334556666677777777777777777766642       11121 111      122222333445555556666


Q ss_pred             HHHHhCCCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          661 LENIDKGFIPSL-STIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       661 ~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +++..  ..|+. ..+..+...+...|++++|.++++++.+
T Consensus       268 ~~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          268 KACKV--DSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhcCC--CCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66655  34443 3344555555677777777777777665

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.45  E-value=2e-12  Score=127.43  Aligned_cols=238  Identities=13%  Similarity=0.079  Sum_probs=171.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-------CCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC------C
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEK-------RCVPNIITYSILGESLCKAHKITEAFNLLEEMENK------G  561 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~  561 (759)
                      +..++..+...+...|++++|+.+++++.+.       ..+.....+..++..+...|++++|...++++...      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4667888899999999999999999999873       22334567888999999999999999999998864      1


Q ss_pred             -CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHc------cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---
Q 004362          562 -LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ------YKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK---  631 (759)
Q Consensus       562 -~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  631 (759)
                       .+....++..++..|...|++++|...++++.+.      ...|....++..++.++...|++++|+.+++++.+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             2334567888999999999999999999999876      223556778899999999999999999999998864   


Q ss_pred             ---CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCCCHHHHHH-------HHHHHHhcCcHHHHHH
Q 004362          632 ---GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDK-------GFIPSLSTIGR-------VINCLCVDHRVHEAVG  693 (759)
Q Consensus       632 ---~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------g~~p~~~~~~~-------l~~~~~~~g~~~~A~~  693 (759)
                         +..|+ ..++..++.+|...|++++|+.+++++++.       ...|.......       ....+...+.+.+|..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               22343 567889999999999999999999999862       12222222222       2222235567777777


Q ss_pred             HHHHHHHCCCCCc---hHHHHHhc--cccccccchHHHHHHHhcCC
Q 004362          694 FVHLMVQKGIVPE---VVNTIFEA--DKREVASPKIVVEDLLKKSH  734 (759)
Q Consensus       694 ~~~~~~~~~~~p~---~~~~~~~~--~~~~~~~a~~~~~~~~~~~~  734 (759)
                      .+++...  ..|.   .+..+...  ..|++++|...++++++..+
T Consensus       266 ~~~~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~  309 (311)
T 3nf1_A          266 WYKACKV--DSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRK  309 (311)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             HHhhcCC--CCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh
Confidence            8877765  3455   33333333  88999999999999988644

>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=99.45  E-value=2.5e-12  Score=138.93  Aligned_cols=162  Identities=14%  Similarity=0.115  Sum_probs=87.9

Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA  611 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  611 (759)
                      .++..++.++...|++++|+..|+++++. .+.+..++..+..+|.+.|++++|+..|+++.+.  .|.+..+|..++.+
T Consensus        10 ~al~nLG~~~~~~G~~~eAi~~~~kAl~l-~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~~   86 (723)
T 4gyw_A           10 DSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            34555555555555555555555555543 2334455555555555555555555555555555  55555555555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCcHH
Q 004362          612 FSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-STIGRVINCLCVDHRVH  689 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~  689 (759)
                      |...|++++|++.|+++++.  .|+ ..+|..++.+|...|++++|+..|+++++  +.|+. ..+..+...+...|+++
T Consensus        87 l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~--l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALK--LKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHhhhhhHHHhcccHH
Confidence            55555555555555555543  233 55555555555555555555555555555  55542 23334444445555555


Q ss_pred             HHHHHHHHHHH
Q 004362          690 EAVGFVHLMVQ  700 (759)
Q Consensus       690 ~A~~~~~~~~~  700 (759)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.44  E-value=1.7e-11  Score=124.23  Aligned_cols=231  Identities=10%  Similarity=-0.014  Sum_probs=161.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CC-----ChhcHH
Q 004362          467 LIDGYCKQLKMEIAIEILNTMWSHGV-TPD----VITYNSLLNGLCKAAKSEDVMETFKTMIEKRC-VP-----NIITYS  535 (759)
Q Consensus       467 l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-----~~~~~~  535 (759)
                      ....+...|++++|...|+++.+... .++    ..++..+..+|...|+++.|+..+++..+... .+     ...++.
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            44456678888888888888775411 122    44677778888888888888888888775310 11     134677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCC-ccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc---CCCCchhhHHH
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENK----GLT-LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY---KISHTTATYNI  607 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~~  607 (759)
                      .++.+|...|++++|...++++.+.    +.+ ....++..++.+|...|++++|+..|+++....   ..|....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            7888888889999998888887753    111 123467778888888999999999998887711   25666778888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCC---CCC-HhhHHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCCCHH-HHHHHH
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEKGC---PPD-NYTYRIMIDSFCKTGG---INSGYCLLLENIDKGFIPSLS-TIGRVI  679 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~~~---~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~g~~p~~~-~~~~l~  679 (759)
                      ++.++...|++++|...++++.+..-   .|. ...+..+...+...|+   +.+|+.++++.   +..|+.. .+..+.
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  343 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAA  343 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHH
Confidence            88999999999999999988876421   122 3445566667777777   77777777762   2333333 334555


Q ss_pred             HHHHhcCcHHHHHHHHHHHHH
Q 004362          680 NCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       680 ~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ..+...|++++|.+.++++.+
T Consensus       344 ~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          344 AVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            666788999999999888765

>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=99.41  E-value=9.5e-12  Score=111.72  Aligned_cols=161  Identities=15%  Similarity=0.120  Sum_probs=80.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHH
Q 004362          534 YSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFS  613 (759)
Q Consensus       534 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  613 (759)
                      +..++..+...|++++|...++++.+. .+.+...+..++.++...|++++|...++++...  .|.+...+..++.++.
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDA-DAFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCT-TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHh-CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHH
Confidence            333444444445555555555444433 2234444555555555555555555555555544  4445555555555555


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHH
Q 004362          614 EKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAV  692 (759)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~  692 (759)
                      ..|++++|.+.++++.+.. +.+...+..++.++...|++++|..+++++++  ..|+ ...+..+...+...|++++|.
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALG--LRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHh--cCccchHHHHHHHHHHHHcCCHHHHH
Confidence            5555555555555555432 22344555555555555555555555555555  3333 233334444445555555555


Q ss_pred             HHHHHHHH
Q 004362          693 GFVHLMVQ  700 (759)
Q Consensus       693 ~~~~~~~~  700 (759)
                      ++++++.+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555544

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.41  E-value=4.4e-12  Score=136.95  Aligned_cols=165  Identities=15%  Similarity=0.063  Sum_probs=140.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN  574 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  574 (759)
                      +...++.+..+|.+.|++++|++.|++.++.. +-+..++..++.+|.+.|++++|+..|+++++. -+.+...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l-~P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI-SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHH
Confidence            35678888888888888888888888888764 235678888888888889999999999888876 3456788889999


Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCCh
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGI  653 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  653 (759)
                      +|...|++++|++.|+++.+.  .|.+..+|+.++.+|...|++++|++.|+++++.  .|+ ...|..++.++...|++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccH
Confidence            999999999999999999988  8888999999999999999999999999999865  465 78889999999999999


Q ss_pred             HHHHHHHHHHHh
Q 004362          654 NSGYCLLLENID  665 (759)
Q Consensus       654 ~~A~~~~~~~~~  665 (759)
                      ++|...++++++
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988876

>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=99.40  E-value=1.4e-11  Score=110.66  Aligned_cols=170  Identities=12%  Similarity=0.030  Sum_probs=149.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHH
Q 004362          496 VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLING  575 (759)
Q Consensus       496 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  575 (759)
                      ...+..+...+...|++++|+..++++.+.. +.+...+..++..+...|++++|...++++.+. .+.+...+..++..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD-APDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHH
Confidence            4567778888999999999999999988763 346778889999999999999999999999886 45678888999999


Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  655 (759)
                      +...|++++|...++++...  .|.+...+..++.++...|++++|+..++++.+.. +.+..++..++.++...|++++
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  162 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEE  162 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHH
Confidence            99999999999999999988  78889999999999999999999999999998763 4458899999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCH
Q 004362          656 GYCLLLENIDKGFIPSL  672 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~  672 (759)
                      |..+++++++  ..|+.
T Consensus       163 A~~~~~~~~~--~~~~~  177 (186)
T 3as5_A          163 ALPHFKKANE--LDEGA  177 (186)
T ss_dssp             HHHHHHHHHH--HHHCC
T ss_pred             HHHHHHHHHH--cCCCc
Confidence            9999999988  55543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.39  E-value=1.2e-10  Score=117.96  Aligned_cols=295  Identities=11%  Similarity=0.030  Sum_probs=177.3

Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHh----hHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHH
Q 004362          435 GLCKMGCVSDANNLVNDAISKGYIPDIF----TFNTLIDGYCKQLKMEIAIEILNTMWSHGV-TPD----VITYNSLLNG  505 (759)
Q Consensus       435 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~  505 (759)
                      .+...|++++|...+++........+..    +++.+...+...|++++|...+++...... .++    ..++..+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            3445566666666666555443211211    344455556666777777766666553210 011    1234556666


Q ss_pred             HHhcCCHHHHHHHHHHHHHc----CCC--C-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC----CccHHHHHHHHH
Q 004362          506 LCKAAKSEDVMETFKTMIEK----RCV--P-NIITYSILGESLCKAHKITEAFNLLEEMENKGL----TLDTVAFGTLIN  574 (759)
Q Consensus       506 ~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~  574 (759)
                      +...|++++|...+++....    +..  | ....+..++..+...|++++|...+++......    +.....+..+..
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            77778888887777776653    111  2 123455677777888888888888888765311    112345677778


Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHH-----HHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HhhHHHHHHH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYN-----IMINAFSEKLNFYMAEKLFYEMSEKGCPPD---NYTYRIMIDS  646 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~  646 (759)
                      .+...|++++|...+++.......+.....+.     ..+..+...|++++|..+++++.+....+.   ...+..++.+
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~  262 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  262 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHH
Confidence            88888999999888888876532222211222     233457788999999999888775321111   2246677788


Q ss_pred             HHhcCChHHHHHHHHHHHhC----CCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc--hHHHHHhcccccc
Q 004362          647 FCKTGGINSGYCLLLENIDK----GFIPSLS-TIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE--VVNTIFEADKREV  719 (759)
Q Consensus       647 ~~~~g~~~~A~~~~~~~~~~----g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~~~~~~~~  719 (759)
                      +...|++++|...++++++.    |..++.. .+..+...+...|+.++|...++++...  .++  ....++  ..|  
T Consensus       263 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~--~~~~g~~~~~~--~~g--  336 (373)
T 1hz4_A          263 QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL--ANRTGFISHFV--IEG--  336 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHHHCCCHHHH--TTH--
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--hccccHHHHHH--Hcc--
Confidence            88999999999999988752    1111222 3344455567889999999999988762  221  111111  233  


Q ss_pred             ccchHHHHHHHhcCCC
Q 004362          720 ASPKIVVEDLLKKSHI  735 (759)
Q Consensus       720 ~~a~~~~~~~~~~~~~  735 (759)
                      +....+++++....+.
T Consensus       337 ~~~~~ll~~~~~~~~~  352 (373)
T 1hz4_A          337 EAMAQQLRQLIQLNTL  352 (373)
T ss_dssp             HHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHhCCCC
Confidence            4566777778777665

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.38  E-value=7e-11  Score=119.67  Aligned_cols=310  Identities=10%  Similarity=-0.020  Sum_probs=185.0

Q ss_pred             CCCCCCHHHHHHHHh------cCCChHHHHHHHHHhhhc-CCCCCCHHHH--HHHHHH--HHhCCChHHHH---------
Q 004362            1 MGRSVLPKHVAAVVK------HQKNPLTALEMFNSVKRE-DGFKHTLLTY--KYMIDK--LGFHGNFEEME---------   60 (759)
Q Consensus         1 ~~~~l~~~~~~~~l~------~~~~~~~A~~~~~~~~~~-~~~~~~~~~~--~~l~~~--l~~~~~~~~A~---------   60 (759)
                      |..++++..++..|.      .++++++|.++++.+... .....+....  ..++..  ....+.+..+.         
T Consensus         3 ~~~~~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~   82 (378)
T 3q15_A            3 MSQAIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVT   82 (378)
T ss_dssp             ---CBCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHH
T ss_pred             ccccccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchH
Confidence            667788899998886      689999999999987543 2333344332  222221  11112222222         


Q ss_pred             HHHHHHHhcCCC---CccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCC-CC----CHHHHHHHHHHHHHcCChhHHHH
Q 004362           61 NLLLEMRMDVDD---SLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNC-EP----TVLSYNTIMNILVEYGYFSQVHK  132 (759)
Q Consensus        61 ~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~  132 (759)
                      ..++.+......   ...-..+...+..+...|++++|+..|+++..... .+    ...++..++.+|...|+++.|..
T Consensus        83 ~~l~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~  162 (378)
T 3q15_A           83 ELLETIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMY  162 (378)
T ss_dssp             HHHHHHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHH
Confidence            445544332211   00011344567778899999999999988763210 12    24567788888999999999999


Q ss_pred             HHHHHHHCC--C---CC-CHHHHHHHHHHHHccCChhhHHHHHhhchhC----CC-CCCHHhHHHHHHHHHhcCChhHHH
Q 004362          133 VYMRMRNKG--I---VP-DVYTFVIRIKSFCRTRRPHVALRLLKNMPSQ----GF-EPNAVAYCTLIAGFYEENHNVEAY  201 (759)
Q Consensus       133 ~~~~~~~~~--~---~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~  201 (759)
                      .+.+..+..  .   .+ ...+++.+...|...|++++|.+.|++....    +- .....+++.+...+...|++++|+
T Consensus       163 ~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~  242 (378)
T 3q15_A          163 HILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAV  242 (378)
T ss_dssp             HHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            988877531  1   11 2456777788888888888888888776653    10 011345667777777888888888


Q ss_pred             HHHHHHHh-----CCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCC----CCCHHHHHHHHHHHHhcCC---HHH
Q 004362          202 ELFDEMLG-----MGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGV----SPNLFTFNMFIQGLCRKGA---ISE  269 (759)
Q Consensus       202 ~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~---~~~  269 (759)
                      +.|++...     .... ...++..+...+.+.|++++|...+++..+...    +.....+..+...+...++   +.+
T Consensus       243 ~~~~~al~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~  321 (378)
T 3q15_A          243 EHFQKAAKVSREKVPDL-LPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHD  321 (378)
T ss_dssp             HHHHHHHHHHHHHCGGG-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHHHHHHHHHhhCChh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            88887765     3222 255666677777778888888888777765421    1112334444455555666   556


Q ss_pred             HHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHH
Q 004362          270 AISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMV  313 (759)
Q Consensus       270 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  313 (759)
                      |+..++.....  +.....+..+...|...|++++|...|++..
T Consensus       322 al~~~~~~~~~--~~~~~~~~~la~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          322 LLSYFEKKNLH--AYIEACARSAAAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHHHHHTTCH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCh--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66655552210  1122334455566666666666666666554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.36  E-value=1.9e-11  Score=118.49  Aligned_cols=198  Identities=9%  Similarity=-0.037  Sum_probs=124.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHc----CCCCC-hhcHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-cHHHHHHHHH
Q 004362          505 GLCKAAKSEDVMETFKTMIEK----RCVPN-IITYSILGESLCKAHKITEAFNLLEEMENK----GLTL-DTVAFGTLIN  574 (759)
Q Consensus       505 ~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~  574 (759)
                      .|...|++++|++.|++....    +.+++ ..++..++.+|...|++++|+..+++.++.    |... ...++..+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455566677776666665543    11111 345666777777777777777777776643    1111 1346777888


Q ss_pred             HHHcc-CChhhHHHHHHHHHHccCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH------hhHHHH
Q 004362          575 GFCNS-GDLDGAYQLFRRMEDQYKISHT----TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDN------YTYRIM  643 (759)
Q Consensus       575 ~~~~~-g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~------~~~~~l  643 (759)
                      +|... |++++|+..|+++.+......+    ..++..++.++...|++++|+..|+++.+.......      .+|..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            88885 8888888888888775211111    356778888888888888888888888865311111      146777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHH------HHHHHHHHH--hcCcHHHHHHHHHHHHHCCCCCc
Q 004362          644 IDSFCKTGGINSGYCLLLENIDKGFIPSLST------IGRVINCLC--VDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~------~~~l~~~~~--~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      +.++...|++++|+..++++++  +.|+...      +..++..+.  ..+++++|++.++++..  ++|.
T Consensus       206 g~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~--l~~~  272 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR--LDKW  272 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC--CCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc--cHHH
Confidence            7888888889999988888887  6675432      222333332  34667788877777643  4444

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.34  E-value=5.3e-10  Score=113.12  Aligned_cols=265  Identities=13%  Similarity=0.057  Sum_probs=156.3

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC----HhhHHHHHHHH
Q 004362          401 LSQQGLILQALQLMNEMSESGCCPDMW----TYNIVINGLCKMGCVSDANNLVNDAISKGY-IPD----IFTFNTLIDGY  471 (759)
Q Consensus       401 ~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~  471 (759)
                      +...|++++|...+++........+..    .+..+...+...|++++|...+++...... ..+    ..++..+...+
T Consensus        24 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~  103 (373)
T 1hz4_A           24 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  103 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence            344555555555555544432111111    233344445555666666666555443210 011    12244555666


Q ss_pred             HhcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--C--ChhcHHHHHHH
Q 004362          472 CKQLKMEIAIEILNTMWSH----GVT--P-DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCV--P--NIITYSILGES  540 (759)
Q Consensus       472 ~~~~~~~~A~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~~~~~l~~~  540 (759)
                      ...|++++|...+++....    +..  | ....+..+...+...|++++|...+++.......  +  ...++..++..
T Consensus       104 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  183 (373)
T 1hz4_A          104 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  183 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHH
Confidence            7777777777777766542    111  2 2334555667777778888888888777654211  1  12356667777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCC--CCccHHHHH----HHHHHHHccCChhhHHHHHHHHHHccCCCCc--hhhHHHHHHHH
Q 004362          541 LCKAHKITEAFNLLEEMENKG--LTLDTVAFG----TLINGFCNSGDLDGAYQLFRRMEDQYKISHT--TATYNIMINAF  612 (759)
Q Consensus       541 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~  612 (759)
                      +...|++++|...+++.....  .........    ..+..+...|++++|...+++.......++.  ...+..++.++
T Consensus       184 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~  263 (373)
T 1hz4_A          184 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  263 (373)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHH
Confidence            788888888888888876531  111111111    2334467888888888888887654211111  22456778888


Q ss_pred             HhcCCHHHHHHHHHHHHHc----CCCCCH-hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          613 SEKLNFYMAEKLFYEMSEK----GCPPDN-YTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ...|++++|...++++.+.    +.+++. .++..++.++...|++++|...+++++.
T Consensus       264 ~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          264 ILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            8889999998888887643    211222 3666777888889999999999998876

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.32  E-value=5.3e-11  Score=108.66  Aligned_cols=133  Identities=14%  Similarity=0.019  Sum_probs=90.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL  616 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  616 (759)
                      ++.++...|++++|+..|+++++. .|.+...+..+..+|...|++++|+..|+++.+.  .|.+..+|..++.+|...|
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQK-APNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHh
Confidence            677777778888888888777775 3456777777777777888888888888887777  7777777777777776554


Q ss_pred             C--HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          617 N--FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       617 ~--~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      +  ...+...++++.  ..+|....+...+.++...|++++|+..|+++++  +.|+.....
T Consensus       137 ~~~~~~~~~~~~~~~--~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~  194 (208)
T 3urz_A          137 EQEKKKLETDYKKLS--SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQK  194 (208)
T ss_dssp             HHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHH
Confidence            3  444555565554  2223334455566667777788888888888877  777755443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.30  E-value=4.1e-11  Score=109.35  Aligned_cols=129  Identities=8%  Similarity=-0.028  Sum_probs=89.5

Q ss_pred             HHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 004362          571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT  650 (759)
Q Consensus       571 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  650 (759)
                      .+..+|...|++++|+..|+++.+.  .|.+..++..++.++...|++++|+..|+++++.. |.+..+|..++.+|...
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQK--APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHH
Confidence            3777888888888888888888887  78888888888888888888888888888888653 33477788888777665


Q ss_pred             CC--hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          651 GG--INSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       651 g~--~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      |+  .+.+...++++..  ..|....++....++...|++++|+..++++++  +.|+
T Consensus       136 ~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~  189 (208)
T 3urz_A          136 AEQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPS  189 (208)
T ss_dssp             HHHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCC
T ss_pred             hHHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCC
Confidence            53  3445555655544  333333344455555667888888888888776  4554

>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=99.29  E-value=3.4e-11  Score=116.56  Aligned_cols=205  Identities=12%  Similarity=0.006  Sum_probs=109.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc------CC-CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC------C-
Q 004362          496 VITYNSLLNGLCKAAKSEDVMETFKTMIEK------RC-VPNIITYSILGESLCKAHKITEAFNLLEEMENK------G-  561 (759)
Q Consensus       496 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-  561 (759)
                      ..++..+..+|...|++++|+..++++++.      +. +....++..++..+...|++++|...++++.+.      . 
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            344555555555666666666666555543      11 112335556666666666666666666666543      1 


Q ss_pred             CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHc------cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----
Q 004362          562 LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ------YKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK----  631 (759)
Q Consensus       562 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----  631 (759)
                      .+....++..++.+|...|++++|...++++...      ...|....++..++.+|...|++++|+.+++++.+.    
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~  202 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEK  202 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            1223455666677777777777777777776654      123344566677777777777777777777776643    


Q ss_pred             ---CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHH--hC-C-CCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          632 ---GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENI--DK-G-FIPSL-STIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       632 ---~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-g-~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                         ...+. ...|..+...+...+....+..+.....  +. + ..|+. ..+..+...+...|++++|.++++++.+
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               12232 3344444444444333333222211111  10 1 12332 2334555556777888888888877764

>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=99.29  E-value=5e-11  Score=115.38  Aligned_cols=223  Identities=12%  Similarity=0.032  Sum_probs=153.6

Q ss_pred             hcCCHHHHHHHHHHHHHc-------CCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC------C-CCccHHHHHHHH
Q 004362          508 KAAKSEDVMETFKTMIEK-------RCVPNIITYSILGESLCKAHKITEAFNLLEEMENK------G-LTLDTVAFGTLI  573 (759)
Q Consensus       508 ~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~  573 (759)
                      ..|++++|+..|++.++.       +.+....++..++..+...|++++|...++++.+.      + .+....++..++
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            456666666666655542       21224567888999999999999999999998864      1 233456788999


Q ss_pred             HHHHccCChhhHHHHHHHHHHc------cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCCC-HhhH
Q 004362          574 NGFCNSGDLDGAYQLFRRMEDQ------YKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK------GCPPD-NYTY  640 (759)
Q Consensus       574 ~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~p~-~~~~  640 (759)
                      .+|...|++++|+..|+++...      ...|....++..++.+|...|++++|+.+++++.+.      +-.|+ ..++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            9999999999999999999876      223566888999999999999999999999998865      11333 5788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHH-hcC------cHHHHHHHHHHHHHCCCCCc
Q 004362          641 RIMIDSFCKTGGINSGYCLLLENIDK-------GFIPSLSTIGRVINCLC-VDH------RVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       641 ~~l~~~~~~~g~~~~A~~~~~~~~~~-------g~~p~~~~~~~l~~~~~-~~g------~~~~A~~~~~~~~~~~~~p~  706 (759)
                      ..++.+|...|++++|+.+++++++.       ...|...........+. ..+      .+.++..+++....  ..|+
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~  250 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--DSPT  250 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--CCHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--CCHH
Confidence            89999999999999999999999862       12333333333333332 222      23333333332211  2233


Q ss_pred             h---HHHHHhc--cccccccchHHHHHHHhc
Q 004362          707 V---VNTIFEA--DKREVASPKIVVEDLLKK  732 (759)
Q Consensus       707 ~---~~~~~~~--~~~~~~~a~~~~~~~~~~  732 (759)
                      .   +..+...  ..|++++|...++++++.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2   2223233  789999999999998874

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.29  E-value=7.1e-10  Score=104.19  Aligned_cols=79  Identities=13%  Similarity=0.069  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCChhcHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          480 AIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRC-VPNIITYSILGESLCKAHKITEAFNLLEEME  558 (759)
Q Consensus       480 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  558 (759)
                      |+..|++....+ .++..++..+..++...|++++|++++.+.+..+. .-+...+...+..+.+.|+.+.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            444444444332 23333334444555555555555555555544321 1133444455555555555555555555554


Q ss_pred             H
Q 004362          559 N  559 (759)
Q Consensus       559 ~  559 (759)
                      +
T Consensus       164 ~  164 (310)
T 3mv2_B          164 N  164 (310)
T ss_dssp             H
T ss_pred             h
Confidence            4

>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=99.28  E-value=1.1e-11  Score=106.22  Aligned_cols=144  Identities=8%  Similarity=0.031  Sum_probs=109.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL  616 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  616 (759)
                      |+..+...|++++|+..++..... .+.+...+..+..+|...|++++|++.|+++.+.  .|.++.+|..++.+|...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~-~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPS-PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCS-HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhccc-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            445556677888888888887654 2334455677888888999999999999998888  8888889999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHH-HHHHHhCCCCCCHHHHHHHHHHH-HhcCc
Q 004362          617 NFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCL-LLENIDKGFIPSLSTIGRVINCL-CVDHR  687 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~g~~p~~~~~~~l~~~~-~~~g~  687 (759)
                      ++++|+..|+++++.  .|+ ..+|..++.+|...|++++|... ++++++  +.|+++..+.+...+ ...|+
T Consensus        80 ~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~--l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           80 NTDKAVECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK--LFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTCCC
T ss_pred             chHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhCc
Confidence            999999999998865  454 78888888888899988776654 588888  888877666655544 44553

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.26  E-value=3.1e-10  Score=108.11  Aligned_cols=170  Identities=10%  Similarity=0.003  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---hhcHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCccHHHHH
Q 004362          496 VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPN---IITYSILGESLCKAHKITEAFNLLEEMENKG--LTLDTVAFG  570 (759)
Q Consensus       496 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~  570 (759)
                      ...+..+...+.+.|++++|+..|+++++.. +.+   ...+..++.++...|++++|...|+++++..  .+.....+.
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            3334444444445555555555555554432 111   2344444555555555555555555554431  111233344


Q ss_pred             HHHHHHHc--------cCChhhHHHHHHHHHHccCCCCchhhH-----------------HHHHHHHHhcCCHHHHHHHH
Q 004362          571 TLINGFCN--------SGDLDGAYQLFRRMEDQYKISHTTATY-----------------NIMINAFSEKLNFYMAEKLF  625 (759)
Q Consensus       571 ~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~g~~~~A~~~~  625 (759)
                      .+..++..        .|++++|+..|+++...  .|.+....                 ..++.+|...|++++|+..|
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            44445544        55555555555555555  34443333                 44556666666666666666


Q ss_pred             HHHHHcCCCCC----HhhHHHHHHHHHhc----------CChHHHHHHHHHHHhCCCCCCH
Q 004362          626 YEMSEKGCPPD----NYTYRIMIDSFCKT----------GGINSGYCLLLENIDKGFIPSL  672 (759)
Q Consensus       626 ~~~~~~~~~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~g~~p~~  672 (759)
                      +++++.  .|+    ...+..++.+|...          |++++|+..++++++  ..|++
T Consensus       172 ~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~--~~p~~  228 (261)
T 3qky_A          172 EAVFDA--YPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQ--IFPDS  228 (261)
T ss_dssp             HHHHHH--CTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHH--CCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHH--HCCCC
Confidence            666544  222    23455555555544          556666666666665  44543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.26  E-value=2.5e-10  Score=108.72  Aligned_cols=167  Identities=10%  Similarity=0.008  Sum_probs=124.3

Q ss_pred             CChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcc---HHHHHHHHHHHHccCChhhHHHHHHHHHHccC-CCCchhh
Q 004362          529 PNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLD---TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK-ISHTTAT  604 (759)
Q Consensus       529 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~  604 (759)
                      .+...+...+..+...|++++|+..|+++++. .|.+   ...+..++.+|...|++++|+..|+++..... .|....+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTY-GRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGG-CSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh-CCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            35567777888888899999999999998876 2334   67788888889999999999999999988732 2234567


Q ss_pred             HHHHHHHHHh--------cCCHHHHHHHHHHHHHcCCCCC-HhhH-----------------HHHHHHHHhcCChHHHHH
Q 004362          605 YNIMINAFSE--------KLNFYMAEKLFYEMSEKGCPPD-NYTY-----------------RIMIDSFCKTGGINSGYC  658 (759)
Q Consensus       605 ~~~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~p~-~~~~-----------------~~l~~~~~~~g~~~~A~~  658 (759)
                      +..++.++..        .|++++|+..|+++++.  .|+ ...+                 ..++.+|...|++++|+.
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  169 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAV  169 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            7888888888        89999999999998876  344 3444                 455777888888888888


Q ss_pred             HHHHHHhCCCCCC----HHHHHHHHHHHHhc----------CcHHHHHHHHHHHHH
Q 004362          659 LLLENIDKGFIPS----LSTIGRVINCLCVD----------HRVHEAVGFVHLMVQ  700 (759)
Q Consensus       659 ~~~~~~~~g~~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~  700 (759)
                      .|+++++  ..|+    ...+..+..++...          |++++|+..++++.+
T Consensus       170 ~~~~~l~--~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~  223 (261)
T 3qky_A          170 TYEAVFD--AYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQ  223 (261)
T ss_dssp             HHHHHHH--HCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH--HCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHH
Confidence            8888887  5554    23444555555544          777778887777776

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.25  E-value=2.1e-10  Score=111.07  Aligned_cols=215  Identities=13%  Similarity=0.018  Sum_probs=157.8

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHH
Q 004362          441 CVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSH----GVTPD-VITYNSLLNGLCKAAKSEDV  515 (759)
Q Consensus       441 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a  515 (759)
                      ++++|...+...               +..|...|++++|...|.+....    +-+++ ..+|+.+..+|...|++++|
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            477777777665               34577889999999998887653    21111 46788889999999999999


Q ss_pred             HHHHHHHHHcCCC-CC----hhcHHHHHHHHHhc-CCHHHHHHHHHHHHHCC----CCc-cHHHHHHHHHHHHccCChhh
Q 004362          516 METFKTMIEKRCV-PN----IITYSILGESLCKA-HKITEAFNLLEEMENKG----LTL-DTVAFGTLINGFCNSGDLDG  584 (759)
Q Consensus       516 ~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~g~~~~  584 (759)
                      +..|++.++.... .+    ..++..++.+|... |++++|+..|++.++..    .+. ...++..++.+|...|++++
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            9999988764111 11    34788889999996 99999999999988641    111 13568889999999999999


Q ss_pred             HHHHHHHHHHccCCCCchh-------hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHh------hHHHHHHHHH--h
Q 004362          585 AYQLFRRMEDQYKISHTTA-------TYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNY------TYRIMIDSFC--K  649 (759)
Q Consensus       585 A~~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~------~~~~l~~~~~--~  649 (759)
                      |+..|+++...  .|.+..       .|..++.++...|++++|+..|++.++  +.|+..      .+..++.++.  .
T Consensus       177 A~~~~~~al~~--~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~  252 (292)
T 1qqe_A          177 ASDIYSKLIKS--SMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGD  252 (292)
T ss_dssp             HHHHHHHHHHT--TSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHH--HhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCC
Confidence            99999999987  343322       578889999999999999999999984  355521      2444555554  4


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          650 TGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       650 ~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      .+++++|+..|+++..  +.|......
T Consensus       253 ~~~~~~A~~~~~~~~~--l~~~~~~~~  277 (292)
T 1qqe_A          253 SEQLSEHCKEFDNFMR--LDKWKITIL  277 (292)
T ss_dssp             TTTHHHHHHHHTTSSC--CCHHHHHHH
T ss_pred             HHHHHHHHHHhccCCc--cHHHHHHHH
Confidence            5679999999988877  677654443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.22  E-value=3e-09  Score=100.02  Aligned_cols=145  Identities=9%  Similarity=0.010  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CccHHHHHHHHHHHHccCChhhHHHHHHHHH
Q 004362          515 VMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGL-TLDTVAFGTLINGFCNSGDLDGAYQLFRRME  593 (759)
Q Consensus       515 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  593 (759)
                      |+..+++....+ .++..++..++.++...|++++|++++.+.+..+. ..+...+...+..+.+.|+.+.|.+.++++.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            445555554432 23333444555555555555555555555544321 1244455555555555555555555555555


Q ss_pred             HccCCCC----chhhHHHHH--HHHHhcC--CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 004362          594 DQYKISH----TTATYNIMI--NAFSEKL--NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENI  664 (759)
Q Consensus       594 ~~~~~~~----~~~~~~~l~--~~~~~~g--~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  664 (759)
                      +.  .|+    +..+...++  ++....|  ++.+|..+|+++.+.  .|+..+...+..++...|++++|...++.+.
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44  331    112222222  2233333  555555555555433  3432222223335555555555555555443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.20  E-value=1.2e-09  Score=101.12  Aligned_cols=184  Identities=6%  Similarity=-0.056  Sum_probs=110.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-C-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccH---HHHH
Q 004362          496 VITYNSLLNGLCKAAKSEDVMETFKTMIEKRCV-P-NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDT---VAFG  570 (759)
Q Consensus       496 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~  570 (759)
                      ...+..+...+...|++++|+..|+++++.... | ....+..++.++...|++++|+..|+++++.. |.+.   ..+.
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-P~~~~~~~a~~   82 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-PTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCcHHHHHH
Confidence            444555666677777777777777777765321 1 12356667777777777777777777777642 2121   2344


Q ss_pred             HHHHHHHc------------------cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          571 TLINGFCN------------------SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       571 ~l~~~~~~------------------~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  632 (759)
                      .+..++..                  .|++++|+..|+++.+.  .|.+...+.........          ...+    
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~----------~~~~----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFL----------KDRL----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHH----------HHHH----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHH----------HHHH----
Confidence            44444443                  34445555555555544  34433332211110000          0000    


Q ss_pred             CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCcHHHHHHHHHHHHHCC
Q 004362          633 CPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL----STIGRVINCLCVDHRVHEAVGFVHLMVQKG  702 (759)
Q Consensus       633 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  702 (759)
                          ......++..+...|++++|+..|+++++  ..|+.    ..+..+..++.+.|++++|.+.++++...+
T Consensus       147 ----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~--~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ----AKYEYSVAEYYTERGAWVAVVNRVEGMLR--DYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ----HHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ----HHHHHHHHHHHHHcCcHHHHHHHHHHHHH--HCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                01113566788899999999999999998  66764    345667777789999999999999888743

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.19  E-value=9e-10  Score=92.55  Aligned_cols=125  Identities=14%  Similarity=0.224  Sum_probs=52.9

Q ss_pred             HHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 004362          571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT  650 (759)
Q Consensus       571 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  650 (759)
                      .++..+...|++++|..+++++...  .|.+...+..++..+...|++++|..+++++.+.. +.+...+..++.++...
T Consensus         6 ~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            6 NLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHh
Confidence            3334444444444444444444433  33334444444444444444444444444444331 22233444444444444


Q ss_pred             CChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          651 GGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       651 g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      |++++|+.+++++++  ..|+ ...+..+...+...|++++|..+++++..
T Consensus        83 ~~~~~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           83 GDYDEAIEYYQKALE--LDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            444444444444444  2232 22233333333444444444444444443

>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=99.18  E-value=4.5e-10  Score=122.35  Aligned_cols=173  Identities=10%  Similarity=-0.031  Sum_probs=140.9

Q ss_pred             HhcCCHHHHHHHHHHHH--------HcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc
Q 004362          507 CKAAKSEDVMETFKTMI--------EKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN  578 (759)
Q Consensus       507 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  578 (759)
                      ...|++++|++.+++..        +.. +.+...+..++.++...|++++|+..++++++. .+.+...|..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~-~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAER-VGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc-CcchHHHHHHHHHHHHH
Confidence            67889999999999988        432 345677888899999999999999999999886 35577888889999999


Q ss_pred             cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHH
Q 004362          579 SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYC  658 (759)
Q Consensus       579 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  658 (759)
                      .|++++|+..|+++.+.  .|.+...|..++.++...|++++ ++.|+++++.. +.+...|..++.++...|++++|+.
T Consensus       480 ~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999988  88889999999999999999999 99999998763 3347889999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHH-HHHHHHHhcCc
Q 004362          659 LLLENIDKGFIPSLSTIG-RVINCLCVDHR  687 (759)
Q Consensus       659 ~~~~~~~~g~~p~~~~~~-~l~~~~~~~g~  687 (759)
                      .|+++++  +.|+..... .+...+...|+
T Consensus       556 ~~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence            9999988  888865554 44444444443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.17  E-value=2.7e-09  Score=97.45  Aligned_cols=174  Identities=9%  Similarity=0.016  Sum_probs=118.3

Q ss_pred             HHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC----ChhhHHHHH
Q 004362          514 DVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG----DLDGAYQLF  589 (759)
Q Consensus       514 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~A~~~~  589 (759)
                      +|++.|++..+.|   ++..+..++..|...+++++|..+|++..+.+   ++..+..+...|.. +    ++++|+..|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3556666666654   56666677777777777777777777777654   55666666666666 5    777788877


Q ss_pred             HHHHHccCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCC---HhhHHHHHHHHHh----cCChHHHHH
Q 004362          590 RRMEDQYKISHTTATYNIMINAFSE----KLNFYMAEKLFYEMSEKGCPPD---NYTYRIMIDSFCK----TGGINSGYC  658 (759)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~----~g~~~~A~~  658 (759)
                      ++..+.    .++.++..++.+|..    .+++++|+.+|+++.+.+  |.   +..+..|+..|..    .+++++|+.
T Consensus        77 ~~A~~~----g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~  150 (212)
T 3rjv_A           77 EKAVEA----GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDS--ESDAAVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHHHT----TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSST--TSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHHHC----CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcC--CCcchHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            777543    356677777777776    677888888888877554  32   6677777777777    677888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhc-C-----cHHHHHHHHHHHHHCC
Q 004362          659 LLLENIDKGFIPSLSTIGRVINCLCVD-H-----RVHEAVGFVHLMVQKG  702 (759)
Q Consensus       659 ~~~~~~~~g~~p~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~  702 (759)
                      +|+++.+  ..++......+...+... |     +.++|..++++..+.|
T Consensus       151 ~~~~A~~--~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          151 YFKGSSS--LSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHH--TSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHH--cCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            8888877  323344455555555322 3     7888888888877754

>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=99.16  E-value=5.8e-10  Score=121.54  Aligned_cols=247  Identities=7%  Similarity=-0.071  Sum_probs=181.1

Q ss_pred             HhcCCHHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh
Q 004362          472 CKQLKMEIAIEILNTMW--------SHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK  543 (759)
Q Consensus       472 ~~~~~~~~A~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  543 (759)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|+..|+++++.+ +.+...+..++.++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            67899999999999998        432 3356788889999999999999999999999874 3467889999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 004362          544 AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEK  623 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  623 (759)
                      .|++++|...|+++++. .+.+...+..+..+|...|++++ +..|+++.+.  .|.+..+|..++.++...|++++|++
T Consensus       480 ~g~~~~A~~~~~~al~l-~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT-FPGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH-STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999986 35577889999999999999999 9999999998  89999999999999999999999999


Q ss_pred             HHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHH-----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 004362          624 LFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSG-----YCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHL  697 (759)
Q Consensus       624 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A-----~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  697 (759)
                      .|+++.+.  .|+ ...+..++.++...|+.+++     .+..+....  +.++......+...     -++.+..+   
T Consensus       556 ~~~~al~l--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~--~~~~~~~~~~l~~~-----ll~~~l~~---  623 (681)
T 2pzi_A          556 TLDEVPPT--SRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEA--LPPTEPRVLQIRAL-----VLGGALDW---  623 (681)
T ss_dssp             HHHTSCTT--STTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHT--SCTTSTTHHHHHHH-----HHHHHHHH---
T ss_pred             HHHhhccc--CcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhh--CCCCcHHHHHHHHH-----HHHHHHHH---
Confidence            99999854  676 77888888888776663332     223333333  44554443322111     11111111   


Q ss_pred             HHHCCCCCchHHHHHhc---cccccccchHHHHHHHhcCCCchHH
Q 004362          698 MVQKGIVPEVVNTIFEA---DKREVASPKIVVEDLLKKSHITYYA  739 (759)
Q Consensus       698 ~~~~~~~p~~~~~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~  739 (759)
                      ..  ...|+ +..+++.   ..+-...+.+.|+++....+.+..-
T Consensus       624 ~~--~~~~~-~~~~lG~~~~~~~lr~~~~~ayr~la~~~~~~~~r  665 (681)
T 2pzi_A          624 LK--DNKAS-TNHILGFPFTSHGLRLGVEASLRSLARVAPTQRHR  665 (681)
T ss_dssp             HT--SCCCS-SSEETTEESSHHHHHHHHHHHHHHHHHHCSSHHHH
T ss_pred             HH--ccCCC-CcccCCCCCChHHHHHHHHHHHHHHHHhCCChHHH
Confidence            11  23444 3345555   3344456888888888877765543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.16  E-value=5.3e-08  Score=100.93  Aligned_cols=123  Identities=9%  Similarity=-0.062  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 004362          568 AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL-NFYMAEKLFYEMSEKGCPPDNYTYRIMIDS  646 (759)
Q Consensus       568 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  646 (759)
                      +|...+..+.+.+..+.|..+|+++ ..  .+.+...|...+..-...+ +.+.|..+|+.+.+.. +.++..|...+..
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~--~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~  363 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GN--EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLF  363 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TT--SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hC--CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            3444455444555555555555555 21  1122333333332222222 4555555555555431 2223444444444


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Q 004362          647 FCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMV  699 (759)
Q Consensus       647 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  699 (759)
                      ....|+.+.|..+|+++.     .....|...+..-...|+.+.+.++++++.
T Consensus       364 e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          364 LLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            455555555655555541     122333333332244556555555555544

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.16  E-value=1.6e-09  Score=91.06  Aligned_cols=133  Identities=15%  Similarity=0.232  Sum_probs=118.0

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHH
Q 004362          533 TYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAF  612 (759)
Q Consensus       533 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  612 (759)
                      .+..++..+...|++++|..+++++.+. .+.+...+..++..+...|++++|...++++...  .|.+...+..++.++
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL-DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc-CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            5677888999999999999999999886 3557788888999999999999999999999988  778888999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          613 SEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      ...|++++|+.+++++.+.. +.+..++..++.++...|++++|...++++++  ..|+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE--LDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--HSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc--cCCC
Confidence            99999999999999998763 44588899999999999999999999999988  5564

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.15  E-value=2.9e-09  Score=98.47  Aligned_cols=187  Identities=9%  Similarity=-0.023  Sum_probs=134.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh---hcH
Q 004362          460 DIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVT-P-DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNI---ITY  534 (759)
Q Consensus       460 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~  534 (759)
                      +...+..+...+...|++++|+..|+++.+..+. | ....+..++.++.+.|++++|+..|+++++..+. +.   ..+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~-~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT-HPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCcHHHHH
Confidence            4455667778899999999999999999975322 1 1357888899999999999999999999987422 22   245


Q ss_pred             HHHHHHHHh------------------cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc
Q 004362          535 SILGESLCK------------------AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY  596 (759)
Q Consensus       535 ~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  596 (759)
                      ..++.++..                  .|++++|...|+++++. .|.+...+......              ..+... 
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~-~P~~~~a~~a~~~l--------------~~~~~~-  145 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG-YPNSQYTTDATKRL--------------VFLKDR-  145 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT-CTTCTTHHHHHHHH--------------HHHHHH-
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH-CcCChhHHHHHHHH--------------HHHHHH-
Confidence            666666654                  57899999999999986 34344333222111              111110 


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H---hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          597 KISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-N---YTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       597 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                          .......++..|...|++++|+..|+++++.  .|+ +   ..+..++.++.+.|++++|+..++++..  ..|+
T Consensus       146 ----~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~--~~~~  216 (225)
T 2yhc_A          146 ----LAKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAA--NSSN  216 (225)
T ss_dssp             ----HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--CCSC
T ss_pred             ----HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCC
Confidence                1122346778888999999999999999876  344 2   5688888899999999999999998887  4454

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.15  E-value=3e-09  Score=97.20  Aligned_cols=175  Identities=11%  Similarity=0.016  Sum_probs=132.1

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcC----CHHHHHHHH
Q 004362          479 IAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAH----KITEAFNLL  554 (759)
Q Consensus       479 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  554 (759)
                      +|.+.|++..+.|   ++..+..+...|...+++++|++.|++..+.+   +...+..++..|.. +    ++++|..+|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4566677776653   66777777777777888888888888877764   56667777777766 5    788888888


Q ss_pred             HHHHHCCCCccHHHHHHHHHHHHc----cCChhhHHHHHHHHHHccCCC--CchhhHHHHHHHHHh----cCCHHHHHHH
Q 004362          555 EEMENKGLTLDTVAFGTLINGFCN----SGDLDGAYQLFRRMEDQYKIS--HTTATYNIMINAFSE----KLNFYMAEKL  624 (759)
Q Consensus       555 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~----~g~~~~A~~~  624 (759)
                      ++..+.+   +...+..+..+|..    .+++++|+..|++..+.  .+  .++.++..++.+|..    .+++++|+.+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  151 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD--SESDAAVDAQMLLGLIYASGVHGPEDDVKASEY  151 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS--TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc--CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            8887654   56677777777776    78888899888888876  33  237788888888888    7789999999


Q ss_pred             HHHHHHcCCCCCHhhHHHHHHHHHhc-C-----ChHHHHHHHHHHHhCC
Q 004362          625 FYEMSEKGCPPDNYTYRIMIDSFCKT-G-----GINSGYCLLLENIDKG  667 (759)
Q Consensus       625 ~~~~~~~~~~p~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~g  667 (759)
                      |+++.+.  +++...+..|+..|... |     ++++|+.+|+++.+.|
T Consensus       152 ~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          152 FKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            9998865  34556777788877653 3     8899999999988854

>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=99.14  E-value=1.8e-10  Score=98.56  Aligned_cols=145  Identities=8%  Similarity=-0.033  Sum_probs=81.5

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhc
Q 004362           10 VAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRR   89 (759)
Q Consensus        10 ~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (759)
                      |+.+...+|++++|+..|+.+....+  ..+..+..++.+|.+.|++++|++.|+++...+|.  +..++..++.+|...
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p--~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~--~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPR--QKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER--DPKAHRFLGLLYELE   78 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHH--HHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCc--ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHc
Confidence            34444555666666666666543321  12234445666666666666666666666666666  666666666666666


Q ss_pred             CChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHccC
Q 004362           90 GKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKV-YMRMRNKGIVPDVYTFVIRIKSFCRTR  160 (759)
Q Consensus        90 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  160 (759)
                      |++++|+..|+++.... +.++.+|..+..+|.+.|++++|... +++.++.. |.++.+|......+...|
T Consensus        79 ~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           79 ENTDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             CchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            66666666666666544 34555666666666666666554443 35555532 224455555555444444

>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=99.14  E-value=4e-10  Score=99.72  Aligned_cols=156  Identities=8%  Similarity=-0.012  Sum_probs=65.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHH-Hh
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAF-SE  614 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~  614 (759)
                      ..+..+...|++++|...++++++. .|.+...+..+..++...|++++|+..|+++...  .| ++..+..++... ..
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p-~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDE-LQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQ-DNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHH-HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GC-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cC-ChHHHHHHHHHHHHh
Confidence            3344444444444444444444432 1223444444444444444444444444444433  22 222222222111 11


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCcHHHH
Q 004362          615 KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS---LSTIGRVINCLCVDHRVHEA  691 (759)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~---~~~~~~l~~~~~~~g~~~~A  691 (759)
                      .+...+|+..++++++.. |.+...+..++.++...|++++|+..|+++++  ..|+   ...+..+...+...|+.++|
T Consensus        87 ~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           87 QAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILK--VNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHH--hCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            112223444444444331 11244445555555555555555555555554  3332   12333344444445555555


Q ss_pred             HHHHHHH
Q 004362          692 VGFVHLM  698 (759)
Q Consensus       692 ~~~~~~~  698 (759)
                      ...|++.
T Consensus       164 ~~~y~~a  170 (176)
T 2r5s_A          164 ASKYRRQ  170 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555444

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.13  E-value=9.1e-10  Score=106.08  Aligned_cols=160  Identities=10%  Similarity=-0.040  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHH-HHHHHHH
Q 004362          497 ITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVA-FGTLING  575 (759)
Q Consensus       497 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~  575 (759)
                      ..+..+...+...|++++|...|++.++.. +.+...+..++.++...|++++|...++++...  .|+... .......
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~  194 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHH
Confidence            334444444445555555555555544432 123344444444555555555555555444432  122221 1111122


Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HhhHHHHHHHHHhcCC
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD---NYTYRIMIDSFCKTGG  652 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~  652 (759)
                      +...++.++|+..+++....  .|++...+..++.++...|++++|+..|+++++..  |+   ...+..++.++...|+
T Consensus       195 l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~--p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXD--LTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc--cccccchHHHHHHHHHHHcCC
Confidence            33444444444445444444  44444444445555555555555555554444331  22   3344444444444444


Q ss_pred             hHHHHHHHHHH
Q 004362          653 INSGYCLLLEN  663 (759)
Q Consensus       653 ~~~A~~~~~~~  663 (759)
                      .++|...+++.
T Consensus       271 ~~~a~~~~r~a  281 (287)
T 3qou_A          271 GDALASXYRRQ  281 (287)
T ss_dssp             TCHHHHHHHHH
T ss_pred             CCcHHHHHHHH
Confidence            44444444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.12  E-value=7.7e-10  Score=91.05  Aligned_cols=109  Identities=9%  Similarity=-0.001  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMID  645 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  645 (759)
                      ...+...+..|.+.|++++|+..|+++++.  .|.+..+|..++.+|...|++++|+..++++++.. +.+...|..++.
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~   89 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAA   89 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHH
Confidence            345667778888888888888888888887  78888888888888888888888888888888653 334778888888


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          646 SFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVI  679 (759)
Q Consensus       646 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  679 (759)
                      ++...|++++|+..|+++++  +.|++.....-+
T Consensus        90 ~~~~~~~~~~A~~~~~~al~--l~P~~~~a~~~l  121 (126)
T 4gco_A           90 CLVAMREWSKAQRAYEDALQ--VDPSNEEAREGV  121 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH--HCcCCHHHHHHH
Confidence            88888888888888888888  778766554433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.12  E-value=3.5e-08  Score=94.04  Aligned_cols=223  Identities=10%  Similarity=-0.011  Sum_probs=149.9

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCChhcHHHHHHHH----Hhc---CCH
Q 004362          477 MEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA--KSEDVMETFKTMIEKRCVPNIITYSILGESL----CKA---HKI  547 (759)
Q Consensus       477 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~  547 (759)
                      .++|+.+++.++..++ -+...|+.-..++...+  +++++++.++.++..++ -+..+|+.-...+    ...   +++
T Consensus        49 s~~aL~~t~~~L~~nP-~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP-k~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           49 SERALHITELGINELA-SHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE-KNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             SHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT-TCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CHHHHHHHHHHHHHCc-HHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc-ccHHHHHHHHHHHHHHHHhccccCCH
Confidence            3567777777776532 24556666666666666  77777777777777642 2444555544444    444   677


Q ss_pred             HHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChh--hHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCC------HH
Q 004362          548 TEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLD--GAYQLFRRMEDQYKISHTTATYNIMINAFSEKLN------FY  619 (759)
Q Consensus       548 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~~  619 (759)
                      ++++.+++.+.+. .+-+..+|+.-..++.+.|.++  ++++.++++.+.  .|.+..+|+....++...++      ++
T Consensus       127 ~~EL~~~~~~l~~-~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          127 YREFDILEAMLSS-DPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             HHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHH
Confidence            7888888888775 3556777777666777777777  888888888877  77788888888877777776      78


Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH-HHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCcHHHHHHHHH
Q 004362          620 MAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINS-GYCLLLENIDKG-FIP-SLSTIGRVINCLCVDHRVHEAVGFVH  696 (759)
Q Consensus       620 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~g-~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~  696 (759)
                      ++++.+++++... +-|...|+.+...+.+.|+... ...+.+++++.+ ..| +...+..+...+.+.|+.++|+++++
T Consensus       204 eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~  282 (306)
T 3dra_A          204 EELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYD  282 (306)
T ss_dssp             HHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            8888888887653 4457788888887777777444 445666555411 113 44555566666677788888888888


Q ss_pred             HHHHCCCCCc
Q 004362          697 LMVQKGIVPE  706 (759)
Q Consensus       697 ~~~~~~~~p~  706 (759)
                      .+.++ ++|-
T Consensus       283 ~l~~~-~Dpi  291 (306)
T 3dra_A          283 LLKSK-YNPI  291 (306)
T ss_dssp             HHHHT-TCGG
T ss_pred             HHHhc-cChH
Confidence            87652 4444

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.11  E-value=2e-07  Score=96.64  Aligned_cols=125  Identities=12%  Similarity=-0.019  Sum_probs=82.5

Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC-ChhhHHHHHHHHHHccCCCCchhhHHHHHH
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG-DLDGAYQLFRRMEDQYKISHTTATYNIMIN  610 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  610 (759)
                      ..|...+..+.+.+..+.|..+|+++ +. .+.+...|...+..-...+ +.+.|..+|+...+.  .|.++..+...+.
T Consensus       287 ~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~--~~~~~~~~~~yid  362 (493)
T 2uy1_A          287 LLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK--HPDSTLLKEEFFL  362 (493)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            34555555555666777788888777 32 1234444544333333333 588888888888877  4556666666777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          611 AFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .....|+.+.|..+|+++.     .....|...+..-...|+.+.+..+++++.+
T Consensus       363 ~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          363 FLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777788888888888872     2456677777766777888888888887764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.09  E-value=2.9e-09  Score=102.58  Aligned_cols=166  Identities=10%  Similarity=-0.041  Sum_probs=125.4

Q ss_pred             CChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHH
Q 004362          529 PNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIM  608 (759)
Q Consensus       529 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  608 (759)
                      .+...+..++..+...|++++|...++++.+. .|.+...+..++.++...|++++|...++++...  .|+........
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQL-SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            34556677778888888888888888888876 3556777888888888888888888888888776  55544444445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhc
Q 004362          609 INAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL---STIGRVINCLCVD  685 (759)
Q Consensus       609 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~---~~~~~l~~~~~~~  685 (759)
                      ...+...++.++|+..++++.+.. |.+...+..++.++...|++++|+..+.++++  ..|+.   ..+..++..+...
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~--~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLR--XDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHh--cccccccchHHHHHHHHHHHc
Confidence            555777788888888888888663 33477888888888888888888888888888  66754   3455666666778


Q ss_pred             CcHHHHHHHHHHHHH
Q 004362          686 HRVHEAVGFVHLMVQ  700 (759)
Q Consensus       686 g~~~~A~~~~~~~~~  700 (759)
                      |+.++|...+++...
T Consensus       269 g~~~~a~~~~r~al~  283 (287)
T 3qou_A          269 GTGDALASXYRRQLY  283 (287)
T ss_dssp             CTTCHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHH
Confidence            888888888877654

>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=99.08  E-value=1.7e-09  Score=95.63  Aligned_cols=160  Identities=8%  Similarity=-0.013  Sum_probs=116.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHH-HH
Q 004362          499 YNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLING-FC  577 (759)
Q Consensus       499 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~  577 (759)
                      +......+...|++++|+..|++.++.. +.+...+..++.++...|++++|...++++....  |+...+...... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            3445556677777777777777776653 2355667777777777788888888777776542  244333222212 12


Q ss_pred             ccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HhhHHHHHHHHHhcCChH
Q 004362          578 NSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD---NYTYRIMIDSFCKTGGIN  654 (759)
Q Consensus       578 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~  654 (759)
                      ..+...+|+..++++.+.  .|.+...+..++.++...|++++|+..|+++++.  .|+   ...+..++.++...|+.+
T Consensus        86 ~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKV--NLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             hhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CcccChHHHHHHHHHHHHHhCCCC
Confidence            223445678889999888  8888999999999999999999999999999865  444   457888999999999999


Q ss_pred             HHHHHHHHHHh
Q 004362          655 SGYCLLLENID  665 (759)
Q Consensus       655 ~A~~~~~~~~~  665 (759)
                      +|...|++++.
T Consensus       162 ~A~~~y~~al~  172 (176)
T 2r5s_A          162 AIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHH
T ss_pred             cHHHHHHHHHH
Confidence            99999998764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.08  E-value=1.9e-09  Score=91.40  Aligned_cols=104  Identities=13%  Similarity=-0.053  Sum_probs=82.9

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMI  644 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  644 (759)
                      +...+..+...+...|++++|+..|+++...  .|.++..|..++.+|...|++++|+..|+++++.. |.++..|..++
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHH
Confidence            4556777778888888888888888888887  78888888888888888888888888888888653 33477888888


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 004362          645 DSFCKTGGINSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      .+|...|++++|+..|+++++  +.|+.+
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~--l~~~~~  138 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQ--HSNDEK  138 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HCCCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH--hCCCHH
Confidence            888888888888888888888  677765

>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=99.08  E-value=1.7e-09  Score=116.00  Aligned_cols=158  Identities=8%  Similarity=0.001  Sum_probs=110.0

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHH
Q 004362          509 AAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQL  588 (759)
Q Consensus       509 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  588 (759)
                      .|++++|++.|++..+.. +.+...+..++..+...|++++|...+++..+. .+.+...+..+..+|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL-HPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT-STTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            366777777777776653 234667777888888888888888888888775 345677788888888888888888888


Q ss_pred             HHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc---CChHHHHHHHHHHHh
Q 004362          589 FRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT---GGINSGYCLLLENID  665 (759)
Q Consensus       589 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~  665 (759)
                      |+++.+.  .|.+...+..++.+|...|++++|++.++++.+.. +.+...+..++.++...   |++++|...++++++
T Consensus        80 ~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           80 LQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            8888887  77788888888888888888888888888888653 33477788888888888   888888888888887


Q ss_pred             CCCCCCHH
Q 004362          666 KGFIPSLS  673 (759)
Q Consensus       666 ~g~~p~~~  673 (759)
                        ..|+..
T Consensus       157 --~~p~~~  162 (568)
T 2vsy_A          157 --QGVGAV  162 (568)
T ss_dssp             --HTCCCS
T ss_pred             --cCCccc
Confidence              556543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.08  E-value=7.9e-08  Score=91.63  Aligned_cols=217  Identities=11%  Similarity=0.024  Sum_probs=105.4

Q ss_pred             HHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC--ChhHHHHHHHHhhhCCCCCCHHHHHHHHHHH----HHc---CCh
Q 004362           57 EEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRG--KVQEAVDVFERMDFYNCEPTVLSYNTIMNIL----VEY---GYF  127 (759)
Q Consensus        57 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~  127 (759)
                      ++|+.++..++..+|.  ...+|+.-..++...|  ++++++.+++.+...+ +.+..+|+.-..++    ...   +++
T Consensus        50 ~~aL~~t~~~L~~nP~--~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           50 ERALHITELGINELAS--HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             HHHHHHHHHHHHHCTT--CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             HHHHHHHHHHHHHCcH--HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCH
Confidence            3455555555555554  4445555555554444  5555555555554433 23333444433333    333   445


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChh--hHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCC------hhH
Q 004362          128 SQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPH--VALRLLKNMPSQGFEPNAVAYCTLIAGFYEENH------NVE  199 (759)
Q Consensus       128 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~  199 (759)
                      ++++.+++.+.+.. +-+..+|....-++.+.|.++  ++++.++.+.+.+ +.|..+|+--...+...+.      +++
T Consensus       127 ~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHH
Confidence            55555555555432 224444444444444445444  5555555555544 3344445444444444333      555


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCh-hHHHHHHHHHhhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          200 AYELFDEMLGMGISPDIATFNKLIHTLCKKGNV-RESEKLFNKVLKRG--VSPNLFTFNMFIQGLCRKGAISEAISLLDS  276 (759)
Q Consensus       200 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  276 (759)
                      +++.+++++...+. |...|+.+...+.+.|+. +.+..+...+.+.+  -..+...+..++..|.+.|+.++|.++++.
T Consensus       205 El~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          205 ELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            55555555554322 455555555555555542 22334444443322  122445555556666666666666666666


Q ss_pred             Hhh
Q 004362          277 LGR  279 (759)
Q Consensus       277 ~~~  279 (759)
                      +..
T Consensus       284 l~~  286 (306)
T 3dra_A          284 LKS  286 (306)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            553

>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=99.05  E-value=2.9e-09  Score=114.27  Aligned_cols=153  Identities=12%  Similarity=0.021  Sum_probs=120.0

Q ss_pred             cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 004362          544 AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEK  623 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  623 (759)
                      .|++++|...++++.+. .+.+...+..+...|...|++++|++.|+++.+.  .|.+...+..++.+|...|++++|++
T Consensus         2 ~g~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH-RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            47889999999999876 3557888999999999999999999999999998  88899999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhc---CcHHHHHHHHHHHH
Q 004362          624 LFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-STIGRVINCLCVD---HRVHEAVGFVHLMV  699 (759)
Q Consensus       624 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~---g~~~~A~~~~~~~~  699 (759)
                      .++++.+.. +.+...+..++.++...|++++|+..++++++  +.|+. ..+..+...+...   |+.++|.+.++++.
T Consensus        79 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al  155 (568)
T 2vsy_A           79 LLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQ--LLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAV  155 (568)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHH
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHH
Confidence            999999763 34588999999999999999999999999999  77864 4556677777888   99999999999998


Q ss_pred             HCC
Q 004362          700 QKG  702 (759)
Q Consensus       700 ~~~  702 (759)
                      +.+
T Consensus       156 ~~~  158 (568)
T 2vsy_A          156 AQG  158 (568)
T ss_dssp             HHT
T ss_pred             hcC
Confidence            843

>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=99.03  E-value=1e-08  Score=94.13  Aligned_cols=131  Identities=9%  Similarity=-0.064  Sum_probs=102.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHH
Q 004362          534 YSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFS  613 (759)
Q Consensus       534 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  613 (759)
                      +..++..+...|++++|...++++.    +++...+..++.+|...|++++|+..|+++...  .|.+..++..++.+|.
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHH
Confidence            4456666777788888888877763    456777888888888888888888888888877  6777888888888888


Q ss_pred             hcCCHHHHHHHHHHHHHcC--------------CCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 004362          614 EKLNFYMAEKLFYEMSEKG--------------CPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL  672 (759)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~--------------~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  672 (759)
                      ..|++++|++.|+++.+..              ..|+ ..++..++.++...|++++|+..++++++  +.|+.
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~  154 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS--MKSEP  154 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCSG
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH--cCccc
Confidence            8888888888888887642              1111 36788888899999999999999999998  77764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.03  E-value=1.6e-09  Score=91.89  Aligned_cols=121  Identities=10%  Similarity=-0.024  Sum_probs=99.4

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHH
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFC  648 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  648 (759)
                      ...+.+.+...+.+.++       ...  .|.+...+..++..+...|++++|+..|+++++.. |.++..|..++.+|.
T Consensus        12 ~~~l~~~~~~~~~l~~a-------l~l--~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~   81 (151)
T 3gyz_A           12 STAVIDAINSGATLKDI-------NAI--PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQ   81 (151)
T ss_dssp             HHHHHHHHHTSCCTGGG-------CCS--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHH-------hCC--CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34455555544444444       333  67788899999999999999999999999999763 345899999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHHC
Q 004362          649 KTGGINSGYCLLLENIDKGFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQK  701 (759)
Q Consensus       649 ~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  701 (759)
                      ..|++++|+..|+++++  +.|+ ...+..+..++...|++++|+..|+++.+.
T Consensus        82 ~~g~~~~Ai~~~~~al~--l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A           82 IKEQFQQAADLYAVAFA--LGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HTTCHHHHHHHHHHHHH--HSSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHh--hCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999999  8886 455567777889999999999999999983

>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=99.01  E-value=2.6e-09  Score=104.17  Aligned_cols=97  Identities=9%  Similarity=-0.013  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHccCCCC----chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CC-C-Hh
Q 004362          568 AFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH----TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGC---PP-D-NY  638 (759)
Q Consensus       568 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~p-~-~~  638 (759)
                      ++..+..+|...|++++|+..|++..+......    ...++..++.+|.. |++++|+..|+++++..-   .+ . ..
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~  156 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAE  156 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHH
Confidence            344444455555555555555555443311111    12344445555544 555555555555443210   00 0 23


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          639 TYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       639 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ++..++.+|...|++++|+.+|+++++
T Consensus       157 ~~~~lg~~~~~~g~~~~A~~~~~~al~  183 (307)
T 2ifu_A          157 LIGKASRLLVRQQKFDEAAASLQKEKS  183 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445555555555555555555555554

>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=99.00  E-value=5.7e-09  Score=101.77  Aligned_cols=185  Identities=11%  Similarity=0.083  Sum_probs=119.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCC---CC--ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCc-cHHHHHHHHH
Q 004362          505 GLCKAAKSEDVMETFKTMIEKRC---VP--NIITYSILGESLCKAHKITEAFNLLEEMENK----GLTL-DTVAFGTLIN  574 (759)
Q Consensus       505 ~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~  574 (759)
                      .|...|++++|...|.+......   .+  -..++..++.+|...|++++|+..+++.++.    |.+. ...++..+..
T Consensus        45 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  124 (307)
T 2ifu_A           45 AFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGK  124 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44555666666666665544210   00  1235666667777777777777777776542    1111 2356777888


Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCC----chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HhhHHHHHH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISH----TTATYNIMINAFSEKLNFYMAEKLFYEMSEK----GCPPD-NYTYRIMID  645 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~  645 (759)
                      +|.. |++++|+..|+++.+......    ...++..++.+|...|++++|+..|+++++.    +..+. ..++..++.
T Consensus       125 ~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~  203 (307)
T 2ifu_A          125 LMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVL  203 (307)
T ss_dssp             HHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Confidence            8888 999999999998876521111    1467888899999999999999999998753    11111 236677777


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCC---HHH---HHHHHHHHHhcCcHHHHHHH
Q 004362          646 SFCKTGGINSGYCLLLENIDKGFIPS---LST---IGRVINCLCVDHRVHEAVGF  694 (759)
Q Consensus       646 ~~~~~g~~~~A~~~~~~~~~~g~~p~---~~~---~~~l~~~~~~~g~~~~A~~~  694 (759)
                      ++...|++++|+..|++++ .  .|+   ...   ...++.. +..|+.+.+.++
T Consensus       204 ~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~-~~~~d~~~~~~~  254 (307)
T 2ifu_A          204 VQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQA-YDEQDEEQLLRV  254 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHH-HHTTCHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHH-HHhcCHHHHHHH
Confidence            8888899999999999988 3  342   111   2222322 466777666663

>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=98.97  E-value=2.3e-09  Score=91.15  Aligned_cols=104  Identities=9%  Similarity=-0.028  Sum_probs=75.3

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMI  644 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  644 (759)
                      +...+..+...+...|++++|+..|+++...  .|.+...|..++.++...|++++|+..|+++++.. +.++..+..++
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg   96 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHH
Confidence            4555666777777777788887777777777  67777777777777777777877877777777552 33467777777


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 004362          645 DSFCKTGGINSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      .+|...|++++|+..|+++++  +.|+++
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~--~~p~~~  123 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQE--LIANXP  123 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HHTTCG
T ss_pred             HHHHHcCCHHHHHHHHHHHHH--HCcCCC
Confidence            777777888888877777777  555433

>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=98.96  E-value=1.4e-07  Score=90.32  Aligned_cols=184  Identities=6%  Similarity=-0.095  Sum_probs=120.1

Q ss_pred             HHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC--ChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCC-HHHHHH
Q 004362          547 ITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG--DLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLN-FYMAEK  623 (759)
Q Consensus       547 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~  623 (759)
                      +++++.+++.++.. .|-+..+|+.-..++...|  .+++++.+++++.+.  .|.+..+|+....++...|. ++++++
T Consensus        90 l~~EL~~~~~~L~~-~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~  166 (331)
T 3dss_A           90 VKAELGFLESCLRV-NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELA  166 (331)
T ss_dssp             HHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHh-CCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHH
Confidence            45667777777664 3446666666666666666  367777777777777  77777777777777777776 577777


Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHhc--------------CChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhc---
Q 004362          624 LFYEMSEKGCPPDNYTYRIMIDSFCKT--------------GGINSGYCLLLENIDKGFIPSLSTIG-RVINCLCVD---  685 (759)
Q Consensus       624 ~~~~~~~~~~~p~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~---  685 (759)
                      .+.++++.. +-|...|+....++...              +.+++++.++.+++.  ..|++.+.. .+...+...   
T Consensus       167 ~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~--~~P~d~SaW~Y~r~ll~~~~~~  243 (331)
T 3dss_A          167 FTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFF--TDPNDQSAWFYHRWLLGAGSGR  243 (331)
T ss_dssp             HHHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHSSSCG
T ss_pred             HHHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhccCc
Confidence            777777653 34567777766665554              446778888888877  667544443 333334333   


Q ss_pred             --------CcHHHHHHHHHHHHHCCCCCc-hHHHH--H---hc--cccccccchHHHHHHHhcCCCchH
Q 004362          686 --------HRVHEAVGFVHLMVQKGIVPE-VVNTI--F---EA--DKREVASPKIVVEDLLKKSHITYY  738 (759)
Q Consensus       686 --------g~~~~A~~~~~~~~~~~~~p~-~~~~~--~---~~--~~~~~~~a~~~~~~~~~~~~~~~~  738 (759)
                              +..+++++.++++.+  +.|+ .|+-+  +   ..  ..|..++....++++.+.||.-.-
T Consensus       244 ~~~~~~~~~~l~~el~~~~elle--~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~  310 (331)
T 3dss_A          244 CELSVEKSTVLQSELESCKELQE--LEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAA  310 (331)
T ss_dssp             GGCCHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHH
T ss_pred             cccchHHHHHHHHHHHHHHHHHh--hCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhh
Confidence                    357788888888877  6677 33221  1   11  345666777888888887776443

>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=98.94  E-value=1.3e-07  Score=91.61  Aligned_cols=164  Identities=10%  Similarity=-0.036  Sum_probs=123.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCC-CCccH----HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc----hhhHHH
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKG-LTLDT----VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT----TATYNI  607 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~  607 (759)
                      .+..+...|++++|..++++..+.. ..++.    ..+..+...+...|++++|+..|+++.......++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4566778899999999999988742 12222    12335677778888999999999999885323333    336899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc-----CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC-HHHHH
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEK-----GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDK----GFIPS-LSTIG  676 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~-----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~  676 (759)
                      ++.+|...|++++|+.+|+++++.     +..+. ..++..++.+|...|++++|+.+++++++.    +..+. ...+.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            999999999999999999998841     11222 458899999999999999999999998861    22233 45566


Q ss_pred             HHHHHHHhcC-cHHHHHHHHHHHHH
Q 004362          677 RVINCLCVDH-RVHEAVGFVHLMVQ  700 (759)
Q Consensus       677 ~l~~~~~~~g-~~~~A~~~~~~~~~  700 (759)
                      .+..++...| .+++|.+.++++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            6777778899 57999999999875

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.94  E-value=5.3e-09  Score=96.93  Aligned_cols=186  Identities=8%  Similarity=-0.065  Sum_probs=109.8

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhcHHHH-------HHHHHhcCCHHHHHHHHHHHHHCCCCccHHH--H---------
Q 004362          508 KAAKSEDVMETFKTMIEKRCVPNIITYSIL-------GESLCKAHKITEAFNLLEEMENKGLTLDTVA--F---------  569 (759)
Q Consensus       508 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~---------  569 (759)
                      ..++...|.+.|.++.... +-....|..+       ..++...++..+++..+.....  +.|+...  +         
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            5677777777777777763 2245566655       4444444444444444444333  3333221  1         


Q ss_pred             -----------HHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--
Q 004362          570 -----------GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--  636 (759)
Q Consensus       570 -----------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--  636 (759)
                                 ..++.++...|++++|.+.|+.+...  .|.+. ....++..+.+.+++++|+..|+...+.. .|.  
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~  170 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA--GSEHL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLA  170 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccH
Confidence                       12445666677777777777766654  45455 66666667777777777777776554321 111  


Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-H-HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          637 NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-L-STIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       637 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ..++..++.++...|++++|+..|+++......|. . ........++.+.|+.++|..+|+++..
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a  236 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT  236 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            23566677777777777777777777764222253 2 3445555566677777777777777776

>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=98.92  E-value=2.8e-08  Score=86.85  Aligned_cols=130  Identities=11%  Similarity=-0.008  Sum_probs=104.6

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMID  645 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  645 (759)
                      ...+..++..+...|++++|...|+++...  .|.+..++..++.++...|++++|+..++++.+.. +.+..+|..++.
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            345677778888899999999999999887  77888889999999999999999999999988763 445788888999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHH---HHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          646 SFCKTGGINSGYCLLLENIDKGFIPSLSTIG---RVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       646 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~---~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ++...|++++|+..++++++  +.|+.....   .....+...|++++|++.+++...
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~--~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVK--VKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999998  667544332   233335678999999998887654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.92  E-value=1.4e-07  Score=91.20  Aligned_cols=166  Identities=10%  Similarity=-0.040  Sum_probs=113.5

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcc-----HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc----hh
Q 004362          533 TYSILGESLCKAHKITEAFNLLEEMENKGLTLD-----TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT----TA  603 (759)
Q Consensus       533 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~  603 (759)
                      .+...+..+...|++++|...++...+......     ...+..+...+...|++++|+..++++........+    ..
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            344455666777788888887777766421111     122344566677788888888888888764221111    44


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCC----HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC------
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEK--GCPPD----NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS------  671 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~------  671 (759)
                      +++.++.+|...|++++|+..|+++.+.  ..+.+    ..++..++.+|...|++++|+.+++++++  +.++      
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~--~~~~~~~~~~  234 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIE--ISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHTTBCSS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHH--HHHhcCcHHH
Confidence            7788888888899999999998887721  11111    25788888899999999999999998876  2222      


Q ss_pred             -HHHHHHHHHHHHhcCcHHHH-HHHHHHHHH
Q 004362          672 -LSTIGRVINCLCVDHRVHEA-VGFVHLMVQ  700 (759)
Q Consensus       672 -~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  700 (759)
                       ...+..+..++...|++++| ...++++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence             44556677777888999999 777887754

>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=98.92  E-value=7.5e-09  Score=91.64  Aligned_cols=126  Identities=6%  Similarity=0.047  Sum_probs=78.2

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH-HHhcCCH--H
Q 004362          543 KAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA-FSEKLNF--Y  619 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--~  619 (759)
                      ..|++++|...++...+. .+.+...+..++.+|...|++++|+..|+++...  .|.+...+..++.+ +...|++  +
T Consensus        22 ~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRA-NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             -----CCCCHHHHHHHHH-CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hccCHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcchH
Confidence            345666666666666654 2445566666666677777777777777776666  55666666666666 5566666  7


Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          620 MAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       620 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                      +|+..++++++.. +.+...+..++.++...|++++|+..++++++  ..|++..
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~  150 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD--LNSPRIN  150 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCCTTSC
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh--hCCCCcc
Confidence            7777777766542 22356666666677777777777777777776  5555433

>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=98.92  E-value=2.4e-08  Score=82.41  Aligned_cols=111  Identities=14%  Similarity=0.022  Sum_probs=88.0

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMI  644 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  644 (759)
                      +...+...+..+...|++++|+..|+++...  .|.+...|..++.++...|++++|+..++++++.. +.+...|..++
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKA   79 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            3456677778888888888888888888887  78888888888888888888888888888888653 33477888888


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCC------CCHHHHHHHHH
Q 004362          645 DSFCKTGGINSGYCLLLENIDKGFI------PSLSTIGRVIN  680 (759)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~~~~~g~~------p~~~~~~~l~~  680 (759)
                      .++...|++++|+..++++++  +.      |++......+.
T Consensus        80 ~~~~~~~~~~~A~~~~~~al~--~~p~~~~~p~~~~~~~~l~  119 (126)
T 3upv_A           80 TAQIAVKEYASALETLDAART--KDAEVNNGSSAREIDQLYY  119 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HHHHHHTTTTHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHHHH--hCcccCCchhHHHHHHHHH
Confidence            888888899999888888888  66      66655544443

>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=98.91  E-value=4.2e-07  Score=87.07  Aligned_cols=185  Identities=6%  Similarity=-0.077  Sum_probs=127.3

Q ss_pred             HHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCC-hhhHHHH
Q 004362          512 SEDVMETFKTMIEKRCVPNIITYSILGESLCKAH--KITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGD-LDGAYQL  588 (759)
Q Consensus       512 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~  588 (759)
                      +++++.+++.++... +-+..+|..-..++...+  .+++++.+++.+.+. .+-+..+|+.-..++...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~-dprNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA-DERNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            456677777777654 235666666666666666  377777777777775 34466666666666666676 4778888


Q ss_pred             HHHHHHccCCCCchhhHHHHHHHHHhc--------------CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc----
Q 004362          589 FRRMEDQYKISHTTATYNIMINAFSEK--------------LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT----  650 (759)
Q Consensus       589 ~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----  650 (759)
                      ++.+++.  .|.+..+|+....++...              +.++++++.+.+++... |-|...|+.+-..+...    
T Consensus       168 ~~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~  244 (331)
T 3dss_A          168 TDSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRC  244 (331)
T ss_dssp             HHHHHHH--CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGG
T ss_pred             HHHHHHH--CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCcc
Confidence            8888777  777777887777776655              45778888888887653 44577787776666555    


Q ss_pred             -------CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-----HhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          651 -------GGINSGYCLLLENIDKGFIPSLSTIGRVINCL-----CVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       651 -------g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                             +.+++++..++++++  +.|++. |..+..++     -..|..++...++.++.+  ++|.
T Consensus       245 ~~~~~~~~~l~~el~~~~elle--~~pd~~-w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~Dp~  307 (331)
T 3dss_A          245 ELSVEKSTVLQSELESCKELQE--LEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPM  307 (331)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHHH--HCTTCH-HHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH--HCGG
T ss_pred             ccchHHHHHHHHHHHHHHHHHh--hCcccc-hHHHHHHHHHHhhcccccHHHHHHHHHHHHH--hCcc
Confidence                   457888999999998  788752 32211111     246788888889999887  7776

>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=98.90  E-value=3.6e-09  Score=89.97  Aligned_cols=109  Identities=10%  Similarity=-0.058  Sum_probs=94.4

Q ss_pred             HHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 004362          587 QLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDK  666 (759)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  666 (759)
                      ..|+++...  .|.+...+..++..+...|++++|+..|+++++.. +.+...|..++.+|...|++++|+..|+++++ 
T Consensus         8 ~~~~~al~~--~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~-   83 (148)
T 2vgx_A            8 GTIAMLNEI--SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAV-   83 (148)
T ss_dssp             CSHHHHTTC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             hhHHHHHcC--CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh-
Confidence            456666666  67788899999999999999999999999999763 44688999999999999999999999999999 


Q ss_pred             CCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          667 GFIPSL-STIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       667 g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                       +.|++ ..+..+..++...|++++|.+.++++.+
T Consensus        84 -l~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           84 -MDIXEPRFPFHAAECLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             -HSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -cCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             77864 4556677777899999999999999987

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.90  E-value=3.5e-08  Score=81.05  Aligned_cols=109  Identities=8%  Similarity=0.010  Sum_probs=84.2

Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA  611 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  611 (759)
                      ..+...+..+.+.|++++|+..|+++++. .|.+...|..+..+|...|++++|+..|+++++.  .|.+..+|..++.+
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~   90 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR-DPENAILYSNRAACLTKLMEFQRALDDCDTCIRL--DSKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHh--hhhhhHHHHHHHHH
Confidence            35566777778888888888888887775 3557777888888888888888888888888887  77788888888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHH
Q 004362          612 FSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMID  645 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~  645 (759)
                      +...|++++|++.|+++++.  .|+ ...+..+..
T Consensus        91 ~~~~~~~~~A~~~~~~al~l--~P~~~~a~~~l~~  123 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQV--DPSNEEAREGVRN  123 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CcCCHHHHHHHHH
Confidence            88888888888888888865  454 555555544

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.90  E-value=2e-07  Score=90.23  Aligned_cols=168  Identities=11%  Similarity=0.029  Sum_probs=121.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-----hhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---Ccc--HH
Q 004362          498 TYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPN-----IITYSILGESLCKAHKITEAFNLLEEMENKGL---TLD--TV  567 (759)
Q Consensus       498 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~  567 (759)
                      .+...+..+...|++++|.+.+++..+......     ...+..++..+...|++++|...++++.....   .+.  ..
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            344456667778888888888877776532111     01234456667778899999999988875311   111  45


Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHccC-CCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC----CCCC-H
Q 004362          568 AFGTLINGFCNSGDLDGAYQLFRRMEDQYK-ISHT----TATYNIMINAFSEKLNFYMAEKLFYEMSEKG----CPPD-N  637 (759)
Q Consensus       568 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~p~-~  637 (759)
                      +++.++..|...|++++|+..|+++.+... .|.+    ..++..++.+|...|++++|+..++++++..    .... .
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            788889999999999999999999873211 3332    2588899999999999999999999987531    1111 6


Q ss_pred             hhHHHHHHHHHhcCChHHH-HHHHHHHHh
Q 004362          638 YTYRIMIDSFCKTGGINSG-YCLLLENID  665 (759)
Q Consensus       638 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  665 (759)
                      .+|..++.+|...|++++| ..++++++.
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            7889999999999999999 888998875

>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=98.89  E-value=1e-08  Score=98.30  Aligned_cols=194  Identities=9%  Similarity=-0.030  Sum_probs=136.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN  574 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  574 (759)
                      +...+..+...+...|++++|+..|++.++.. +.+...+..++.++...|++++|...++++++. .+.+...+..++.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL-DGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-CCCCHHHHHHHHH
Confidence            45667777788888888888888888888763 336777888888888899999999999988876 3557778888889


Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGIN  654 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  654 (759)
                      +|...|++++|+..|+++.+.  .|.+...+...+......   .++... ........+++......+...  ..|+++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~i~~~l~~l--~~~~~~  152 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL--AKEQRLNFGDDIPSALRI---AKKKRW-NSIEERRIHQESELHSYLTRL--IAAERE  152 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--HHHTTCCCCSHHHHHHHH---HHHHHH-HHHHHTCCCCCCHHHHHHHHH--HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHHH---HHHHHH-HHHHHHHHhhhHHHHHHHHHH--HHHHHH
Confidence            999999999999999988876  443332222222222211   112222 222223345556655555443  379999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHH-Hh-cCcHHHHHHHHHHHHH
Q 004362          655 SGYCLLLENIDKGFIPSLSTIGRVINCL-CV-DHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       655 ~A~~~~~~~~~~g~~p~~~~~~~l~~~~-~~-~g~~~~A~~~~~~~~~  700 (759)
                      +|+..++++++  +.|++.....-+..+ .. .+.+++|.++|+++.+
T Consensus       153 ~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            99999999998  789877665555544 33 3789999999998865

>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=98.87  E-value=2.5e-08  Score=82.15  Aligned_cols=106  Identities=13%  Similarity=0.101  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCC----HhhH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG--CPPD----NYTY  640 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~p~----~~~~  640 (759)
                      ..+..++..+.+.|++++|+..|+++++.  .|.+..+|..++.+|...|++++|++.++++++..  ..++    ..+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            44667777888888888888888888877  77788888888888888888888888888877531  0111    2356


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          641 RIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       641 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      ..++.++...|++++|+..|+++++  ..|++....
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~  120 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS--EFRDPELVK  120 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHHH
Confidence            6777778888888888888888887  667655443

>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=98.87  E-value=1.2e-06  Score=84.33  Aligned_cols=175  Identities=10%  Similarity=-0.014  Sum_probs=92.7

Q ss_pred             HhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCC-ChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhc-C-
Q 004362           14 VKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHG-NFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRR-G-   90 (759)
Q Consensus        14 l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-   90 (759)
                      +...+..++|++.++.++...+.  ...+|..-..++...| .+++++..++.++..+|.  +..+|+....++... + 
T Consensus        64 ~~~~e~se~AL~lt~~~L~~nP~--~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK--ny~aW~hR~wlL~~l~~~  139 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMNPA--HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK--SYQVWHHRLLLLDRISPQ  139 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC--CHHHHHHHHHHHHHHCCS
T ss_pred             HHhCCCCHHHHHHHHHHHHhCch--hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHHhcCC
Confidence            33444455666666666554322  3444555555555555 366666666666666665  555666555555544 4 


Q ss_pred             ChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChh--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC-
Q 004362           91 KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFS--------QVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRR-  161 (759)
Q Consensus        91 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-  161 (759)
                      ++++++++++++.... +.|..+|+...-++.+.+.++        ++++.++++++.. +.|..+|+.....+.+.++ 
T Consensus       140 ~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          140 DPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             CCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTC
T ss_pred             ChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccc
Confidence            5666666666666444 445555655555544444444        5666666665543 2355555555555555444 


Q ss_pred             ------hhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcC
Q 004362          162 ------PHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEEN  195 (759)
Q Consensus       162 ------~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  195 (759)
                            ++++++.++++...+ +-|..+|+-+-..+.+.|
T Consensus       218 ~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~  256 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFS  256 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             ccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence                  344555555544443 344455544444444333

>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=98.86  E-value=8.7e-08  Score=87.78  Aligned_cols=130  Identities=12%  Similarity=0.006  Sum_probs=99.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc
Q 004362          499 YNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN  578 (759)
Q Consensus       499 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  578 (759)
                      +..+...+...|++++|+..|++..    .|+...+..++.++...|++++|...++++.+. .+.+...+..++.+|..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR-DKHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CccchHHHHHHHHHHHH
Confidence            4455666677788888887777663    456677777888888888888888888887775 34567777888888888


Q ss_pred             cCChhhHHHHHHHHHHccCCCCch----------------hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004362          579 SGDLDGAYQLFRRMEDQYKISHTT----------------ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDN  637 (759)
Q Consensus       579 ~g~~~~A~~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  637 (759)
                      .|++++|+..|+++...  .|.+.                .++..++.++...|++++|+..++++.+.  .|+.
T Consensus        84 ~~~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~  154 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQ--LRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM--KSEP  154 (213)
T ss_dssp             TTCHHHHHHHHHHHHHT--TTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCSG
T ss_pred             cccHHHHHHHHHHHHHh--CCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc--Cccc
Confidence            88888888888888876  44443                78889999999999999999999999854  5653

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.85  E-value=5.9e-08  Score=89.96  Aligned_cols=194  Identities=9%  Similarity=-0.032  Sum_probs=144.6

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-------HHHHHhcCCHHHHHHHHHHHHHcCCCCCh--------------
Q 004362          473 KQLKMEIAIEILNTMWSHGVTPDVITYNSL-------LNGLCKAAKSEDVMETFKTMIEKRCVPNI--------------  531 (759)
Q Consensus       473 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------  531 (759)
                      ..++...|.+.|.++....+ -....|..+       ..++...++..+++..++.-+..  .|+.              
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP-~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l--~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDE-SACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhCh-hhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            68999999999999998742 257788887       46666666666776666665542  2211              


Q ss_pred             --------hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc--
Q 004362          532 --------ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT--  601 (759)
Q Consensus       532 --------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--  601 (759)
                              .....+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+.....  .++.  
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~--~d~~~~  170 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW--PDKFLA  170 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC--SCHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc--CCcccH
Confidence                    123346677888999999999999887643  43336667777889999999999999866543  1121  


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          602 TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       602 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      ..++..++.++...|++++|+..|++.......|.  ...+...+.++.+.|+.++|...|+++..  ..|+ ....
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a--~~P~-~~~~  244 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT--THPE-PKVA  244 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSCC-HHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCc-HHHH
Confidence            34788899999999999999999999985433254  45778888899999999999999999999  7788 4433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.85  E-value=1.6e-08  Score=85.56  Aligned_cols=106  Identities=7%  Similarity=-0.090  Sum_probs=78.4

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMI  644 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  644 (759)
                      +...+..+...+...|++++|+..|+++...  .|.+...|..++.++...|++++|+..|+++++.. +.++..+..++
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   93 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAA   93 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHH
Confidence            4445666677777788888888888888777  77777888888888888888888888888877653 33467777777


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          645 DSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      .++...|++++|+..|+++++  +.|+++.+
T Consensus        94 ~~~~~~g~~~~A~~~~~~al~--~~p~~~~~  122 (142)
T 2xcb_A           94 ECHLQLGDLDGAESGFYSARA--LAAAQPAH  122 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HHHTCGGG
T ss_pred             HHHHHcCCHHHHHHHHHHHHH--hCCCCcch
Confidence            888888888888888888877  55554433

>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=98.85  E-value=8e-08  Score=83.85  Aligned_cols=130  Identities=9%  Similarity=-0.016  Sum_probs=99.0

Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA  611 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  611 (759)
                      ..+..++..+...|++++|...+++..+. .+.+..++..++.++...|++++|+..++++...  .|.+...+..++.+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIEL-NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            34566677777788888888888887775 3446777888888888888888888888888887  67788888888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH--HHHHhcCChHHHHHHHHHHHh
Q 004362          612 FSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMI--DSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~--~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +...|++++|+..++++.+.. +.+...+..+.  ..+...|++++|+..+.+...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            888888999988888888653 33455554333  347778888888888887653

>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=98.83  E-value=8.2e-07  Score=85.82  Aligned_cols=98  Identities=10%  Similarity=-0.069  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHccCChhhHHHHHHHHHHcc-----CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-H
Q 004362          568 AFGTLINGFCNSGDLDGAYQLFRRMEDQY-----KISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK----GCPPD-N  637 (759)
Q Consensus       568 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~-~  637 (759)
                      +++.++.+|...|++++|+..|+++.+..     ..+....++..++.+|...|++++|+..++++++.    +..+. .
T Consensus       157 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~  236 (293)
T 3u3w_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHH
Confidence            35555555555555555555555554210     11222345566666666666666666666665532    11222 4


Q ss_pred             hhHHHHHHHHHhcCC-hHHHHHHHHHHHh
Q 004362          638 YTYRIMIDSFCKTGG-INSGYCLLLENID  665 (759)
Q Consensus       638 ~~~~~l~~~~~~~g~-~~~A~~~~~~~~~  665 (759)
                      .+|..++.++...|+ +++|+..+++++.
T Consensus       237 ~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            567777777777773 5777777777664

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.83  E-value=5.6e-08  Score=81.08  Aligned_cols=106  Identities=13%  Similarity=0.070  Sum_probs=74.7

Q ss_pred             CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHH
Q 004362          563 TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRI  642 (759)
Q Consensus       563 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  642 (759)
                      +.+...+..++..+...|++++|+..|+++...  .|.+..++..++.++...|++++|+..++++.+.. +.+..++..
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   89 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTR   89 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHH
Confidence            344556667777777777777777777777766  66667777777777777777777777777777652 334667777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 004362          643 MIDSFCKTGGINSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       643 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      ++.++...|++++|+..++++++  ..|+..
T Consensus        90 la~~~~~~~~~~~A~~~~~~~~~--~~p~~~  118 (133)
T 2lni_A           90 KAAALEAMKDYTKAMDVYQKALD--LDSSCK  118 (133)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HCGGGT
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHH--hCCCch
Confidence            77777777777777777777777  556543

>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=98.82  E-value=9.8e-09  Score=98.39  Aligned_cols=190  Identities=10%  Similarity=-0.043  Sum_probs=131.3

Q ss_pred             ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          530 NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       530 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +...+..++..+...|++++|...|+++++. .+.+...+..+..+|...|++++|+..++++.+.  .|.+...+..++
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR-NPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            4566778888899999999999999999886 3557888899999999999999999999999988  888899999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRV  688 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~  688 (759)
                      .+|...|++++|+..|+++.+.  .|+ ...+...++...+.   .++.........  ..|+...+...+..+ ..|++
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~~~---~~~~~~~~~~~~--~~~~~~~i~~~l~~l-~~~~~  151 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSL--AKEQRLNFGDDIPSALRI---AKKKRWNSIEER--RIHQESELHSYLTRL-IAAER  151 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--HHHTTCCCCSHHHHHHHH---HHHHHHHHHHHT--CCCCCCHHHHHHHHH-HHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHHH---HHHHHHHHHHHH--HHhhhHHHHHHHHHH-HHHHH
Confidence            9999999999999999998865  343 22222222222211   222222222222  334333333333333 37899


Q ss_pred             HHHHHHHHHHHHCCCCCchH--HHHHhc----cccccccchHHHHHHHhc
Q 004362          689 HEAVGFVHLMVQKGIVPEVV--NTIFEA----DKREVASPKIVVEDLLKK  732 (759)
Q Consensus       689 ~~A~~~~~~~~~~~~~p~~~--~~~~~~----~~~~~~~a~~~~~~~~~~  732 (759)
                      ++|++.++++.+  ..|+..  ..-+..    ..+.+++|..+++++.+.
T Consensus       152 ~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          152 ERELEECQRNHE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHTTTSGGGT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHhhhc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999998876  566621  111111    346677888888877664

>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=98.82  E-value=1.7e-06  Score=83.11  Aligned_cols=184  Identities=8%  Similarity=-0.101  Sum_probs=140.7

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC-ChhHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 004362           42 TYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRG-KVQEAVDVFERMDFYNCEPTVLSYNTIMNI  120 (759)
Q Consensus        42 ~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  120 (759)
                      .+..+...+...+..++|++++..++..+|.  ...+|+....++...| ++++++.+++.+...+ +.+..+|+.-..+
T Consensus        56 ~~~~~r~~~~~~e~se~AL~lt~~~L~~nP~--~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wl  132 (349)
T 3q7a_A           56 AMDYFRAIAAKEEKSERALELTEIIVRMNPA--HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLL  132 (349)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhCch--hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            3344444445556678999999999999998  8889999888888888 5999999999999776 6778889988888


Q ss_pred             HHHc-C-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChh--------hHHHHHhhchhCCCCCCHHhHHHHHHH
Q 004362          121 LVEY-G-YFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPH--------VALRLLKNMPSQGFEPNAVAYCTLIAG  190 (759)
Q Consensus       121 ~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~A~~~~~~~~~~~~~~~~~~~~~l~~~  190 (759)
                      +... + ++++++.+++.+.+.. +.|..+|+...-++.+.|.++        ++++.++++.+.+ +.|..+|+-....
T Consensus       133 L~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~l  210 (349)
T 3q7a_A          133 LDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYL  210 (349)
T ss_dssp             HHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            8876 7 8899999999999865 457778887776666666666        7888888888876 5678888887777


Q ss_pred             HHhcCC-------hhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 004362          191 FYEENH-------NVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGN  231 (759)
Q Consensus       191 ~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  231 (759)
                      +.+.++       ++++++.+++++...+. |...|+.+-..+.+.|.
T Consensus       211 L~~l~~~~~~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          211 RVSRPGAETSSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HTTSTTCCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHhccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCC
Confidence            777665       56777777777765433 66667666665655554

>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=98.81  E-value=2.3e-08  Score=88.46  Aligned_cols=124  Identities=3%  Similarity=0.064  Sum_probs=102.9

Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH-HHhcCCh-
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDS-FCKTGGI-  653 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~-  653 (759)
                      +...|++++|+..++.....  .|.+...|..++.+|...|++++|+..|+++.+.. +.+...+..++.+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcc
Confidence            34678999999999999988  88899999999999999999999999999999763 4457888889988 7899998 


Q ss_pred             -HHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          654 -NSGYCLLLENIDKGFIPSL-STIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       654 -~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                       ++|+..++++++  ..|+. ..+..+...+...|++++|...++++.+  ..|+
T Consensus        97 ~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~  147 (177)
T 2e2e_A           97 TAQTRAMIDKALA--LDSNEITALMLLASDAFMQANYAQAIELWQKVMD--LNSP  147 (177)
T ss_dssp             CHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCCT
T ss_pred             hHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh--hCCC
Confidence             999999999999  77864 4555666677899999999999999988  4444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.80  E-value=6.8e-08  Score=80.21  Aligned_cols=118  Identities=9%  Similarity=-0.011  Sum_probs=76.3

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMI  644 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  644 (759)
                      +...+..++..+...|++++|+..|+++...  .|.+...+..++.++...|++++|+..++++.+.. +.+...+..++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~   87 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHH
Confidence            3445666666677777777777777777766  56666777777777777777777777777776542 33366677777


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCc
Q 004362          645 DSFCKTGGINSGYCLLLENIDKGFIPSLS-TIGRVINCLCVDHR  687 (759)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g~  687 (759)
                      .++...|++++|..+++++++  ..|+.. .+..+...+...|+
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALE--LDPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhCCHHHHHHHHHHHHh--cCccchHHHHHHHHHHHHHhc
Confidence            777777777777777777776  556433 33334444444443

>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=98.80  E-value=2e-08  Score=82.76  Aligned_cols=105  Identities=14%  Similarity=0.102  Sum_probs=84.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH--------
Q 004362          601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL--------  672 (759)
Q Consensus       601 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~--------  672 (759)
                      ....+..++..+...|++++|+..|+++++.. |.+..+|..++.+|...|++++|+..++++++  +.|+.        
T Consensus         7 ~A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~~a   83 (127)
T 4gcn_A            7 AAIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVE--VGRETRADYKLIA   83 (127)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHTTCCHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH--hCcccchhhHHHH
Confidence            45677889999999999999999999999763 33488899999999999999999999999997  55532        


Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCchH
Q 004362          673 STIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVV  708 (759)
Q Consensus       673 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  708 (759)
                      ..+..+...+...|++++|++.+++.+....+|+..
T Consensus        84 ~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~~~~~  119 (127)
T 4gcn_A           84 KAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRDPELV  119 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCHHHH
Confidence            244556666788999999999999988744445443

>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=98.80  E-value=1.5e-07  Score=76.33  Aligned_cols=106  Identities=12%  Similarity=0.046  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMID  645 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  645 (759)
                      ...+..++..+...|++++|+..|+++...  .|.+...+..++.++...|++++|+..++++.+.. +.+...+..++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            455667777777888888888888888777  67777788888888888888888888888877653 334777777888


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          646 SFCKTGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       646 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      ++...|++++|...++++++  ..|+.....
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~  109 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLK--HEANNPQLK  109 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHT--TCTTCHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH--cCCCCHHHH
Confidence            88888888888888888887  667654443

>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=98.79  E-value=7.5e-08  Score=94.90  Aligned_cols=131  Identities=8%  Similarity=0.010  Sum_probs=100.7

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---------------hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---------------TATYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      +...+..+...|.+.|++++|+..|+++...  .|.+               ..+|..++.+|...|++++|+..+++++
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  223 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKAL  223 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4456667777777778888888888877776  5555               5788889999999999999999999988


Q ss_pred             HcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCcHHHH-HHHHHHHHH
Q 004362          630 EKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI-GRVINCLCVDHRVHEA-VGFVHLMVQ  700 (759)
Q Consensus       630 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~~~~g~~~~A-~~~~~~~~~  700 (759)
                      +.. +.+...|..++.+|...|++++|+..|+++++  +.|++... ..+..++...|+.++| .+.+++|..
T Consensus       224 ~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          224 ELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            763 33578888888999999999999999999998  77865444 4555555778888888 446666654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.79  E-value=4.8e-08  Score=88.71  Aligned_cols=157  Identities=11%  Similarity=-0.033  Sum_probs=88.0

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccC----CCCchhhHHHHHHHHHhcCCH
Q 004362          543 KAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYK----ISHTTATYNIMINAFSEKLNF  618 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~  618 (759)
                      ..|++++|.++++.+... ......++..+...+...|++++|...++++.....    .+....++..++.++...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            345666666644443321 223445566666666666666666666666655211    223345566667777777777


Q ss_pred             HHHHHHHHHHHHc----CCCC-C-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCCH----HHHHHHHHHHHhcCc
Q 004362          619 YMAEKLFYEMSEK----GCPP-D-NYTYRIMIDSFCKTGGINSGYCLLLENIDKG-FIPSL----STIGRVINCLCVDHR  687 (759)
Q Consensus       619 ~~A~~~~~~~~~~----~~~p-~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g-~~p~~----~~~~~l~~~~~~~g~  687 (759)
                      ++|+..++++.+.    +-.| . ..++..++.++...|++++|+.+++++++.. -.++.    ..+..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            7777777665542    1011 1 3456667777777777777777777776410 01111    122344555567777


Q ss_pred             HHHHHHHHHHHHH
Q 004362          688 VHEAVGFVHLMVQ  700 (759)
Q Consensus       688 ~~~A~~~~~~~~~  700 (759)
                      +++|...+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777777654

>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=98.78  E-value=8.2e-09  Score=93.32  Aligned_cols=130  Identities=10%  Similarity=0.009  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCch----------------hhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTT----------------ATYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      ...+..+...+...|++++|+..|+++...  .|.++                .++..++.+|...|++++|+..+++++
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al  115 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVL  115 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            344556666777777777777777777765  44443                677888888888888888888888888


Q ss_pred             HcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCcHHHHH-HHHHHHHH
Q 004362          630 EKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG-RVINCLCVDHRVHEAV-GFVHLMVQ  700 (759)
Q Consensus       630 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~g~~~~A~-~~~~~~~~  700 (759)
                      +.. +.+..++..++.+|...|++++|+..|+++++  +.|+..... .+..++...++.+++. ..+..+..
T Consensus       116 ~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          116 KID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            653 33477888888888888888888888888888  677654444 3444445666666666 45555543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.78  E-value=1.3e-07  Score=77.60  Aligned_cols=104  Identities=14%  Similarity=0.253  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMID  645 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  645 (759)
                      ...+..++..+...|++++|...|+++...  .|.+..++..++.++...|++++|+.+++++.+.. +.+..++..++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            455666666777777777777777777766  56666677777777777777777777777776542 334666777777


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          646 SFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       646 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                      ++...|++++|..+++++++  ..|+...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~--~~~~~~~  112 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALE--LDPNNAE  112 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             HHHHhcCHHHHHHHHHHHHH--hCCCcHH
Confidence            77777777777777777776  5565433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.78  E-value=5.4e-08  Score=84.69  Aligned_cols=106  Identities=8%  Similarity=-0.075  Sum_probs=87.4

Q ss_pred             ccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHH
Q 004362          564 LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIM  643 (759)
Q Consensus       564 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l  643 (759)
                      .+...+..+...+...|++++|+..|+++...  .|.+...|..++.+|...|++++|+..++++++.. +.+...|..+
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l   85 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            35566778888888889999999999988888  78888888888999999999999999999888763 3347888888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          644 IDSFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                      +.+|...|++++|+..|+++++  +.|++..
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~--~~p~~~~  114 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIE--AEGNGGS  114 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--HHSSSCC
T ss_pred             HHHHHHccCHHHHHHHHHHHHH--hCCCchH
Confidence            8888999999999999999888  6676544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.77  E-value=5e-08  Score=79.45  Aligned_cols=97  Identities=11%  Similarity=-0.055  Sum_probs=59.0

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHH
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP-DNYTYRIMIDSF  647 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~  647 (759)
                      +..+...+.+.|++++|+..|+++...  .|.+...|..++.++...|++++|+..|+++++.  .| +...+..++.++
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~   95 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSH   95 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            344455566666666666666666666  5666666666666666666666666666666654  33 355666666666


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCC
Q 004362          648 CKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       648 ~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      ...|++++|+..++++++  ..|+
T Consensus        96 ~~~g~~~~A~~~~~~al~--~~P~  117 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLL--SQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC------
T ss_pred             HHcCCHHHHHHHHHHHHH--hCcC
Confidence            666666666666666666  5554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.77  E-value=1.4e-07  Score=78.22  Aligned_cols=120  Identities=15%  Similarity=0.050  Sum_probs=91.3

Q ss_pred             ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          530 NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       530 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +...+..++..+...|++++|...++++... .+.+...+..++.++...|++++|+..++++...  .|.+...+..++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~   87 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIEL-NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHHH
Confidence            3445666777777778888888888887765 3446777778888888888888888888888877  677788888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCCh
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGI  653 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  653 (759)
                      .++...|++++|+..++++.+.. +.+...+..++.++...|++
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            88888888888888888887653 33467777777777777764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.77  E-value=1.4e-07  Score=78.52  Aligned_cols=118  Identities=7%  Similarity=-0.019  Sum_probs=89.6

Q ss_pred             ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          530 NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       530 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +...+..++..+...|++++|...++++.+. .+.+...+..++.+|...|++++|+..++++...  .|.+...+..++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKR-NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQL--EPTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT-CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3446677777777888888888888887765 3446777788888888888888888888888877  677788888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCC
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGG  652 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  652 (759)
                      .++...|++++|+..++++.+.  .|+ ...+..+..++...|+
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDL--DSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhcC
Confidence            8888888888888888888765  343 5667777777666553

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.74  E-value=3.3e-07  Score=75.19  Aligned_cols=116  Identities=16%  Similarity=0.180  Sum_probs=76.9

Q ss_pred             hhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHH
Q 004362          531 IITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMIN  610 (759)
Q Consensus       531 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  610 (759)
                      ...+..++..+...|++++|...++++.+. .+.+...+..++.++...|++++|+..++++...  .|.+..++..++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL-DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHH
Confidence            345556666666677777777777776654 2345666667777777777777777777777766  5666777777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 004362          611 AFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT  650 (759)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  650 (759)
                      ++...|++++|...++++.+.. +.+...+..+..++...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhc
Confidence            7777777777777777777542 23355566665555443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.73  E-value=2.1e-07  Score=84.34  Aligned_cols=157  Identities=11%  Similarity=0.007  Sum_probs=98.0

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CccHHHHHHHHHHHHccCCh
Q 004362          508 KAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENK----GL-TLDTVAFGTLINGFCNSGDL  582 (759)
Q Consensus       508 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~  582 (759)
                      ..|++++|.+.++.+.. ........+..++..+...|++++|...+++....    +. +....++..+...|...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            34566666664433322 11223445666666666667777776666666541    11 12344566777778888888


Q ss_pred             hhHHHHHHHHHHccC-CC----CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCC--HhhHHHHHHHHHhcCC
Q 004362          583 DGAYQLFRRMEDQYK-IS----HTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG---CPPD--NYTYRIMIDSFCKTGG  652 (759)
Q Consensus       583 ~~A~~~~~~~~~~~~-~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~p~--~~~~~~l~~~~~~~g~  652 (759)
                      ++|...+++...... .+    ....++..++.++...|++++|...+++..+..   -.+.  ..++..++.++...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            888888877765421 11    224557778888888888888888888776421   0111  2346778888889999


Q ss_pred             hHHHHHHHHHHHh
Q 004362          653 INSGYCLLLENID  665 (759)
Q Consensus       653 ~~~A~~~~~~~~~  665 (759)
                      +++|..+++++++
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999888875

>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=5.7e-08  Score=82.05  Aligned_cols=108  Identities=7%  Similarity=-0.154  Sum_probs=89.6

Q ss_pred             HHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 004362          588 LFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKG  667 (759)
Q Consensus       588 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  667 (759)
                      .|+++...  .|.+...+..++..+...|++++|+..|+++++.. +.+...|..++.++...|++++|+..|+++++  
T Consensus         6 ~l~~al~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--   80 (142)
T 2xcb_A            6 TLAMLRGL--SEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGAL--   80 (142)
T ss_dssp             ---CCTTC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             hHHHHHcC--CHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh--
Confidence            34444444  67778888899999999999999999999999763 44588999999999999999999999999999  


Q ss_pred             CCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          668 FIPSLS-TIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       668 ~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +.|++. .+..+..++...|++++|.+.++++.+
T Consensus        81 ~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           81 MDINEPRFPFHAAECHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            778654 455667777899999999999999887

>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=98.72  E-value=1.5e-07  Score=79.02  Aligned_cols=99  Identities=7%  Similarity=-0.111  Sum_probs=73.5

Q ss_pred             ccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHH
Q 004362          564 LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIM  643 (759)
Q Consensus       564 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l  643 (759)
                      .+...+..++..+...|++++|+..|+++...  .|.+...|..++.++...|++++|+..++++++.. +.+...|..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            45666777777777777777777777777777  66777777777777777777777777777777653 3346677777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHh
Q 004362          644 IDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      +.++...|++++|+..++++++
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHH
Confidence            7777777888888877777776

>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=98.72  E-value=2e-07  Score=91.75  Aligned_cols=97  Identities=9%  Similarity=-0.049  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMID  645 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  645 (759)
                      ..+|..+..+|.+.|++++|+..|+++...  .|.+..+|..++.+|...|++++|+..|+++++.. +.+..++..+..
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~  272 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAV  272 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            567888899999999999999999999988  78899999999999999999999999999998763 334788888999


Q ss_pred             HHHhcCChHHH-HHHHHHHHh
Q 004362          646 SFCKTGGINSG-YCLLLENID  665 (759)
Q Consensus       646 ~~~~~g~~~~A-~~~~~~~~~  665 (759)
                      ++...|++++| ...+++++.
T Consensus       273 ~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          273 CQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            99999999988 556676654

>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=98.68  E-value=1.4e-07  Score=78.39  Aligned_cols=110  Identities=13%  Similarity=0.116  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCC----Hhh
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGC--PPD----NYT  639 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~p~----~~~  639 (759)
                      ...+..++..+...|++++|+..|+++...  .|.+...+..++.++...|++++|+..++++.+...  +++    ..+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            345667777777888888888888888777  677777788888888888888888888887775420  111    566


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          640 YRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVI  679 (759)
Q Consensus       640 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  679 (759)
                      +..++.++...|++++|...++++++  ..|+......+.
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~l~  119 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLA--EHRTPDVLKKCQ  119 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH--hCCCHHHHHHHH
Confidence            77777888888888888888888887  566654444333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.67  E-value=5.2e-07  Score=76.77  Aligned_cols=113  Identities=12%  Similarity=0.047  Sum_probs=76.0

Q ss_pred             ccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhH
Q 004362          564 LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---TATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTY  640 (759)
Q Consensus       564 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  640 (759)
                      .+...+..+...+...|++++|+..|+++...  .|.+   ...+..++.+|...|++++|+..++++.+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            34556666677777777777777777777765  4544   6667777777777777777777777776542 2346667


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004362          641 RIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINC  681 (759)
Q Consensus       641 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~  681 (759)
                      ..++.++...|++++|...++++++  +.|+.......+..
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~  141 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVS--LEPKNKVFQEALRN  141 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH--HCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHH
Confidence            7777777777777777777777777  66665544444333

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.64  E-value=2.2e-07  Score=74.50  Aligned_cols=98  Identities=10%  Similarity=-0.039  Sum_probs=44.3

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHH
Q 004362          600 HTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS---LSTIG  676 (759)
Q Consensus       600 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~---~~~~~  676 (759)
                      .+...+..++..+...|++++|+..++++.+.. +.+..+|..++.++...|++++|+..++++++  ..|+   ...+.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~   80 (112)
T 2kck_A            4 QNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVIN--VIEDEYNKDVWA   80 (112)
T ss_dssp             SSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TSCCTTCHHHHH
T ss_pred             CcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCcccchHHHHH
Confidence            334444444444444455555555554444331 22244444444444555555555555555544  3333   22233


Q ss_pred             HHHHHHHhc-CcHHHHHHHHHHHHH
Q 004362          677 RVINCLCVD-HRVHEAVGFVHLMVQ  700 (759)
Q Consensus       677 ~l~~~~~~~-g~~~~A~~~~~~~~~  700 (759)
                      .+...+... |++++|.+.++++..
T Consensus        81 ~l~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           81 AKADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHhh
Confidence            333333444 555555555554444

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.64  E-value=3.4e-07  Score=73.35  Aligned_cols=103  Identities=7%  Similarity=-0.080  Sum_probs=91.7

Q ss_pred             ccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHhhHH
Q 004362          564 LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP--DNYTYR  641 (759)
Q Consensus       564 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~  641 (759)
                      .+...+..++..+...|++++|+..|+++.+.  .|.+...+..++.++...|++++|+..++++.+.. +.  +..++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~   80 (112)
T 2kck_A            4 QNPEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWA   80 (112)
T ss_dssp             SSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHH
T ss_pred             CcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHH
Confidence            35567788889999999999999999999998  78889999999999999999999999999999763 44  578899


Q ss_pred             HHHHHHHhc-CChHHHHHHHHHHHhCCCCCC
Q 004362          642 IMIDSFCKT-GGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       642 ~l~~~~~~~-g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      .++.++... |++++|+.+++++++  ..|+
T Consensus        81 ~l~~~~~~~~~~~~~A~~~~~~~~~--~~p~  109 (112)
T 2kck_A           81 AKADALRYIEGKEVEAEIAEARAKL--EHHH  109 (112)
T ss_dssp             HHHHHHTTCSSCSHHHHHHHHHHGG--GCCC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHhh--cccC
Confidence            999999999 999999999999998  5554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.63  E-value=5.2e-07  Score=74.61  Aligned_cols=103  Identities=16%  Similarity=0.096  Sum_probs=68.2

Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHccCCCCch---hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HhhHHHH
Q 004362          570 GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTT---ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD---NYTYRIM  643 (759)
Q Consensus       570 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l  643 (759)
                      ..++..+...|++++|+..|+.+...  .|.+.   ..+..++.++...|++++|+..|+++.+.. +.+   ..++..+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~l   82 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHH
Confidence            34555666777777777777777766  45554   566677777777777777777777776542 222   4556667


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 004362          644 IDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGR  677 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  677 (759)
                      +.++...|++++|+..++++++  ..|+......
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~  114 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVAT--QYPGSDAARV  114 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--HSTTSHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH--HCCCChHHHH
Confidence            7777777777777777777776  5565544433

>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=98.62  E-value=6.3e-07  Score=73.72  Aligned_cols=98  Identities=10%  Similarity=0.028  Sum_probs=80.1

Q ss_pred             hhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHH
Q 004362          531 IITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMIN  610 (759)
Q Consensus       531 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  610 (759)
                      ...+...+..+...|++++|+..|++.++. .+.+...|..+..+|...|++++|+..|+++...  .|.+...|..++.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~   80 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKR-APEDARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHH
Confidence            345666777778888888888888888776 3556778888888888888888888888888888  7888888888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 004362          611 AFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      ++...|++++|+..|+++.+.
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh
Confidence            888888999998888888754

>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=98.62  E-value=9.5e-07  Score=71.48  Aligned_cols=110  Identities=14%  Similarity=0.087  Sum_probs=81.9

Q ss_pred             hhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHH
Q 004362          531 IITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMIN  610 (759)
Q Consensus       531 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  610 (759)
                      ...+..++..+...|++++|...++..... .+.+...+..++.++...|++++|...++++...  .|.+...+..++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKL-DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH-CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh--CcccHHHHHHHHH
Confidence            345666677777778888888888887765 3446777777888888888888888888888877  6777888888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHH
Q 004362          611 AFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMID  645 (759)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~  645 (759)
                      ++...|++++|...++++.+.  .|+ ...+..+..
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~  114 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH--EANNPQLKEGLQN  114 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHc--CCCCHHHHHHHHH
Confidence            888888888888888888754  344 555555444

>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=98.61  E-value=7.3e-08  Score=86.98  Aligned_cols=155  Identities=7%  Similarity=-0.001  Sum_probs=90.9

Q ss_pred             CHHHHHHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccH---------
Q 004362            6 LPKHVAAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLE---------   76 (759)
Q Consensus         6 ~~~~~~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~---------   76 (759)
                      .+.+....+...+.++.|.+.++......  ......+..++..+...|++++|...|+.+....|.  ..         
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~--~~~~~~~~~~~   81 (198)
T 2fbn_A            6 HHHHHSSGRENLYFQGAKKSIYDYTDEEK--VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH--TEEWDDQILLD   81 (198)
T ss_dssp             ----------------CCCSGGGCCHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT--CTTCCCHHHHH
T ss_pred             cccchhhhhhhhhhccccCchhhCCHHHH--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc--ccccchhhHHH
Confidence            34444444445555666665555432221  112445667788888888888888888888877655  33         


Q ss_pred             -------HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHH
Q 004362           77 -------GVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTF  149 (759)
Q Consensus        77 -------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  149 (759)
                             .++..++.+|...|++++|+..++++.... +.+...+..+..+|...|++++|+..|++..+.. +.+..++
T Consensus        82 ~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  159 (198)
T 2fbn_A           82 KKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIR  159 (198)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHH
Confidence                   567777777777777777777777776554 4566677777777777777777777777777653 2345556


Q ss_pred             HHHHHHHHccCChhhHH
Q 004362          150 VIRIKSFCRTRRPHVAL  166 (759)
Q Consensus       150 ~~l~~~~~~~~~~~~A~  166 (759)
                      ..+..++...++.+++.
T Consensus       160 ~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          160 NSYELCVNKLKEARKKD  176 (198)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66666555555555444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.54  E-value=7.1e-07  Score=72.50  Aligned_cols=100  Identities=14%  Similarity=-0.040  Sum_probs=86.9

Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA  611 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  611 (759)
                      ..+..++..+...|++++|...++++++. .+.+...|..+..++...|++++|+..|+++.+.  .|.+...+..++.+
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~   94 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQK-EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVS   94 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            45667788889999999999999999986 4568888999999999999999999999999998  88899999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC
Q 004362          612 FSEKLNFYMAEKLFYEMSEKGCPPD  636 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~p~  636 (759)
                      +...|++++|+..++++++.  .|+
T Consensus        95 ~~~~g~~~~A~~~~~~al~~--~P~  117 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLLS--QPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CcC
Confidence            99999999999999999854  554

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.53  E-value=1.1e-06  Score=76.28  Aligned_cols=99  Identities=9%  Similarity=0.032  Sum_probs=77.4

Q ss_pred             ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          530 NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       530 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +...+..++..+...|++++|+..|++.++. .+.+...|..+..+|...|++++|+..|+++...  .|.+...|..++
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI-APANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            3445667777777788888888888887775 3446777788888888888888888888888887  777788888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 004362          610 NAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      .+|...|++++|+..|+++++.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            8888888888888888888765

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.53  E-value=1.6e-07  Score=76.08  Aligned_cols=95  Identities=16%  Similarity=0.045  Sum_probs=65.3

Q ss_pred             ccCChhhHHHHHHHHHHccC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHH
Q 004362          578 NSGDLDGAYQLFRRMEDQYK-ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSG  656 (759)
Q Consensus       578 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  656 (759)
                      ..|++++|+..|+++.+... .|.+..++..++.+|...|++++|+..++++++.. +.+..++..++.++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            35777888888888776510 25566777788888888888888888888887653 33477777788888888888888


Q ss_pred             HHHHHHHHhCCCCCCHHHH
Q 004362          657 YCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       657 ~~~~~~~~~~g~~p~~~~~  675 (759)
                      +..++++++  ..|++...
T Consensus        81 ~~~~~~al~--~~p~~~~~   97 (117)
T 3k9i_A           81 VELLLKIIA--ETSDDETI   97 (117)
T ss_dssp             HHHHHHHHH--HHCCCHHH
T ss_pred             HHHHHHHHH--hCCCcHHH
Confidence            888888877  55655443

>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=98.53  E-value=1e-06  Score=73.78  Aligned_cols=100  Identities=13%  Similarity=0.008  Sum_probs=80.6

Q ss_pred             CChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHH
Q 004362          529 PNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIM  608 (759)
Q Consensus       529 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  608 (759)
                      .+...+..++..+...|++++|...|+.++.. .+.+...+..+..++...|++++|+..++++...  .|.+...+..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l   83 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR-NPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   83 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh-CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CchhHHHHHHH
Confidence            35567777778888888888888888887775 3456777888888888888888888888888887  77788888888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc
Q 004362          609 INAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       609 ~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      +.++...|++++|+..|+++.+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            88888888888888888888754

>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=98.53  E-value=3.4e-07  Score=76.23  Aligned_cols=95  Identities=11%  Similarity=-0.082  Sum_probs=51.3

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCC-------c-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISH-------T-----TATYNIMINAFSEKLNFYMAEKLFYEMSEK-----  631 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-------~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----  631 (759)
                      +......+...|++++|+..|+++++.  .|.       +     ...|..++.++...|++++|+..++++++.     
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            344445555666666666666666655  333       1     125555555555666666666555555532     


Q ss_pred             CCCCC-HhhH----HHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          632 GCPPD-NYTY----RIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       632 ~~~p~-~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .+.|+ ...|    ...+.++...|++++|+..|+++++
T Consensus        92 e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           92 ELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            01343 4455    5555555555555555555555554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.51  E-value=7.4e-07  Score=77.21  Aligned_cols=108  Identities=11%  Similarity=0.036  Sum_probs=74.5

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHcc------C----------CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQY------K----------ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~----------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  632 (759)
                      +...+..+.+.|++++|+..|.++....      .          .|.+..+|..++.+|...|++++|+..++++++..
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            4444455555555555555555554430      0          23455778888888888888888888888888653


Q ss_pred             CCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHH
Q 004362          633 CPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS-TIGRVI  679 (759)
Q Consensus       633 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~  679 (759)
                       +.+...|..++.+|...|++++|+..|+++++  +.|++. .....+
T Consensus        94 -p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~l  138 (162)
T 3rkv_A           94 -ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR--NHPAAASVVAREM  138 (162)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCGGGHHHHHHHH
T ss_pred             -CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh--cCCCCHHHHHHHH
Confidence             33477888888888888888888888888888  778765 444333

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.48  E-value=7.6e-06  Score=84.35  Aligned_cols=198  Identities=9%  Similarity=-0.060  Sum_probs=89.6

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCH----------------hhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCC
Q 004362          433 INGLCKMGCVSDANNLVNDAISKGYIPDI----------------FTFNTLIDGYCKQLKMEIAIEILNTMWSHG-VTPD  495 (759)
Q Consensus       433 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  495 (759)
                      .+.+...|++++|.+.|..+++.......                ..+..++..|...|++++|.+.+..+...- ..++
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            34456667777777777777665322110                124455555666666666666655544320 0111


Q ss_pred             HH----HHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC--C---
Q 004362          496 VI----TYNSLLNGLCKAAKSEDVMETFKTMIEK----RCVP-NIITYSILGESLCKAHKITEAFNLLEEMENK--G---  561 (759)
Q Consensus       496 ~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~---  561 (759)
                      ..    +.+.+...+...|+++.|.++++.....    +..+ ...++..++..+...|++++|..+++++...  +   
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            11    1122222223345555555555554432    1111 1224444555555555555555555554432  1   


Q ss_pred             CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc---CCCCc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          562 LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY---KISHT--TATYNIMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       562 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      .+.....+..++..|...|++++|..+++++....   ..|+.  ...+..++..+...|++++|...|.++.+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            11112344445555555555555555555544321   01111  12333444444455555555555555443

>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=98.47  E-value=3.7e-07  Score=94.51  Aligned_cols=121  Identities=12%  Similarity=0.030  Sum_probs=82.3

Q ss_pred             HHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc
Q 004362          571 TLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT  650 (759)
Q Consensus       571 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  650 (759)
                      .++..+.+.|++++|++.|+++.+.  .|.+..+|..++.+|...|++++|++.++++++.. +.+..+|..++.+|...
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3344566677888888888888777  67777788888888888888888888888877652 23367777778888888


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHH-HHHHHHH--HHhcCcHHHHHHHHH
Q 004362          651 GGINSGYCLLLENIDKGFIPSLST-IGRVINC--LCVDHRVHEAVGFVH  696 (759)
Q Consensus       651 g~~~~A~~~~~~~~~~g~~p~~~~-~~~l~~~--~~~~g~~~~A~~~~~  696 (759)
                      |++++|+..++++++  +.|+... +..+..+  +...|++++|++.++
T Consensus        88 g~~~eA~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           88 GKFRAALRDYETVVK--VKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TCHHHHHHHHHHHHH--HSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            888888888888877  5565333 3333333  456788888888777

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.47  E-value=3.7e-07  Score=89.95  Aligned_cols=94  Identities=7%  Similarity=-0.044  Sum_probs=43.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL-  682 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-  682 (759)
                      +|..++.+|...|++++|+..++++++.. +.+...|..++.+|...|++++|+..|+++++  +.|++......+..+ 
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~a~~~L~~l~  308 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKAIRRELRALA  308 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHH
Confidence            66777777777777777777777777552 23466777777777777777777777777776  667655554444433 


Q ss_pred             -HhcCcHHHHHHHHHHHHH
Q 004362          683 -CVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       683 -~~~g~~~~A~~~~~~~~~  700 (759)
                       ...+..+++.+.+++|..
T Consensus       309 ~~~~~~~~~a~~~~~~~l~  327 (338)
T 2if4_A          309 EQEKALYQKQKEMYKGIFK  327 (338)
T ss_dssp             -------------------
T ss_pred             HHHHHHHHHHHHHHHHhhC
Confidence             234566666666666654

>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=98.47  E-value=1.4e-06  Score=89.74  Aligned_cols=129  Identities=7%  Similarity=-0.027  Sum_probs=89.4

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---------------TATYNIMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      ...+..+...|.+.|++++|+..|+++...  .|.+               ..+|..++.+|...|++++|+..++++++
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            334555666666666666666666666665  3444               57788888888888899999888888886


Q ss_pred             cCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCcHHHHHH-HHHHHH
Q 004362          631 KGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGR-VINCLCVDHRVHEAVG-FVHLMV  699 (759)
Q Consensus       631 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~-l~~~~~~~g~~~~A~~-~~~~~~  699 (759)
                      .. +.+...|..++.+|...|++++|+..|+++++  +.|++..... +...+...|+.++|.+ .+++|.
T Consensus       346 ~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          346 LD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             cC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            63 33478888888888889999999999999888  7787655544 4444467777777764 455554

>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=98.47  E-value=1.1e-06  Score=72.66  Aligned_cols=111  Identities=9%  Similarity=0.101  Sum_probs=75.2

Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc-------hhh
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT-------TAT  604 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~  604 (759)
                      ..+..++..+...|++++|...++++.+. .+.+...+..++.+|...|++++|+..++++...  .|.+       ..+
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~   81 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL-DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEV--GRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc-CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhh--ccccchhHHHHHHH
Confidence            34555666666777777777777777665 2445666777777777777777777777777665  3333       667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 004362          605 YNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSF  647 (759)
Q Consensus       605 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  647 (759)
                      +..++.++...|++++|.+.|+++.+.  .|+...+..+..+.
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~  122 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHHH
Confidence            777788888888888888888887765  45655555554443

>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=98.47  E-value=1e-06  Score=87.70  Aligned_cols=119  Identities=9%  Similarity=-0.000  Sum_probs=86.1

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHH----------------ccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMED----------------QYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG  632 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~----------------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  632 (759)
                      +..+...+.+.|++++|+..|+++.+                .  .|.+..+|..++.+|...|++++|+..++++++. 
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~--~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  302 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKL--QPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI-  302 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGG--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHH--HHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-
Confidence            33444455555555555555555544                3  4556788889999999999999999999999864 


Q ss_pred             CCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCcHHHHHH
Q 004362          633 CPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGR-VINCLCVDHRVHEAVG  693 (759)
Q Consensus       633 ~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~-l~~~~~~~g~~~~A~~  693 (759)
                       .|+ ...|..++.+|...|++++|+..|+++++  +.|++..... +...+...++.+++.+
T Consensus       303 -~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~--l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 -DPSNTKALYRRAQGWQGLKEYDQALADLKKAQE--IAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CchhHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             454 78888899999999999999999999998  7786554444 4444456677776654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.46  E-value=3.7e-06  Score=71.32  Aligned_cols=111  Identities=10%  Similarity=-0.038  Sum_probs=83.2

Q ss_pred             ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcc----HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhH
Q 004362          530 NIITYSILGESLCKAHKITEAFNLLEEMENKGLTLD----TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATY  605 (759)
Q Consensus       530 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  605 (759)
                      +...+..++..+...|++++|...|++..+.  .|+    ...+..+..+|...|++++|+..++++...  .|.+...+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHHH
Confidence            4456666777777778888888888877764  233    567777888888888888888888888877  67778888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHH
Q 004362          606 NIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDS  646 (759)
Q Consensus       606 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~  646 (759)
                      ..++.++...|++++|+..|+++.+.  .|+ ...+..+...
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~  142 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL--EPKNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHH
Confidence            88888888888888888888888865  344 5555544443

>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=98.46  E-value=1.2e-06  Score=72.96  Aligned_cols=94  Identities=7%  Similarity=-0.132  Sum_probs=81.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--------H-----hhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD--------N-----YTYRIMIDSFCKTGGINSGYCLLLENIDKGF-  668 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--------~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-  668 (759)
                      ..+...+..+...|++++|+..|+++++.  .|+        .     .+|..++.++...|++++|+..++++++  + 
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~--l~   87 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH--YF   87 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hh
Confidence            45677888899999999999999999965  444        2     3899999999999999999999999999  7 


Q ss_pred             ------CCCHH-HH----HHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          669 ------IPSLS-TI----GRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       669 ------~p~~~-~~----~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                            .|+.. .|    +....++...|++++|+..|++..+
T Consensus        88 n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           88 NRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence                  89754 45    5777888999999999999999987

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.45  E-value=5.2e-06  Score=68.45  Aligned_cols=95  Identities=11%  Similarity=-0.033  Sum_probs=71.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccH---HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc---hhhHHH
Q 004362          534 YSILGESLCKAHKITEAFNLLEEMENKGLTLDT---VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT---TATYNI  607 (759)
Q Consensus       534 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~  607 (759)
                      +..++..+...|++++|...++.+.+.. +.+.   ..+..++.++...|++++|+..|+++...  .|.+   +.++..
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~   81 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR--YPTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--CCCCcccHHHHHH
Confidence            4456666777788888888888877642 2233   46777778888888888888888888877  5666   667788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      ++.++...|++++|+..|+++.+.
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            888888888888888888888765

>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=98.43  E-value=4.1e-07  Score=75.53  Aligned_cols=96  Identities=9%  Similarity=-0.026  Sum_probs=75.4

Q ss_pred             ccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCH----------HHHHHHHHHHHHcCCCCC-HhhHHHHHHH
Q 004362          578 NSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNF----------YMAEKLFYEMSEKGCPPD-NYTYRIMIDS  646 (759)
Q Consensus       578 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~~~~~~p~-~~~~~~l~~~  646 (759)
                      +.+.+++|++.+++..+.  .|.+...|..++.++...+++          ++|+..|+++++.  .|+ ..+|..++.+
T Consensus        14 r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~a   89 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHH
Confidence            445678888888888887  788888888888888877664          5888888888865  565 7788888888


Q ss_pred             HHhc-----------CChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          647 FCKT-----------GGINSGYCLLLENIDKGFIPSLSTIGRVI  679 (759)
Q Consensus       647 ~~~~-----------g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  679 (759)
                      |...           |++++|+.+|+++++  +.|++..+...+
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al  131 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSL  131 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            8876           489999999999999  889876554443

>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=98.42  E-value=1.4e-07  Score=97.77  Aligned_cols=121  Identities=10%  Similarity=-0.005  Sum_probs=91.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC
Q 004362          537 LGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL  616 (759)
Q Consensus       537 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  616 (759)
                      ++..+...|++++|...++++++. .+.+...+..+..+|.+.|++++|+..++++.+.  .|.+..+|..++.+|...|
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIEL-NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            344456778888888888888876 3456778888888888888888888888888887  7888888888888888888


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHhhHHHHHHH--HHhcCChHHHHHHHH
Q 004362          617 NFYMAEKLFYEMSEKGCPPDNYTYRIMIDS--FCKTGGINSGYCLLL  661 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~--~~~~g~~~~A~~~~~  661 (759)
                      ++++|++.|+++++.. +.+...+..+..+  +...|++++|+..++
T Consensus        89 ~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           89 KFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            8888888888888653 2235666666666  777888888888888

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.40  E-value=1.3e-05  Score=82.62  Aligned_cols=167  Identities=9%  Similarity=0.052  Sum_probs=84.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcc---HHHHHHHHHHHHccCChhhHHHHHHHHHHc----cCCCCchhh
Q 004362          534 YSILGESLCKAHKITEAFNLLEEMENK--GLTLD---TVAFGTLINGFCNSGDLDGAYQLFRRMEDQ----YKISHTTAT  604 (759)
Q Consensus       534 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~  604 (759)
                      +..++..|...|++++|.+.+..+...  .+...   ..+...+...+...|++++|..+++.....    ...+....+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            445556666666666666666555432  11100   112223333444556666666666655432    112223445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc--CC--CCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhC--CC-CCC--HHH
Q 004362          605 YNIMINAFSEKLNFYMAEKLFYEMSEK--GC--PPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDK--GF-IPS--LST  674 (759)
Q Consensus       605 ~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~--~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--g~-~p~--~~~  674 (759)
                      +..++..|...|++++|..+++++...  +.  .+. ..++..++..|...|++++|..+++++...  .. .|.  ...
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            566666677777777777766665432  11  111 345666666777777777777777666531  01 111  111


Q ss_pred             HHHHHHHH-HhcCcHHHHHHHHHHHHH
Q 004362          675 IGRVINCL-CVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       675 ~~~l~~~~-~~~g~~~~A~~~~~~~~~  700 (759)
                      +...+..+ ...|++++|.+.+.+..+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            22222222 456777777666666543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.39  E-value=5.7e-07  Score=72.76  Aligned_cols=87  Identities=11%  Similarity=0.013  Sum_probs=69.6

Q ss_pred             hcCCHHHHHHHHHHHHHCC--CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHH
Q 004362          543 KAHKITEAFNLLEEMENKG--LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYM  620 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  620 (759)
                      ..|++++|+..|+++++.+  .+.+...+..+..+|...|++++|+..|+++.+.  .|.++.++..++.++...|++++
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ--FPNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHcCCHHH
Confidence            3577888888888888753  2445667888888999999999999999999888  78888999999999999999999


Q ss_pred             HHHHHHHHHHc
Q 004362          621 AEKLFYEMSEK  631 (759)
Q Consensus       621 A~~~~~~~~~~  631 (759)
                      |+..++++++.
T Consensus        80 A~~~~~~al~~   90 (117)
T 3k9i_A           80 GVELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998865

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.38  E-value=1.9e-06  Score=74.49  Aligned_cols=134  Identities=13%  Similarity=-0.018  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-H
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT----TATYNIMINAFSEKLNFYMAEKLFYEMSEK----GCPPD-N  637 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~-~  637 (759)
                      .++..+...|...|++++|+..++++.+.....++    ..++..++.++...|++++|+..++++.+.    +-++. .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            34566666777777777777777776654211111    246677788888888888888888876643    11111 4


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          638 YTYRIMIDSFCKTGGINSGYCLLLENIDK----GFIPS-LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       638 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      .++..++.++...|++++|..+++++++.    +..+. ...+..+...+...|++++|.+.+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            56777888888889999999988888752    11111 22334555566788999999998888765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.38  E-value=2.1e-06  Score=74.21  Aligned_cols=133  Identities=10%  Similarity=0.108  Sum_probs=83.0

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC----chh
Q 004362          533 TYSILGESLCKAHKITEAFNLLEEMENK----GL-TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH----TTA  603 (759)
Q Consensus       533 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~  603 (759)
                      ++..++..+...|++++|...+++..+.    +. .....++..+...+...|++++|...++++.......+    ...
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            3444555555555555555555555432    00 00113456666777777777777777777655421111    145


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEK----GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ++..++.++...|++++|+..++++.+.    +.++. ..++..++.++...|++++|..+++++++
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            6677778888888888888888776643    11111 45677788888899999999999988876

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.34  E-value=1.1e-06  Score=86.47  Aligned_cols=154  Identities=11%  Similarity=-0.060  Sum_probs=87.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHH
Q 004362          495 DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLIN  574 (759)
Q Consensus       495 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  574 (759)
                      ....+..+...+.+.|++++|+..|++.+..  .|+...       +...++.+++...+          ...+|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHH
Confidence            3455667777778888888888888887765  233221       12223333333222          1136788899


Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHH-HHhcCC
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDS-FCKTGG  652 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~-~~~~g~  652 (759)
                      +|.+.|++++|+..++++...  .|.+..+|..++.+|...|++++|+..|+++++.  .|+ ..++..+..+ ....+.
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~  314 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKAL  314 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998  8889999999999999999999999999999854  565 6666666665 345677


Q ss_pred             hHHHHHHHHHHHhCCCCCCHH
Q 004362          653 INSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       653 ~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      .+.+...|.+++.  ..|++.
T Consensus       315 ~~~a~~~~~~~l~--~~p~~~  333 (338)
T 2if4_A          315 YQKQKEMYKGIFK--GKDEGG  333 (338)
T ss_dssp             ---------------------
T ss_pred             HHHHHHHHHHhhC--CCCCCC
Confidence            8889999999988  666543

>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=98.33  E-value=2.2e-05  Score=82.69  Aligned_cols=173  Identities=7%  Similarity=-0.079  Sum_probs=132.8

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCC----------HHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC
Q 004362          511 KSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHK----------ITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG  580 (759)
Q Consensus       511 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  580 (759)
                      ..++|++.++.++..+ +-+...|+.-..++...|+          ++++...++.+.+. .+-+..+|..-..++.+.|
T Consensus        44 ~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~-~pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV-NPKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcc
Confidence            3467788888888764 2245566666666666666          88899999999886 4567888888888888888


Q ss_pred             --ChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhc-------
Q 004362          581 --DLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL-NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKT-------  650 (759)
Q Consensus       581 --~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-------  650 (759)
                        +++++++.++++.+.  .|.+..+|+....++...| .++++++.++++++.. +-|..+|+..+.++...       
T Consensus       122 ~~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          122 EPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             cccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccc
Confidence              669999999999998  8889999999999999988 8999999999998653 33588888888877663       


Q ss_pred             -------CChHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCcHHH
Q 004362          651 -------GGINSGYCLLLENIDKGFIPSLSTIG-RVINCLCVDHRVHE  690 (759)
Q Consensus       651 -------g~~~~A~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~g~~~~  690 (759)
                             +.++++++++.+++.  +.|++.... .....+...++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~--~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFF--TDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHH--HCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHh--hCCCCccHHHHHHHHHhcCCCccc
Confidence                   567899999999998  788755544 44444455666444

>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=98.33  E-value=5.4e-06  Score=85.43  Aligned_cols=96  Identities=14%  Similarity=-0.052  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHH
Q 004362          566 TVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMI  644 (759)
Q Consensus       566 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~  644 (759)
                      ..+|..+..+|.+.|++++|+..|++++..  .|.+..+|..++.+|...|++++|+..|+++++.  .|+ ..++..+.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~  392 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGL--DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIS  392 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            567888899999999999999999999998  8889999999999999999999999999999954  565 77888888


Q ss_pred             HHHHhcCChHHHHH-HHHHHHh
Q 004362          645 DSFCKTGGINSGYC-LLLENID  665 (759)
Q Consensus       645 ~~~~~~g~~~~A~~-~~~~~~~  665 (759)
                      .++...|+++++.+ .+.+|..
T Consensus       393 ~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          393 MCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Confidence            89999998887764 4555543

>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=98.30  E-value=1.4e-05  Score=84.12  Aligned_cols=114  Identities=6%  Similarity=-0.063  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCC----------hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC-
Q 004362          548 TEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGD----------LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL-  616 (759)
Q Consensus       548 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  616 (759)
                      ++|.+.++.++.. -+-+..+|+.-..++...|+          ++++++.++.+...  .|.+..+|+...+++...+ 
T Consensus        46 eeal~~~~~~l~~-nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           46 ESVLELTSQILGA-NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             HHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHHHHH-CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHccc
Confidence            4445555555543 12334444444444444444          55555555555554  5555555555555555555 


Q ss_pred             -CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC-ChHHHHHHHHHHHh
Q 004362          617 -NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTG-GINSGYCLLLENID  665 (759)
Q Consensus       617 -~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~  665 (759)
                       +++++++.++++.+.. +-+..+|+.-..++...| .+++++.++.++++
T Consensus       123 ~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~  172 (567)
T 1dce_A          123 PNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLIT  172 (567)
T ss_dssp             CCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTT
T ss_pred             ccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHH
Confidence             4455555555555442 223455555555555555 45555555555555

>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=98.30  E-value=5.3e-06  Score=82.48  Aligned_cols=91  Identities=10%  Similarity=-0.057  Sum_probs=76.0

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMI  644 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  644 (759)
                      +..+|..+..+|.+.|++++|+..++++.+.  .|.+..+|..++.+|...|++++|+..|+++.+.. +.+...+..+.
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~  348 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELL  348 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            5567888888999999999999999999987  78888999999999999999999999999998763 33477778888


Q ss_pred             HHHHhcCChHHHHH
Q 004362          645 DSFCKTGGINSGYC  658 (759)
Q Consensus       645 ~~~~~~g~~~~A~~  658 (759)
                      .++...++.+++.+
T Consensus       349 ~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          349 KVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            88888777777654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.28  E-value=8.9e-06  Score=70.27  Aligned_cols=99  Identities=7%  Similarity=-0.034  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHhc------------------CCCCccHHHHHHHHHHHHhcCChhHHHHHHHH
Q 004362           40 LLTYKYMIDKLGFHGNFEEMENLLLEMRMD------------------VDDSLLEGVHIGVMRNYGRRGKVQEAVDVFER  101 (759)
Q Consensus        40 ~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~------------------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  101 (759)
                      ...+...+..+.+.|++++|...|..+...                  .|.  ...++..++.+|.+.|++++|+..+++
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~nla~~~~~~~~~~~A~~~~~~   88 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRK--NIPLYANMSQCYLNIGDLHEAEETSSE   88 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHT--HHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHH--HHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            446677888888888999998888888876                  333  456777788888888888888888888


Q ss_pred             hhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 004362          102 MDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKG  141 (759)
Q Consensus       102 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  141 (759)
                      +.... +.++..|..++.+|...|++++|...|++.++..
T Consensus        89 al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           89 VLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            77654 5567778888888888888888888888887753

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.25  E-value=6.4e-06  Score=66.20  Aligned_cols=83  Identities=8%  Similarity=0.017  Sum_probs=68.2

Q ss_pred             hhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHH
Q 004362          583 DGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLE  662 (759)
Q Consensus       583 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  662 (759)
                      ++|+..|+++...  .|.+...+..++.+|...|++++|+..|+++++.. +.+...|..++.++...|++++|+..|++
T Consensus         2 ~~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            2 QAITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CCHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4677888888877  78888888889999999999999999999888663 33477888888889999999999999998


Q ss_pred             HHhCCCCC
Q 004362          663 NIDKGFIP  670 (759)
Q Consensus       663 ~~~~g~~p  670 (759)
                      +++  +.|
T Consensus        79 al~--~~~   84 (115)
T 2kat_A           79 GLA--AAQ   84 (115)
T ss_dssp             HHH--HHH
T ss_pred             HHH--hcc
Confidence            887  544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.13  E-value=2.9e-06  Score=67.73  Aligned_cols=61  Identities=10%  Similarity=0.012  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  629 (759)
                      ..+..+...+...|++++|+..|+++...  .|.+...+..++.++...|++++|+..+++++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al   65 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGL   65 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            33444444444555555555555555444  44444444444445555555555555554444

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.12  E-value=2.1e-05  Score=80.51  Aligned_cols=126  Identities=11%  Similarity=-0.033  Sum_probs=88.6

Q ss_pred             HHHccCChhhHHHHHHHHHHcc------CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCC---CC-HhhHH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQY------KISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK---GCP---PD-NYTYR  641 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~---p~-~~~~~  641 (759)
                      .+...|++++|+.++++..+..      ..|....+++.++.+|...|++++|+.+++++++.   -+.   |+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            4557788888888887776532      13345667788888888888888888888876642   122   33 46788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhC---CCCCCHHHHH----HHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          642 IMIDSFCKTGGINSGYCLLLENIDK---GFIPSLSTIG----RVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       642 ~l~~~~~~~g~~~~A~~~~~~~~~~---g~~p~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      .|+..|...|++++|+.+++++++-   -+-|+.+...    .+..++...|++++|...++++.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999998741   1235433332    233333577889999999998876

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.12  E-value=2.1e-06  Score=68.55  Aligned_cols=94  Identities=11%  Similarity=0.006  Sum_probs=72.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-------H
Q 004362          601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-------S  673 (759)
Q Consensus       601 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-------~  673 (759)
                      +...+..++..+...|++++|+..|+++++.. +.+..+|..++.++...|++++|+..++++++  +.|+.       .
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR--YTSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--SCSSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCccHHHHHHH
Confidence            45678889999999999999999999999763 44588899999999999999999999999999  77874       2


Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHH
Q 004362          674 TIGRVINCLCVDHRVHEAVGFVHL  697 (759)
Q Consensus       674 ~~~~l~~~~~~~g~~~~A~~~~~~  697 (759)
                      .+..+...+...|+.++|+..+++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHHH
Confidence            333444444555555555544433

>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=98.04  E-value=1.6e-05  Score=66.05  Aligned_cols=95  Identities=16%  Similarity=0.118  Sum_probs=71.1

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCC----------hhhHHHHHHHHHHccCCCCchhhHHHHHHHH
Q 004362          543 KAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGD----------LDGAYQLFRRMEDQYKISHTTATYNIMINAF  612 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  612 (759)
                      +.+.+++|...++..++. -|.+...|..+..++...++          +++|+..|+++++.  .|.+..+|..++.+|
T Consensus        14 r~~~feeA~~~~~~Ai~l-~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKS-NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHHH
Confidence            445566666666666665 24466666666666666555          56999999999999  899999999999999


Q ss_pred             HhcC-----------CHHHHHHHHHHHHHcCCCCCHhhHHH
Q 004362          613 SEKL-----------NFYMAEKLFYEMSEKGCPPDNYTYRI  642 (759)
Q Consensus       613 ~~~g-----------~~~~A~~~~~~~~~~~~~p~~~~~~~  642 (759)
                      ...|           ++++|++.|+++++.  .|+...|..
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~  129 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLK  129 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            8774           899999999999965  687554433

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.04  E-value=0.00011  Score=60.94  Aligned_cols=108  Identities=6%  Similarity=-0.018  Sum_probs=52.9

Q ss_pred             CHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh----cCCHHHH
Q 004362          546 KITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE----KLNFYMA  621 (759)
Q Consensus       546 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  621 (759)
                      ++++|..+|++..+.+. ++..    +...|...+.+++|++.|++..+.    .++..+..++.+|..    .+++++|
T Consensus        10 d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A           10 DLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHHH
Confidence            34455555555554431 1111    444444444455555555555443    234455555555554    4555555


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHHHHHHHHh
Q 004362          622 EKLFYEMSEKGCPPDNYTYRIMIDSFCK----TGGINSGYCLLLENID  665 (759)
Q Consensus       622 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  665 (759)
                      +++|+++.+.+   ++..+..|+..|..    .+++++|+.+|+++.+
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~  125 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACR  125 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHH
Confidence            55555555432   34444555555554    4555555555555555

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.03  E-value=0.00013  Score=60.58  Aligned_cols=112  Identities=10%  Similarity=-0.024  Sum_probs=90.9

Q ss_pred             CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHH
Q 004362          580 GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK----TGGINS  655 (759)
Q Consensus       580 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  655 (759)
                      +++++|++.|++..+..    ++...  ++..|...+..++|+++|+++.+.+   ++..+..|+..|..    .+++++
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--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT----CTTHH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC----CHhhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            46889999999998873    22333  8888888888999999999998764   67788889988888    889999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCcHHHHHHHHHHHHHCCC
Q 004362          656 GYCLLLENIDKGFIPSLSTIGRVINCLCV----DHRVHEAVGFVHLMVQKGI  703 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  703 (759)
                      |+.+|+++.+.|   +......+...+..    .++.++|.+++++..+.|.
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999999853   45666677777766    7899999999999988653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.03  E-value=4.4e-05  Score=57.94  Aligned_cols=62  Identities=11%  Similarity=0.210  Sum_probs=28.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ..+..++..+...|++++|+..++++.+.. +.+..++..++.++...|++++|+..++++++
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            344444444444444444444444444331 12244444444444444555555555544444

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.02  E-value=2.7e-05  Score=79.77  Aligned_cols=125  Identities=9%  Similarity=-0.057  Sum_probs=77.7

Q ss_pred             HHhcCCHHHHHHHHHHHHHC-----C--CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc------CCCCchhhHHH
Q 004362          541 LCKAHKITEAFNLLEEMENK-----G--LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY------KISHTTATYNI  607 (759)
Q Consensus       541 ~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~~~  607 (759)
                      +...|++++|..++++.++.     |  .+....+++.++.+|...|++++|..+++++.+..      ..|....+++.
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            33556666666666665532     1  11223456677777777777777777777665421      23445666777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc---CCCCC----HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEK---GCPPD----NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~---~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ++.+|...|++++|+.+++++++.   -+-||    ..+...+..++...|.+++|...|.++.+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777777776532   11233    23445566677778888888888887765

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.96  E-value=2.8e-05  Score=60.39  Aligned_cols=67  Identities=16%  Similarity=0.075  Sum_probs=49.3

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          598 ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       598 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .|.++..+..++.+|...|++++|+..|+++++.. +.+..+|..++.+|...|++++|+..++++++
T Consensus         3 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            3 DPEDPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             --CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            46677777788888888888888888888877653 23366777788888888888888888888776

>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=97.91  E-value=0.00023  Score=68.23  Aligned_cols=75  Identities=11%  Similarity=0.022  Sum_probs=57.5

Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          598 ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       598 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      .|.++.+|..++..+...|++++|+..+++++..  .|+...|..++..+...|++++|...|++++.  +.|...++.
T Consensus       273 ~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L--n~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~  347 (372)
T 3ly7_A          273 LNNLSIIYQIKAVSALVKGKTDESYQAINTGIDL--EMSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLY  347 (372)
T ss_dssp             GTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHH
T ss_pred             CCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHH
Confidence            5667777777777777778888888888888866  36777777777788888888888888888888  778776543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.90  E-value=0.00013  Score=55.23  Aligned_cols=82  Identities=9%  Similarity=0.064  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 004362           40 LLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMN  119 (759)
Q Consensus        40 ~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  119 (759)
                      ...+..++..+...|++++|...|+.+....|.  +..++..++.++...|++++|+..|++..... +.+...+..+..
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN--NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC--CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            445666777777777777787777777777766  66777777777777777777777777776544 345556666665


Q ss_pred             HHHHc
Q 004362          120 ILVEY  124 (759)
Q Consensus       120 ~~~~~  124 (759)
                      ++...
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            55443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.82  E-value=9.8e-05  Score=59.10  Aligned_cols=78  Identities=10%  Similarity=-0.031  Sum_probs=42.0

Q ss_pred             HHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHH
Q 004362           22 TALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFER  101 (759)
Q Consensus        22 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  101 (759)
                      .|++.|+.+....+  .+...+..++.++...|++++|...|+.+...+|.  ...++..++.+|...|++++|+..|++
T Consensus         3 ~a~~~~~~al~~~p--~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            3 AITERLEAMLAQGT--DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT--YSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CHHHHHHHHHTTTC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC--CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC--cHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34555555544432  23445555555555555555555555555555554  455555555555555555555555555


Q ss_pred             hh
Q 004362          102 MD  103 (759)
Q Consensus       102 ~~  103 (759)
                      ..
T Consensus        79 al   80 (115)
T 2kat_A           79 GL   80 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.74  E-value=0.00014  Score=56.29  Aligned_cols=67  Identities=13%  Similarity=0.046  Sum_probs=57.9

Q ss_pred             CccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          563 TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       563 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      +.+...+..+..+|...|++++|+..|+++.+.  .|.+..+|..++.+|...|++++|+..|+++++.
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            446778888889999999999999999999988  7888889999999999999999999999988754

>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=97.71  E-value=0.00031  Score=67.37  Aligned_cols=119  Identities=13%  Similarity=0.000  Sum_probs=80.4

Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc---C--C---HHHHHHHHHHHHHc-CCCCCHhhHHHHHHHHHhcCC
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK---L--N---FYMAEKLFYEMSEK-GCPPDNYTYRIMIDSFCKTGG  652 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g--~---~~~A~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~  652 (759)
                      ..+|+.+|+++.+.  .|.....|..++.+|...   +  .   .......++..... .-+.++.+|..+...+...|+
T Consensus       215 ~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd  292 (372)
T 3ly7_A          215 LNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGK  292 (372)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCC
Confidence            45677777777766  666666666555554311   1  0   11111112221111 114458888888888888899


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          653 INSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       653 ~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      +++|+..+++++.  ++|+...+..+...+...|++++|.+.++++..  ++|.
T Consensus       293 ~d~A~~~l~rAl~--Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~  342 (372)
T 3ly7_A          293 TDESYQAINTGID--LEMSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPG  342 (372)
T ss_dssp             HHHHHHHHHHHHH--HCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCS
T ss_pred             HHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCC
Confidence            9999999999999  778876666666677899999999999999998  5565

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.64  E-value=6.2e-05  Score=58.27  Aligned_cols=63  Identities=16%  Similarity=0.199  Sum_probs=37.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHh-hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 004362          608 MINAFSEKLNFYMAEKLFYEMSEKGCPPDNY-TYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       608 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      .+..+...|++++|+..++++++.. +.+.. .|..++.++...|++++|+..|+++++  +.|+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~   69 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE--LNPDSP   69 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCcH
Confidence            4455556666666666666666542 22345 566666666666666666666666666  555543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.61  E-value=6.6e-05  Score=58.13  Aligned_cols=82  Identities=17%  Similarity=0.159  Sum_probs=56.9

Q ss_pred             HHHHHHccCChhhHHHHHHHHHHccCCCCchh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHh
Q 004362          572 LINGFCNSGDLDGAYQLFRRMEDQYKISHTTA-TYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCK  649 (759)
Q Consensus       572 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  649 (759)
                      .+..+...|++++|+..|+++.+.  .|.+.. .+..++.+|...|++++|+..|+++++.  .|+ ..++..       
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~-------   74 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL--NPDSPALQAR-------   74 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSTHHHHH-------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHH-------
Confidence            455667778888888888888777  677777 8888888888888888888888888765  344 333311       


Q ss_pred             cCChHHHHHHHHHHHh
Q 004362          650 TGGINSGYCLLLENID  665 (759)
Q Consensus       650 ~g~~~~A~~~~~~~~~  665 (759)
                       +.+.+++..+++...
T Consensus        75 -~~~~~a~~~~~~~~~   89 (99)
T 2kc7_A           75 -KMVMDILNFYNKDMY   89 (99)
T ss_dssp             -HHHHHHHHHHCCTTH
T ss_pred             -HHHHHHHHHHHHHhc
Confidence             445556666655544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.55  E-value=0.0006  Score=51.38  Aligned_cols=65  Identities=6%  Similarity=-0.045  Sum_probs=37.1

Q ss_pred             CCchhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          599 SHTTATYNIMINAFSEKLN---FYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       599 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      |+++..+..++.++...++   .++|..+++++++.  .|+ ...+..++..+...|++++|+.+|+++++
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4555555666655543333   46666666666644  333 55555555666666666666666666665

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.53  E-value=0.00064  Score=68.58  Aligned_cols=108  Identities=10%  Similarity=-0.121  Sum_probs=74.1

Q ss_pred             HHHHHccCChhhHHHHHHHHHHccC------CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCC---C-Hhh
Q 004362          573 INGFCNSGDLDGAYQLFRRMEDQYK------ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK---GCPP---D-NYT  639 (759)
Q Consensus       573 ~~~~~~~g~~~~A~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~p---~-~~~  639 (759)
                      +.-+...|++++|+.++++..+...      .|....+++.++.+|...|++++|+.+++++++-   -+.|   + ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            3445567888888888888875421      2334567788888888888888888888877642   1223   3 457


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhC---CCCCCHHHHHHHHH
Q 004362          640 YRIMIDSFCKTGGINSGYCLLLENIDK---GFIPSLSTIGRVIN  680 (759)
Q Consensus       640 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---g~~p~~~~~~~l~~  680 (759)
                      ++.|+..|...|++++|+.+++++++-   -+-|+.+....+..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~  417 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDLIL  417 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHHHH
Confidence            888889999999999999999988741   12355554444433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.46  E-value=0.00093  Score=54.75  Aligned_cols=92  Identities=10%  Similarity=-0.043  Sum_probs=64.2

Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCC--CHhhHHHHHHHHHhcCChHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL---NFYMAEKLFYEMSEKGCPP--DNYTYRIMIDSFCKTGGINSG  656 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A  656 (759)
                      +..+.+-|.+....  .+++..+...+++++.+.+   +.++++.+++++.+.. .|  +...+..|+-+|.+.|++++|
T Consensus        14 l~~~~~~y~~e~~~--~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHT--TCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHcc--CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            34455555555554  4567777777888888777   5567888888877653 24  256777777788888888888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHH
Q 004362          657 YCLLLENIDKGFIPSLSTIGRV  678 (759)
Q Consensus       657 ~~~~~~~~~~g~~p~~~~~~~l  678 (759)
                      +++++.+++  +.|++.-...+
T Consensus        91 ~~y~~~lL~--ieP~n~QA~~L  110 (152)
T 1pc2_A           91 LKYVRGLLQ--TEPQNNQAKEL  110 (152)
T ss_dssp             HHHHHHHHH--HCTTCHHHHHH
T ss_pred             HHHHHHHHh--cCCCCHHHHHH
Confidence            888888888  77866544444

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.46  E-value=0.00026  Score=71.18  Aligned_cols=87  Identities=6%  Similarity=-0.087  Sum_probs=56.9

Q ss_pred             cCChhhHHHHHHHHHHcc------CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----C-CCCC-HhhHHHHHH
Q 004362          579 SGDLDGAYQLFRRMEDQY------KISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK-----G-CPPD-NYTYRIMID  645 (759)
Q Consensus       579 ~g~~~~A~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~-~~p~-~~~~~~l~~  645 (759)
                      .|++++|+.++++..+..      ..|....+++.++.+|...|++++|+.+++++++-     | -.|+ ..+++.|+.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            456666666666665421      12333455666777777777777777777765532     2 1233 467888888


Q ss_pred             HHHhcCChHHHHHHHHHHHh
Q 004362          646 SFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       646 ~~~~~g~~~~A~~~~~~~~~  665 (759)
                      .|...|++++|+.+++++++
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            88899999999988888875

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.36  E-value=0.0011  Score=54.21  Aligned_cols=85  Identities=16%  Similarity=0.064  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC---ChHHHHHHHHHHHhCCCC-C--CHHHHHHHHHHHHhcCcHHHH
Q 004362          618 FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTG---GINSGYCLLLENIDKGFI-P--SLSTIGRVINCLCVDHRVHEA  691 (759)
Q Consensus       618 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~g~~-p--~~~~~~~l~~~~~~~g~~~~A  691 (759)
                      ...+.+.|.+..+.+ +++..+...+++++.+++   ++++++.++++.++  .. |  +...++.+.-++++.|++++|
T Consensus        14 l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~--~~~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLP--KGSKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHH--HSCHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh--cCCccchHHHHHHHHHHHHHccCHHHH
Confidence            455667777776665 578899999999999998   67799999999998  44 6  356677788888999999999


Q ss_pred             HHHHHHHHHCCCCCch
Q 004362          692 VGFVHLMVQKGIVPEV  707 (759)
Q Consensus       692 ~~~~~~~~~~~~~p~~  707 (759)
                      .++++++++  +.|+.
T Consensus        91 ~~y~~~lL~--ieP~n  104 (152)
T 1pc2_A           91 LKYVRGLLQ--TEPQN  104 (152)
T ss_dssp             HHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHh--cCCCC
Confidence            999999998  78863

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.29  E-value=0.0019  Score=48.61  Aligned_cols=67  Identities=9%  Similarity=0.064  Sum_probs=58.7

Q ss_pred             CccHHHHHHHHHHHHccCC---hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004362          563 TLDTVAFGTLINGFCNSGD---LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEK  631 (759)
Q Consensus       563 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  631 (759)
                      +.++..+..+..++...++   .++|..+++++...  .|.++.+...++..+...|++++|+..|+++++.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5677888888888765555   78999999999998  8999999999999999999999999999999965

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.20  E-value=0.00086  Score=67.46  Aligned_cols=87  Identities=11%  Similarity=0.023  Sum_probs=63.9

Q ss_pred             cCCHHHHHHHHHHHHHC-----C--CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc------CCCCchhhHHHHHH
Q 004362          544 AHKITEAFNLLEEMENK-----G--LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY------KISHTTATYNIMIN  610 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~~~l~~  610 (759)
                      .|++++|..++++.++.     |  .+....+++.++.+|...|++++|+.+++++.+..      ..|....+++.++.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            45677777777766542     1  12224567788888888888888888888876532      24556778899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 004362          611 AFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~  630 (759)
                      +|..+|++++|+.+|+++++
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999998764

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.11  E-value=0.003  Score=48.98  Aligned_cols=71  Identities=7%  Similarity=0.050  Sum_probs=51.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-----C-CCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKG-----C-PPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      .-+..++..+...|++..|+..|+++.+..     . .+...++..|+.++.+.|+++.|+.+++++++  +.|+....
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~~~~   82 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEHQRA   82 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCCHHH
Confidence            345567777777777777777777766531     1 12366788888888888999999999988888  77876544

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.05  E-value=0.0017  Score=65.50  Aligned_cols=91  Identities=13%  Similarity=0.025  Sum_probs=66.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHHC---CC----CccHHHHHHHHHHHHccCChhhHHHHHHHHHHcc------CCCCchhhHH
Q 004362          540 SLCKAHKITEAFNLLEEMENK---GL----TLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQY------KISHTTATYN  606 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~---~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~~  606 (759)
                      .+...|++++|..++++.++.   -+    +....+++.++.+|...|++++|+.+++++....      ..|....+++
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            344567777777777777643   11    1224567788888888888888888888776532      2455567788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 004362          607 IMINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       607 ~l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                      .++.+|...|++++|+.+++++++
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Confidence            899999999999999999998764

>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=96.89  E-value=0.033  Score=51.11  Aligned_cols=83  Identities=7%  Similarity=0.069  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHHHcCCCCC---HhhHHHHHHHHHh-----cCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHh-cC
Q 004362          618 FYMAEKLFYEMSEKGCPPD---NYTYRIMIDSFCK-----TGGINSGYCLLLENIDKGFIPS--LSTIGRVINCLCV-DH  686 (759)
Q Consensus       618 ~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~-~g  686 (759)
                      ...|..+++++++.  .|+   ...|..++..|..     -|+.++|...|+++++  +.|+  ..........++. .|
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~--LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR--YCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH--HCCTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH--hCCCCCchHHHHHHHHHHHhcC
Confidence            56677777777754  465   4577777777777     3888888888888888  7774  3444445555555 48


Q ss_pred             cHHHHHHHHHHHHHCCCC
Q 004362          687 RVHEAVGFVHLMVQKGIV  704 (759)
Q Consensus       687 ~~~~A~~~~~~~~~~~~~  704 (759)
                      +.++|.+++++.++.+..
T Consensus       255 d~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGG
T ss_pred             CHHHHHHHHHHHHcCCCC
Confidence            888888888888775554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.73  E-value=0.012  Score=45.49  Aligned_cols=68  Identities=7%  Similarity=-0.098  Sum_probs=47.3

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHhcC-----CCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCC
Q 004362           39 TLLTYKYMIDKLGFHGNFEEMENLLLEMRMDV-----DDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYN  106 (759)
Q Consensus        39 ~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  106 (759)
                      +...+..++..+...|++.+|..+|+.+....     +......++..++.++.+.|+++.|+..++++....
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            45556677788888888888888887777643     111245677777777777777777777777776543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.66  E-value=0.014  Score=45.76  Aligned_cols=92  Identities=10%  Similarity=-0.081  Sum_probs=58.3

Q ss_pred             hhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHH---HHHHHHHHHHcCCCC--CHhhHHHHHHHHHhcCChHHH
Q 004362          582 LDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYM---AEKLFYEMSEKGCPP--DNYTYRIMIDSFCKTGGINSG  656 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A  656 (759)
                      +..+.+-|......  .+++..+-..+++++.+..+..+   ++.+++.+...+ .|  .......|+-++.+.|+|++|
T Consensus        17 l~~~~~~y~~e~~~--~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           17 LLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            44445555555444  34566666777777777665555   777777776543 23  245556666777888888888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHH
Q 004362          657 YCLLLENIDKGFIPSLSTIGRV  678 (759)
Q Consensus       657 ~~~~~~~~~~g~~p~~~~~~~l  678 (759)
                      +.+++.+++  ..|++.-...|
T Consensus        94 ~~~~~~lL~--~eP~n~QA~~L  113 (126)
T 1nzn_A           94 LKYVRGLLQ--TEPQNNQAKEL  113 (126)
T ss_dssp             HHHHHHHHH--HCTTCHHHHHH
T ss_pred             HHHHHHHHH--hCCCCHHHHHH
Confidence            888888887  77765544433

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.64  E-value=6e-05  Score=73.32  Aligned_cols=182  Identities=17%  Similarity=0.226  Sum_probs=82.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004362           77 GVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSF  156 (759)
Q Consensus        77 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  156 (759)
                      .+|..++.++...+...+|++.|-+..      |+..|..++.+..+.|.+++.+..+.-..+..  .++.+=+.|+-+|
T Consensus        55 ~VWs~LgkAqL~~~~v~eAIdsyIkA~------Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ay  126 (624)
T 3lvg_A           55 AVWSQLAKAQLQKGMVKEAIDSYIKAD------DPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFAL  126 (624)
T ss_dssp             CCSSSHHHHTTTSSSCTTTTTSSCCCS------CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHH
T ss_pred             cHHHHHHHHHHccCchHHHHHHHHhCC------ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHH
Confidence            455555555555555555555442222      33335555555555555555555544443332  2222333455555


Q ss_pred             HccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCC--------------------CCCCh
Q 004362          157 CRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMG--------------------ISPDI  216 (759)
Q Consensus       157 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~  216 (759)
                      ++.++..+-.+++.       .||..-...+..-|...|.++.|.-+|..+....                    -..++
T Consensus       127 Ak~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~  199 (624)
T 3lvg_A          127 AKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANST  199 (624)
T ss_dssp             HTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSS
T ss_pred             HhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCCh
Confidence            55555443222211       1333334444444444444444444443332100                    01244


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 004362          217 ATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLG  278 (759)
Q Consensus       217 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  278 (759)
                      .||..+-.+|...+.+..|.-.--.++-..   |  -...++..|-..|.+++-+.+++.-.
T Consensus       200 ktWKeV~~ACvd~~EfrLAqicGLniIvha---d--eL~elv~~YE~~G~f~ELIsLlEagl  256 (624)
T 3lvg_A          200 RTWKEVCFACVDGKEFRLAQMCGLHIVVHA---D--ELEELINYYQDRGYFEELITMLEAAL  256 (624)
T ss_dssp             CSHHHHTHHHHHSCTTTTTTHHHHHHHCCS---S--CCSGGGSSSSTTCCCTTSTTTHHHHT
T ss_pred             hHHHHHHHHHhCchHHHHHHHhcchhcccH---H--HHHHHHHHHHhCCCHHHHHHHHHHHh
Confidence            556666666666666655544433333221   1  11123444555555555555555544

>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=96.48  E-value=0.027  Score=51.70  Aligned_cols=81  Identities=12%  Similarity=0.087  Sum_probs=62.4

Q ss_pred             hhhHHHHHHHHHHccCCCC--chhhHHHHHHHHHh-----cCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHh-cC
Q 004362          582 LDGAYQLFRRMEDQYKISH--TTATYNIMINAFSE-----KLNFYMAEKLFYEMSEKGCPPD--NYTYRIMIDSFCK-TG  651 (759)
Q Consensus       582 ~~~A~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~-~g  651 (759)
                      ...|...++++.+.  .|.  +...|..++..|..     -|+.++|.++|+++++.  .|+  ..++..++..++. .|
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L--nP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY--CSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH--CCTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHhcC
Confidence            56777788888887  665  56688888888887     48888888888888865  453  6777777777777 48


Q ss_pred             ChHHHHHHHHHHHhC
Q 004362          652 GINSGYCLLLENIDK  666 (759)
Q Consensus       652 ~~~~A~~~~~~~~~~  666 (759)
                      +.++|..++++++..
T Consensus       255 d~~~a~~~L~kAL~a  269 (301)
T 3u64_A          255 NRAGFDEALDRALAI  269 (301)
T ss_dssp             CHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHcC
Confidence            888888888888883

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.46  E-value=0.08  Score=42.59  Aligned_cols=49  Identities=10%  Similarity=0.006  Sum_probs=23.3

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          616 LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ++.++|.++|+.+++.+ +-=...|...+.--.++|++..|.+++.+++.
T Consensus        74 ~D~d~aR~vy~~a~~~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG  122 (161)
T 4h7y_A           74 QEPDDARDYFQMARANC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVE  122 (161)
T ss_dssp             HCGGGCHHHHHHHHHHC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc
Confidence            45555555555554321 11144444444444555555555555555555

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.46  E-value=0.018  Score=46.25  Aligned_cols=105  Identities=9%  Similarity=0.054  Sum_probs=52.7

Q ss_pred             CCchhhHHHHHHHHHhcCCH------HHHHHHHHHHHHcCCCCCH-hhHHHHHH------HHHhcCChHHHHHHHHHHHh
Q 004362          599 SHTTATYNIMINAFSEKLNF------YMAEKLFYEMSEKGCPPDN-YTYRIMID------SFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       599 ~~~~~~~~~l~~~~~~~g~~------~~A~~~~~~~~~~~~~p~~-~~~~~l~~------~~~~~g~~~~A~~~~~~~~~  665 (759)
                      |.+..+|-..+...-..|+.      ++.++.|+++... +||+. ..|...+.      .+...+|.++|..+|+.+++
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            44555555555554444554      5555555555543 34431 11111111      12334677777777777765


Q ss_pred             CCCCCCHHHHHHHHHHH-HhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          666 KGFIPSLSTIGRVINCL-CVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       666 ~g~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                        +...........+-+ .++|+...|.+++.+....+.+|.
T Consensus        89 --~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           89 --NCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             --HCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             --HhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence              222222222333333 567777777777777776555554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.29  E-value=0.2  Score=55.99  Aligned_cols=75  Identities=13%  Similarity=0.073  Sum_probs=42.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004362          430 NIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKA  509 (759)
Q Consensus       430 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  509 (759)
                      ..++..+.+.|..+.|.++.++         ..   .-.......|+++.|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            4555556666666666654421         11   1123345566777766664322      2556677777777777


Q ss_pred             CCHHHHHHHHHHH
Q 004362          510 AKSEDVMETFKTM  522 (759)
Q Consensus       510 ~~~~~a~~~~~~~  522 (759)
                      ++++.|.++|.++
T Consensus       695 ~~~~~A~~~y~~~  707 (814)
T 3mkq_A          695 FNFKLAIEAFTNA  707 (814)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHc
Confidence            7777777666654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.20  E-value=0.19  Score=56.06  Aligned_cols=45  Identities=18%  Similarity=0.138  Sum_probs=23.0

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHH
Q 004362          542 CKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRM  592 (759)
Q Consensus       542 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  592 (759)
                      ...|++++|.++.+.+      .+...|..++..+.+.|+++.|.+.|.++
T Consensus       663 l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3445555555543221      24455555555555555555555555544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.15  E-value=0.041  Score=43.24  Aligned_cols=86  Identities=19%  Similarity=0.113  Sum_probs=66.8

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHH---HHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCcHHHH
Q 004362          617 NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINS---GYCLLLENIDKGFIP--SLSTIGRVINCLCVDHRVHEA  691 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~A  691 (759)
                      .+..+.+.|.+....+ .|+..+-..+++++.++.+..+   ++.+++...+.+ .|  .....+.+.-++++.|++++|
T Consensus        16 ~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            3455666676666555 4788888899999999987766   999999988842 24  345556777778999999999


Q ss_pred             HHHHHHHHHCCCCCc
Q 004362          692 VGFVHLMVQKGIVPE  706 (759)
Q Consensus       692 ~~~~~~~~~~~~~p~  706 (759)
                      .++++.+++  +.|+
T Consensus        94 ~~~~~~lL~--~eP~  106 (126)
T 1nzn_A           94 LKYVRGLLQ--TEPQ  106 (126)
T ss_dssp             HHHHHHHHH--HCTT
T ss_pred             HHHHHHHHH--hCCC
Confidence            999999998  6776

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.07  E-value=0.27  Score=41.43  Aligned_cols=100  Identities=7%  Similarity=0.041  Sum_probs=65.2

Q ss_pred             HhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHH
Q 004362           51 GFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQV  130 (759)
Q Consensus        51 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  130 (759)
                      ...|+++.|.++.+.+     .  +...|..++.....+|+++-|..+|.+...         +..+.-.|.-.|+.+..
T Consensus        16 L~lg~l~~A~e~a~~l-----~--~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL-----N--DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHTTCHHHHHHHHHHH-----C--CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HhcCCHHHHHHHHHHh-----C--CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            4678888887776554     2  566788888888888888888888877662         33444556667776666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhc
Q 004362          131 HKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNM  172 (759)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  172 (759)
                      .++-+.....|      -++.....+...|+++++.++|.+.
T Consensus        80 ~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           80 SKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            55555544443      1344455556667777777777543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.01  E-value=2.1e-05  Score=76.37  Aligned_cols=224  Identities=11%  Similarity=0.109  Sum_probs=128.8

Q ss_pred             CHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 004362          180 NAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQ  259 (759)
Q Consensus       180 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  259 (759)
                      .+.+|..|..+....+...+|++.|-+.      -|+..|..++.+..+.|.++.-...+....+..-  ++.+=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHH
Confidence            3456777777777777777777665321      2556677778888888888877777766655422  3334456777


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhH
Q 004362          260 GLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISS  339 (759)
Q Consensus       260 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  339 (759)
                      +|++.++..+-.+++.       .||..-...+.+-|...|.++.|.-+|..+..         |..|...+.+.|++..
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN---------~akLAstLV~L~~yq~  188 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQA  188 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC---------CTTTSSSSSSCSGGGS
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCcc---------HHHHHHHHHHHHHHHH
Confidence            7777776554333221       45666666666666677777666555543322         2222333445555555


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004362          340 ADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSE  419 (759)
Q Consensus       340 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  419 (759)
                      |.+.-++      ..++.+|..+-.+|...+++.-|..+--.++-.     +.....++..|-..|.+++-+.+++.-..
T Consensus       189 AVdaArK------Ans~ktWKeV~~ACvd~~EfrLAqicGLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEaglg  257 (624)
T 3lvg_A          189 AVDGARK------ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH-----ADELEELINYYQDRGYFEELITMLEAALG  257 (624)
T ss_dssp             STTTTTT------CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHHTT
T ss_pred             HHHHHHh------cCChhHHHHHHHHHhCchHHHHHHHhcchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHHhC
Confidence            5433221      226667777777777777766665554443321     12223345556666777777776666553


Q ss_pred             CCCCCCHHHHHHHHHHHHhc
Q 004362          420 SGCCPDMWTYNIVINGLCKM  439 (759)
Q Consensus       420 ~~~~~~~~~~~~l~~~~~~~  439 (759)
                      . -+...-.++-+.-.|++-
T Consensus       258 l-ErAHmGmFTELaILYsKY  276 (624)
T 3lvg_A          258 L-ERAHMGMFTELAILYSKF  276 (624)
T ss_dssp             S-TTCCHHHHHHHHHHHHSS
T ss_pred             C-CchhHHHHHHHHHHHHhc
Confidence            2 123444555555555553

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.88  E-value=0.56  Score=39.49  Aligned_cols=44  Identities=14%  Similarity=0.252  Sum_probs=21.5

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHH
Q 004362          543 KAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRM  592 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  592 (759)
                      ..|+++.|.++.+.+      .+...|..+.......|+++-|.+.|.+.
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            345555555544433      13444555555555555555555555444

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.79  E-value=3  Score=45.73  Aligned_cols=263  Identities=10%  Similarity=0.003  Sum_probs=134.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCC--HHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC---HH--HHHHHHHH
Q 004362          365 GLCQDGDVDRAMAVYVKALEKGLKPS--IVLYNTLIKGLSQQGLILQALQLMNEMSESGC--CPD---MW--TYNIVING  435 (759)
Q Consensus       365 ~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~---~~--~~~~l~~~  435 (759)
                      +....|+.++++.++......+...+  ...-..+.-+....|...++..++.......-  .-+   ..  .-..+.-+
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            35566777777777766554210112  22333344445556665667777766554311  000   11  11122222


Q ss_pred             HHhcCC-hHHHHHHHHHHHHCCCCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH--HHHHHHhcC
Q 004362          436 LCKMGC-VSDANNLVNDAISKGYIPDI--FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNS--LLNGLCKAA  510 (759)
Q Consensus       436 ~~~~~~-~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~  510 (759)
                      ..-.|. -+++...+..++... .+..  ..-.++...+...|+.+....+++.+.+..   +......  +.-++...|
T Consensus       463 la~~GS~~eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTT
T ss_pred             HHhcCCCCHHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCC
Confidence            222332 245566666655532 1111  112233344556778777777777776642   2233333  333444678


Q ss_pred             CHHHHHHHHHHHHHcCCCCChh--cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHH
Q 004362          511 KSEDVMETFKTMIEKRCVPNII--TYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQL  588 (759)
Q Consensus       511 ~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  588 (759)
                      +.+.+-.+.+.+.... .|...  ....++-+|+..|+......++..+... ...+......+.-++...|+.+.+.++
T Consensus       539 ~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          539 RQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             CGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             ChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            8888777777776531 22221  1223455667788887777788888764 223333333333344456777767777


Q ss_pred             HHHHHHccCCCCchhhHHHHH--HHHHhcCC-HHHHHHHHHHHHHcCCCCCHhhH
Q 004362          589 FRRMEDQYKISHTTATYNIMI--NAFSEKLN-FYMAEKLFYEMSEKGCPPDNYTY  640 (759)
Q Consensus       589 ~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~-~~~A~~~~~~~~~~~~~p~~~~~  640 (759)
                      ++.+.+.  .  ++.+-...+  -+....|+ ..+|+..+..+..   .+|..+-
T Consensus       617 v~~L~~~--~--d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vr  664 (963)
T 4ady_A          617 VQLLSKS--H--NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVR  664 (963)
T ss_dssp             TTTGGGC--S--CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHH
T ss_pred             HHHHHhc--C--CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHH
Confidence            6655543  2  333333333  33333444 3678888888863   3554433

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.63  E-value=0.61  Score=36.66  Aligned_cols=65  Identities=18%  Similarity=0.166  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004362          498 TYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLT  563 (759)
Q Consensus       498 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  563 (759)
                      .....+.....+|+.++--+++..+... .+|++..+..+..+|.+.|+..++.+++.++-+.|++
T Consensus        93 ~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           93 HVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            3444445555666666666666664332 3555666666666666666666666666666665543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.44  E-value=0.33  Score=38.81  Aligned_cols=78  Identities=6%  Similarity=-0.010  Sum_probs=49.6

Q ss_pred             CCchhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          599 SHTTATYNIMINAFSEKLN---FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       599 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      .++..+-..+++++.+..+   ..+++.+++.+...+-.-.......|.-++.+.|+|++|+++.+.+++  ..|++.-.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~n~QA  113 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNKQV  113 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCCHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCcHHH
Confidence            4556666667777776654   345677777776643111245566666777888888888888888887  77765544


Q ss_pred             HHH
Q 004362          676 GRV  678 (759)
Q Consensus       676 ~~l  678 (759)
                      ..|
T Consensus       114 ~~L  116 (144)
T 1y8m_A          114 GAL  116 (144)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.38  E-value=4.1  Score=44.64  Aligned_cols=153  Identities=12%  Similarity=0.063  Sum_probs=67.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCChHHHHHHHHHHHHCCCCCCHhhH--HHHHHHHHhcCC
Q 004362          401 LSQQGLILQALQLMNEMSESGCCPDMWTYNIVING--LCKMGCVSDANNLVNDAISKGYIPDIFTF--NTLIDGYCKQLK  476 (759)
Q Consensus       401 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~  476 (759)
                      +.-.|+.+....++..+.+.   .+......+.-+  +...|+.+.+..+.+.+.... .|....-  ..+.-+|+..|+
T Consensus       500 ~vGTgn~~ai~~LL~~~~e~---~~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn  575 (963)
T 4ady_A          500 MLGTGKPEAIHDMFTYSQET---QHGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGN  575 (963)
T ss_dssp             HTTCCCHHHHHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCC
T ss_pred             hcccCCHHHHHHHHHHHhcc---CcHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCC
Confidence            33445555555555555543   122222223333  335566666666666665431 1111111  123334566677


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCH-HHHHHHHH
Q 004362          477 MEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKI-TEAFNLLE  555 (759)
Q Consensus       477 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~  555 (759)
                      .....++++.+.+.. ..++.....+.-++...|+.+.+.++++.+.+.+ .|....-..+.-+....|+. .++...+.
T Consensus       576 ~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~  653 (963)
T 4ady_A          576 NSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLD  653 (963)
T ss_dssp             HHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHH
Confidence            666666777666541 1122222222233344555555555555444432 22222222222222223322 45666666


Q ss_pred             HHHH
Q 004362          556 EMEN  559 (759)
Q Consensus       556 ~~~~  559 (759)
                      .+..
T Consensus       654 ~L~~  657 (963)
T 4ady_A          654 PLTK  657 (963)
T ss_dssp             HHHT
T ss_pred             HHcc
Confidence            6653

>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=95.08  E-value=2.3  Score=44.70  Aligned_cols=314  Identities=10%  Similarity=0.020  Sum_probs=154.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHH
Q 004362          366 LCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDA  445 (759)
Q Consensus       366 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  445 (759)
                      ..+.|+++.+..+...+....+. ....|..+.... ......+....+.+...  .+.....-...+..+.+.+++...
T Consensus        16 a~~~~~~~~~~~l~~~l~~~pL~-~yl~y~~l~~~l-~~~~~~ev~~Fl~~~~~--~p~~~~Lr~~~l~~l~~~~~w~~~   91 (618)
T 1qsa_A           16 AWDNRQMDVVEQMMPGLKDYPLY-PYLEYRQITDDL-MNQPAVTVTNFVRANPT--LPPARTLQSRFVNELARREDWRGL   91 (618)
T ss_dssp             HHHTTCHHHHHHHSGGGTTSTTH-HHHHHHHHHHTG-GGCCHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhhcCCCcH-HHHHHHHHHhCc-ccCCHHHHHHHHHHCCC--ChhHHHHHHHHHHHHHhCCCHHHH
Confidence            34567777776665544322111 111232222211 12244544444443221  111122334445566677777766


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH--HHHHHHHHHH
Q 004362          446 NNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSE--DVMETFKTMI  523 (759)
Q Consensus       446 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~  523 (759)
                      ..++..     .+.+...-.....+....|+..+|......+-..|. ..+..+..++..+.+.|...  ....-+..+.
T Consensus        92 l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~-~~p~~c~~l~~~~~~~g~lt~~~~~~R~~~al  165 (618)
T 1qsa_A           92 LAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACDKLFSVWRASGKQDPLAYLERIRLAM  165 (618)
T ss_dssp             HHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHH
T ss_pred             HHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCC-CCcHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            654432     244555555666777788888878777777665542 24456677777777666443  3344444444


Q ss_pred             HcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHH--------------HHHHHHccCChhhHHHHH
Q 004362          524 EKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGT--------------LINGFCNSGDLDGAYQLF  589 (759)
Q Consensus       524 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--------------l~~~~~~~g~~~~A~~~~  589 (759)
                      ..+   +......+...+ . .........+..+.+.  +++......              .+.-+ ...+.+.|...+
T Consensus       166 ~~~---~~~~a~~l~~~l-~-~~~~~~a~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~rl-ar~d~~~A~~~~  237 (618)
T 1qsa_A          166 KAG---NTGLVTVLAGQM-P-ADYQTIASAIISLANN--PNTVLTFARTTGATDFTRQMAAVAFASV-ARQDAENARLMI  237 (618)
T ss_dssp             HTT---CHHHHHHHHHTC-C-GGGHHHHHHHHHHHHC--GGGHHHHHHHSCCCHHHHHHHHHHHHHH-HHHCHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHhC-C-HHHHHHHHHHHHHHhC--hHhHHHHHhccCCChhhHHHHHHHHHHH-HhcCHHHHHHHH
Confidence            443   222222222211 0 1111111222223322  223222211              11112 234678888888


Q ss_pred             HHHHHccCCCCch--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 004362          590 RRMEDQYKISHTT--ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKG  667 (759)
Q Consensus       590 ~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  667 (759)
                      ..........+..  ..+..++..+...+...++...+.+....  .++.....-.+....+.|+++.|...|..+... 
T Consensus       238 ~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~-  314 (618)
T 1qsa_A          238 PSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGTGDRRGLNTWLARLPME-  314 (618)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-
T ss_pred             HhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHCCCHHHHHHHHHHcccc-
Confidence            8776543221111  11122222333344355666677665543  333333333333344678899988888876541 


Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          668 FIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       668 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      ......-.+.+...+...|+.++|..+|+++..
T Consensus       315 ~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          315 AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            111233445666666788898889888888864

>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=95.02  E-value=0.25  Score=38.90  Aligned_cols=75  Identities=7%  Similarity=-0.004  Sum_probs=47.0

Q ss_pred             CchhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCC-C-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          600 HTTATYNIMINAFSEKLN---FYMAEKLFYEMSEKGCPP-D-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       600 ~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p-~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                      +++.+-..+++++.+..+   ..+++.+++.+.+.+  | . ...+..|+-++.+.|++++|+++.+.+++  ..|++.-
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~--~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N~Q  113 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNKQ  113 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTCHH
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCCHH
Confidence            344555566666665543   345666676666543  3 2 45666666777777777777777777777  6776554


Q ss_pred             HHHH
Q 004362          675 IGRV  678 (759)
Q Consensus       675 ~~~l  678 (759)
                      ...+
T Consensus       114 A~~L  117 (134)
T 3o48_A          114 VGAL  117 (134)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.87  E-value=0.22  Score=41.11  Aligned_cols=55  Identities=5%  Similarity=-0.124  Sum_probs=28.0

Q ss_pred             HHHhcCCChHHHHHHHHHhhhcCCCCCC---H----HHHHHHHHHHHhCCChHHHHHHHHHH
Q 004362           12 AVVKHQKNPLTALEMFNSVKREDGFKHT---L----LTYKYMIDKLGFHGNFEEMENLLLEM   66 (759)
Q Consensus        12 ~~l~~~~~~~~A~~~~~~~~~~~~~~~~---~----~~~~~l~~~l~~~~~~~~A~~~~~~~   66 (759)
                      .-+-..+-++.|.-..+.+....+..|+   +    .++..++.++...|+|.+|...|+.+
T Consensus        28 k~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           28 RDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3334455566665555554332211222   1    24455666666666666666666664

>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=94.42  E-value=2.7  Score=41.14  Aligned_cols=131  Identities=13%  Similarity=0.004  Sum_probs=62.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCChhcH--
Q 004362          462 FTFNTLIDGYCKQLKMEIAIEILNTMWSH-GVTP---DVITYNSLLNGLCKA-AKSEDVMETFKTMIEKRCVPNIITY--  534 (759)
Q Consensus       462 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~--  534 (759)
                      .....|...|.+.|+.++..+++...... +..|   .......++..+... +..+.-.++..+.++-. .-...+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence            45566777888888888877777765432 0011   122344455555442 22333333333333210 0011122  


Q ss_pred             ----HHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcc---HHHHHHHHHHHHccCChhhHHHHHHHHH
Q 004362          535 ----SILGESLCKAHKITEAFNLLEEMENK--GLTLD---TVAFGTLINGFCNSGDLDGAYQLFRRME  593 (759)
Q Consensus       535 ----~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~  593 (759)
                          ..++..|...|++.+|..++..+.+.  .....   .+++..-+..|...+++.++...+..+.
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~  166 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSAR  166 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence                14555566666666666666555542  11101   1223334455555666666666665554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.10  E-value=0.38  Score=51.46  Aligned_cols=53  Identities=9%  Similarity=0.014  Sum_probs=33.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHH
Q 004362          609 INAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLEN  663 (759)
Q Consensus       609 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~  663 (759)
                      +..+...|+++-|+++.++++..  .|+ ..+|..|..+|...|+++.|+-.+..+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            34455566677777777766654  343 666777777777777777776666554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.03  E-value=5.1  Score=40.34  Aligned_cols=164  Identities=15%  Similarity=0.064  Sum_probs=90.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcc---HHHHHHHHHHHHccCChhhHHHHHHHHHHcc-CCCCc----hhh
Q 004362          535 SILGESLCKAHKITEAFNLLEEMENK--GLTLD---TVAFGTLINGFCNSGDLDGAYQLFRRMEDQY-KISHT----TAT  604 (759)
Q Consensus       535 ~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~----~~~  604 (759)
                      ..++..+...|++.+|..++..+...  +....   ...+...++.|...+++..|..++.++.... ..+++    ...
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            46777788888888888888887642  21111   2355666778888889988888888764311 12222    244


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHhhH----HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004362          605 YNIMINAFSEKLNFYMAEKLFYEMSEKG-CPPDNYTY----RIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVI  679 (759)
Q Consensus       605 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  679 (759)
                      +...+..+...++|.+|-+.|.++.+.. ...|...+    ..++.+..-.+....--.++.+.......++.+.+..++
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~  300 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLV  300 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHH
Confidence            5666777788888888888887775431 11122222    112221122221122222222222211224455666666


Q ss_pred             HHHH--hcCcHHHHHHHHHHH
Q 004362          680 NCLC--VDHRVHEAVGFVHLM  698 (759)
Q Consensus       680 ~~~~--~~g~~~~A~~~~~~~  698 (759)
                      ..+.  ...+|+.+.+.+...
T Consensus       301 k~f~~~~L~~~~~~~~~~~~~  321 (445)
T 4b4t_P          301 KLFTTNELMRWPIVQKTYEPV  321 (445)
T ss_dssp             HHHHHCCSSSHHHHHHHTCSS
T ss_pred             HHHHhchHhhhHHHHHHHHHH
Confidence            6663  345677766666554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.96  E-value=5.8  Score=39.90  Aligned_cols=99  Identities=11%  Similarity=-0.048  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCCC--
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHT----TATYNIMINAFSEKLNFYMAEKLFYEMSE----KGCPPD--  636 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~p~--  636 (759)
                      .....++..|...|++.+|.+++..+........+    ...+...++.|...+++..|..+++++..    ...+|+  
T Consensus       138 rl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk  217 (445)
T 4b4t_P          138 RVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLK  217 (445)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHH
Confidence            34567889999999999999999998754222222    45677778999999999999999998743    222233  


Q ss_pred             HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          637 NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       637 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ...+...+..+...++|.+|-..|.++.+
T Consensus       218 ~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          218 LEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            24556677788899999999999998875

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=93.85  E-value=1.6  Score=35.01  Aligned_cols=70  Identities=7%  Similarity=-0.108  Sum_probs=57.9

Q ss_pred             CCCHhhHHHHHHHHHhcCCh---HHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCch
Q 004362          634 PPDNYTYRIMIDSFCKTGGI---NSGYCLLLENIDKGFIP--SLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEV  707 (759)
Q Consensus       634 ~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  707 (759)
                      .|+..+-..+.+++.++.+.   .+++.+++...+  -.|  .....+.+.-++++.|++++|.++.+.+++  +.|+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~--~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~n  110 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYK--EAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  110 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHH--HCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh--cCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCc
Confidence            57788888899999998764   578999999988  445  456667788888999999999999999999  77873

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.83  E-value=1.9  Score=33.93  Aligned_cols=137  Identities=14%  Similarity=0.071  Sum_probs=78.3

Q ss_pred             cCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHH
Q 004362           16 HQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEA   95 (759)
Q Consensus        16 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   95 (759)
                      ..|..++..++.......+    +..-|++++--...+-+=+-..+.++.+-+.+.-              ...|++...
T Consensus        19 ldG~v~qGveii~k~~~ss----ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi--------------s~C~NlKrV   80 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKSS----TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSV   80 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHHS----CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHH
T ss_pred             HhhhHHHHHHHHHHHcCCC----CccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------HhhhcHHHH
Confidence            3566666666666544432    2344455554444455555555555555554422              245556666


Q ss_pred             HHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhC
Q 004362           96 VDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQ  175 (759)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  175 (759)
                      +.++-.+-     .+..-....+..+..+|.-++..+++..+... -+|++.....+..+|.+.|+..+|.+++.+.-+.
T Consensus        81 i~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           81 VECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             HHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            66665543     23333455566667777777777777775442 2466666667777777777777777777776666


Q ss_pred             C
Q 004362          176 G  176 (759)
Q Consensus       176 ~  176 (759)
                      |
T Consensus       155 G  155 (172)
T 1wy6_A          155 G  155 (172)
T ss_dssp             T
T ss_pred             h
Confidence            5

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.55  E-value=0.28  Score=40.45  Aligned_cols=125  Identities=6%  Similarity=0.009  Sum_probs=63.0

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCch-------hhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCCHhh
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTT-------ATYNIMINAFSEKLNFYMAEKLFYEMSEK--GCPPDNYT  639 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p~~~~  639 (759)
                      +..-+..+...|.++.|+-+...+......+++.       .++..+++++...+++..|...|+++++.  .+.....+
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~  102 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKV  102 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            3444556666777777777766655542222221       23455556666666666666666665432  11111111


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          640 YRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       640 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      ...+..    ......       -..  +.++.+.-+.+..|+.+.|++++|+.+++.+..+.-.|.
T Consensus       103 ~~~~~~----~ss~p~-------s~~--~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~k  156 (167)
T 3ffl_A          103 RPSTGN----SASTPQ-------SQC--LPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPK  156 (167)
T ss_dssp             -------------------------C--CCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHH
T ss_pred             cccccc----cCCCcc-------ccc--ccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHH
Confidence            111100    000000       001  223445556777788899999999999988765444454

>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=93.51  E-value=0.76  Score=36.25  Aligned_cols=70  Identities=7%  Similarity=-0.084  Sum_probs=57.8

Q ss_pred             CCCHhhHHHHHHHHHhcCCh---HHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCch
Q 004362          634 PPDNYTYRIMIDSFCKTGGI---NSGYCLLLENIDKGFIP--SLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEV  707 (759)
Q Consensus       634 ~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  707 (759)
                      .|++.+-..+++++.++.+.   .+++.+++.+.+.  .|  ....++.+.-++++.|++++|.++.+.+++  +.|+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~--~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N  111 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE--AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  111 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc--CcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCC
Confidence            57788888899999988764   5789999999883  46  356677888888999999999999999998  77873

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=93.33  E-value=1.6  Score=43.19  Aligned_cols=74  Identities=7%  Similarity=-0.082  Sum_probs=54.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCCCCHHHHHHH
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID-----KGFIPSLSTIGRV  678 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~g~~p~~~~~~~l  678 (759)
                      +...++..+...|++.+|+..++.+.... +-+...|..++.++.+.|+..+|+..|++..+     .|+.|+..+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            34456677778888888888888887653 44677888888888888888888888887643     3888876655433

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=93.17  E-value=0.98  Score=44.66  Aligned_cols=71  Identities=14%  Similarity=0.134  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH-----CCCCCCHHHH
Q 004362           78 VHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRN-----KGIVPDVYTF  149 (759)
Q Consensus        78 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  149 (759)
                      +...++..+...|++++|+..+..+.... +.+...|..++.++.+.|+..+|++.|+++.+     .|+.|+..+-
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            34445566666666666666666665443 44556666666777777777777666666543     2666665543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=93.13  E-value=0.95  Score=40.92  Aligned_cols=58  Identities=14%  Similarity=0.158  Sum_probs=39.0

Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD  636 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  636 (759)
                      ...+.|++++|+.....-++.  .|.|...-..++..++-.|+++.|.+-++.+.+.  .|+
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 NALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPE   63 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGG
T ss_pred             HHHhCCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--Cch
Confidence            345667777777777766666  6777777777777777777777777777766644  454

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=92.22  E-value=7.9  Score=36.59  Aligned_cols=167  Identities=11%  Similarity=0.041  Sum_probs=92.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH----HHHHHcCCCCChhcHHHHH
Q 004362          463 TFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETF----KTMIEKRCVPNIITYSILG  538 (759)
Q Consensus       463 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~l~  538 (759)
                      ++.++..-|.+.+++++|++++..-..               .+.+.|+...|.++.    +-+.+.+++++......++
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~GA~---------------~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~  101 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASVSQ---------------TLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLL  101 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            344455568888888888887654332               244556665554443    4444557788888877888


Q ss_pred             HHHHhcCCH-HHHHHHHHHHHH----CC--CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH
Q 004362          539 ESLCKAHKI-TEAFNLLEEMEN----KG--LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA  611 (759)
Q Consensus       539 ~~~~~~~~~-~~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  611 (759)
                      ..+.....- ..=..+.+++++    .|  ..-|+.....+...|.+.+++.+|...|-  .   +..+.+..+..+..-
T Consensus       102 ~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i--l---g~~~s~~~~a~mL~e  176 (336)
T 3lpz_A          102 GCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV--L---GTKESPEVLARMEYE  176 (336)
T ss_dssp             HHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT--T---SCTTHHHHHHHHHHH
T ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH--h---cCCchHHHHHHHHHH
Confidence            777655431 122334444432    12  23467777778888888888888877772  1   122223444444333


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 004362          612 FSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENI  664 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  664 (759)
                      +...+...              ++|..+-..++ -|.-.++...|...+....
T Consensus       177 w~~~~~~~--------------e~dlfiaRaVL-~yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          177 WYKQDESH--------------TAPLYCARAVL-PYLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             HHHTSCGG--------------GHHHHHHHHHH-HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhcCCc--------------cHHHHHHHHHH-HHHHhCCHHHHHHHHHHHH
Confidence            32222111              11222223333 3566788888888766654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.54  E-value=0.97  Score=48.42  Aligned_cols=50  Identities=8%  Similarity=-0.020  Sum_probs=25.5

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHH
Q 004362          542 CKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRM  592 (759)
Q Consensus       542 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  592 (759)
                      ...|+++.|..+-++.... .|.+..+|..|+.+|...|+++.|+-.+..+
T Consensus       348 l~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          348 LNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             hccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3445555555555555543 3344555555555555555555555544443

>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=90.23  E-value=1.5  Score=32.29  Aligned_cols=62  Identities=11%  Similarity=0.127  Sum_probs=45.5

Q ss_pred             CHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          546 KITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       546 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +.-+..+-++.+...+.-|++.+..+.+++|.+.+++..|+++++.+..+.+.  ...+|..++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~--~~~iY~~~l   86 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVI   86 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--chhhHHHHH
Confidence            34456666777777778888888888888998889999999998888877433  334555444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.81  E-value=5.9  Score=45.75  Aligned_cols=210  Identities=13%  Similarity=0.123  Sum_probs=106.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccC
Q 004362          501 SLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSG  580 (759)
Q Consensus       501 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  580 (759)
                      .++..+...+.++-+.++..-.     +-++.....++.++...|++++|..+|++.-.. +..+....          .
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~-~~~~~~l~----------~  880 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLV-LYSHTSQF----------A  880 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCS-CTTCCCSC----------S
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhh-hcccchhh----------h
Confidence            4555566667776665543322     223444456677777788888888887765321 11110000          0


Q ss_pred             ChhhHHHHHHHHHHccC-CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----hhHHHHHHHHHhcCChHH
Q 004362          581 DLDGAYQLFRRMEDQYK-ISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDN----YTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       581 ~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~  655 (759)
                      ...    -+..+..... ...-...|..++..+.+.|.++.++++.+.+++..-+.+.    ..|..+...+...|++++
T Consensus       881 ~~~----~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~  956 (1139)
T 4fhn_B          881 VLR----EFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDA  956 (1139)
T ss_dssp             SHH----HHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGG
T ss_pred             hhc----ccccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHH
Confidence            000    0111111100 1112344566667777777777777777777654212221    146667777777888888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHH------------HHHHHHHHHHH----CCCCCchHHHHHhc--ccc
Q 004362          656 GYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVH------------EAVGFVHLMVQ----KGIVPEVVNTIFEA--DKR  717 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~------------~A~~~~~~~~~----~~~~p~~~~~~~~~--~~~  717 (759)
                      |...+-.+..  ..-....+..++..++..|..+            +..+++..-.+    -.-.|+.+.-++..  .+|
T Consensus       957 Ay~aL~~~pd--~~~r~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~ 1034 (1139)
T 4fhn_B          957 AHVALMVLST--TPLKKSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQ 1034 (1139)
T ss_dssp             GGHHHHHHHH--SSSCHHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCC--HHHHHHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccC
Confidence            8777766655  2223455555655555444433            33333322111    11234434434433  444


Q ss_pred             c-cccchHHHHHHHhc
Q 004362          718 E-VASPKIVVEDLLKK  732 (759)
Q Consensus       718 ~-~~~a~~~~~~~~~~  732 (759)
                      + ..-|..+|+++.+.
T Consensus      1035 dyR~AA~vmYe~~~RL 1050 (1139)
T 4fhn_B         1035 NYRDAAAIIYEKLSRY 1050 (1139)
T ss_dssp             TTSCHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHh
Confidence            4 45566778877664

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.63  E-value=6.9  Score=45.17  Aligned_cols=51  Identities=14%  Similarity=0.099  Sum_probs=27.4

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHh
Q 004362           46 MIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERM  102 (759)
Q Consensus        46 l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  102 (759)
                      ++..|...+..+.|.++..-.    +.  +....+.+++++...|++++|..+|.+.
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~----~~--~~~~~yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWL----NS--DPIAVYLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHS----CC--CHHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHhhhHHHHHHHhhhc----cC--CcHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            444455555555554432211    22  3333455666777777777777777654

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.43  E-value=14  Score=34.65  Aligned_cols=112  Identities=14%  Similarity=0.093  Sum_probs=61.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH----HHHHHHcCCCCChhcHHHHHH
Q 004362          464 FNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMET----FKTMIEKRCVPNIITYSILGE  539 (759)
Q Consensus       464 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~  539 (759)
                      |.++..-|.+++++++|++++..-..               .+.+.|+...|.++    .+-..+.+.+++......++.
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~  100 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVR  100 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            34445557777777777777554332               23445665554443    333444566777777777776


Q ss_pred             HHHhcCCH-HHHHHHHHHHHH----CC--CCccHHHHHHHHHHHHccCChhhHHHHHH
Q 004362          540 SLCKAHKI-TEAFNLLEEMEN----KG--LTLDTVAFGTLINGFCNSGDLDGAYQLFR  590 (759)
Q Consensus       540 ~~~~~~~~-~~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  590 (759)
                      .+...... ..-.++++.+++    .|  ..-++.....+...|.+.|++.+|...|-
T Consensus       101 l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          101 LIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             HHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            66543211 112333333332    11  12366666777777777777777776663

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.94  E-value=2.5  Score=38.26  Aligned_cols=55  Identities=18%  Similarity=0.225  Sum_probs=37.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHc
Q 004362          540 SLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ  595 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  595 (759)
                      ...+.|+.++++.....-++. -|.|...-..++..+|-.|++++|.+-++.+.+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~-~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKA-SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHT-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHh-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            344567777777777666665 3556666666777777777777777777776666

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.21  E-value=6.7  Score=39.26  Aligned_cols=120  Identities=12%  Similarity=0.026  Sum_probs=77.3

Q ss_pred             CHHHHHHHHHHHHHCCC-Cc-cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCC-CCchhhHHHHHHHHHhcCCHHHHH
Q 004362          546 KITEAFNLLEEMENKGL-TL-DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKI-SHTTATYNIMINAFSEKLNFYMAE  622 (759)
Q Consensus       546 ~~~~a~~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  622 (759)
                      ..++.....+...+... .. -..+...++..|.+.|++++|.+.|.++...... ..-...+..+++++...+++..+.
T Consensus       109 ~l~~l~~~~~~~~~~~~~e~e~~~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~  188 (429)
T 4b4t_R          109 KIKELNEKIQKLEEDDEGELEQAQAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVK  188 (429)
T ss_dssp             CHHHHHHHHHHHHHCCSCCCCCSSCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHH
Confidence            34555555555554321 11 2335677888899999999999999988775432 234567777888888889999998


Q ss_pred             HHHHHHHHc---CCCCCHh--hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          623 KLFYEMSEK---GCPPDNY--TYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       623 ~~~~~~~~~---~~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ..++++...   +-.|+..  ....-+..+...++|.+|-..|-++..
T Consensus       189 ~~~~ka~~~~~~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          189 EKLEAVNSMIEKGGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHHHHHHTTCCCTHHHHHHHHHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhcCCCHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHhc
Confidence            888887543   2122211  112223345567888888888888776

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=85.94  E-value=3.3  Score=35.49  Aligned_cols=57  Identities=19%  Similarity=0.130  Sum_probs=41.1

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          615 KLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      .++..++..+|..|..+++--. +..|...+..+...|++++|..+|+..++.+-.|-
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            3446677777777777766555 56677777777788888888888888887766663

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=84.36  E-value=5.7  Score=31.21  Aligned_cols=60  Identities=12%  Similarity=0.133  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          548 TEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       548 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      -+..+-++.+...+.-|++.+....+.+|.+.+|+..|+++|+.+..+.+.  ...+|..++
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~--~~~iY~y~l  129 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCC--chhhHHHHH
Confidence            345666677777778889999999999999999999999999998888433  344555544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=84.27  E-value=27  Score=32.69  Aligned_cols=25  Identities=24%  Similarity=0.175  Sum_probs=12.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHH
Q 004362          601 TTATYNIMINAFSEKLNFYMAEKLF  625 (759)
Q Consensus       601 ~~~~~~~l~~~~~~~g~~~~A~~~~  625 (759)
                      ++..+..++..|.+.|++.+|..+|
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHH
Confidence            3444455555555555555554443

>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=83.86  E-value=5.1  Score=29.64  Aligned_cols=63  Identities=14%  Similarity=0.057  Sum_probs=46.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          617 NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVIN  680 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  680 (759)
                      +.=+..+-++.+....+-|++.+....+.+|.+.+++..|+++++-...+ ..+....|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            34456666677776688899999999999999999999999999987643 2333444555543

>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=83.20  E-value=49  Score=34.77  Aligned_cols=116  Identities=7%  Similarity=-0.083  Sum_probs=71.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHH----HHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHH
Q 004362          475 LKMEIAIEILNTMWSHGVTPDVITYNSLLN----GLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEA  550 (759)
Q Consensus       475 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  550 (759)
                      .+.+.|...+........ .+......+-.    .....+...++...+.......  ++.......+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~~-~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhccC-CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHH
Confidence            478899999988765332 23332222222    2223343556666666655432  2333333344444567999999


Q ss_pred             HHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHH
Q 004362          551 FNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMED  594 (759)
Q Consensus       551 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  594 (759)
                      ...|+.+... .........-+.+++...|+.++|..+|+.+..
T Consensus       305 ~~~~~~l~~~-~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHcccc-ccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            9999887653 122455556677788889999999999999874

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.07  E-value=16  Score=36.46  Aligned_cols=98  Identities=14%  Similarity=-0.046  Sum_probs=46.7

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHH---
Q 004362          533 TYSILGESLCKAHKITEAFNLLEEMENK--GLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNI---  607 (759)
Q Consensus       533 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~---  607 (759)
                      +...++..|.+.|+++.|.+.+.++...  +...-...+...++.+...+++..+...+.++.......++....+.   
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            3444555555555555555555555442  12222344555555555556666666665555443222222222111   


Q ss_pred             -HHHHHHhcCCHHHHHHHHHHHHH
Q 004362          608 -MINAFSEKLNFYMAEKLFYEMSE  630 (759)
Q Consensus       608 -l~~~~~~~g~~~~A~~~~~~~~~  630 (759)
                       .+..+...+++.+|-+.|-++..
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhc
Confidence             12222345666666666655543

---

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	759
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-06
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	1e-04
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	0.003

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.9 bits (115), Expect = 2e-06
 Identities = 50/395 (12%), Positives = 120/395 (30%), Gaps = 25/395 (6%)

Query: 17  QKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLL---LEMRMDVDDS 73
             +   A      + R++     +L     I         +   +     ++    + ++
Sbjct: 12  AGDFEAAERHCMQLWRQEPDNTGVLLLLSSI--HFQCRRLDRSAHFSTLAIKQNPLLAEA 69

Query: 74  LLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKV 133
                ++G +     + +              +     ++    +    +     Q +  
Sbjct: 70  YS---NLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVS 126

Query: 134 YMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYE 193
            ++              +              L+ ++  P+      AVA+  L   F  
Sbjct: 127 ALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN-----FAVAWSNLGCVFNA 181

Query: 194 ENHNVEAYELFDEMLGMGISPDIA-TFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLF 252
           +     A   F++ +   + P+    +  L + L +      +   + + L    +  + 
Sbjct: 182 QGEIWLAIHHFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVV 239

Query: 253 TFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVV-TYNTLMCGLCKNSKVVEAEYYLHK 311
             N+       +G I  AI         +L P     Y  L   L +   V EAE   + 
Sbjct: 240 HGNLACV-YYEQGLIDLAIDTYRRA--IELQPHFPDAYCNLANALKEKGSVAEAEDCYNT 296

Query: 312 MVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGD 371
            +         S N + +   + G I  A ++   A+ + F      + +L + L Q G 
Sbjct: 297 ALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKAL-EVFPEFAAAHSNLASVLQQQGK 354

Query: 372 VDRAMAVYVKALEKGLKPSIV-LYNTLIKGLSQQG 405
           +  A+  Y +A+   + P+    Y+ +   L +  
Sbjct: 355 LQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQ 387

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (99), Expect = 1e-04
 Identities = 47/323 (14%), Positives = 99/323 (30%), Gaps = 14/323 (4%)

Query: 331 YCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPS 390
             +AG   +A++       +    +      L +   Q   +DR+      A++    P 
Sbjct: 9   EYQAGDFEAAERHCMQLW-RQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK--QNPL 65

Query: 391 IV-LYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLV 449
           +   Y+ L     ++G + +A++                 N+    +            V
Sbjct: 66  LAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYV 125

Query: 450 NDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKA 509
           +       +  + +    +     +L+   A  +             + +++L       
Sbjct: 126 SALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN---FAVAWSNLGCVFNAQ 182

Query: 510 AKSEDVMETFKTMIEKRCVPNII-TYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVA 568
            +    +  F+  +     PN +  Y  LG  L +A     A        +       V 
Sbjct: 183 GEIWLAIHHFEKAVTLD--PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV 239

Query: 569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEM 628
            G L   +   G +D A   +RR  +     H    Y  + NA  EK +   AE   Y  
Sbjct: 240 HGNLACVYYEQGLIDLAIDTYRRAIELQP--HFPDAYCNLANALKEKGSVAEAED-CYNT 296

Query: 629 SEKGCPPDNYTYRIMIDSFCKTG 651
           + + CP    +   + +   + G
Sbjct: 297 ALRLCPTHADSLNNLANIKREQG 319

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (88), Expect = 0.003
 Identities = 37/204 (18%), Positives = 73/204 (35%), Gaps = 11/204 (5%)

Query: 285 DVVTYNTLMCGLCKNSKVVEAEYYLHKMVNEGLEPD-GFSYNAVIDGYCKAGMISSADKI 343
             V ++ L C      ++  A ++  K V   L+P+   +Y  + +   +A +   A   
Sbjct: 168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAA 225

Query: 344 LNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIV-LYNTLIKGLS 402
                          + +L     + G +D A+  Y +A+E  L+P     Y  L   L 
Sbjct: 226 YLR-ALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALK 282

Query: 403 QQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIF 462
           ++G + +A    N              N+  N   + G + +A  L   A+     P+  
Sbjct: 283 EKGSVAEAEDCYNTALRLCPTHADSLNNL-ANIKREQGNIEEAVRLYRKALEVF--PEFA 339

Query: 463 -TFNTLIDGYCKQLKMEIAIEILN 485
              + L     +Q K++ A+    
Sbjct: 340 AAHSNLASVLQQQGKLQEALMHYK 363

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	759
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.93
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.68
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.47
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.39
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.31
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.25
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.24
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.24
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.23
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.22
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.18
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.17
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.03
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.92
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.92
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.88
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.85
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.84
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.81
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.8
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.78
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.71
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.69
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.68
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.64
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.63
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.6
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.56
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.56
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.55
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.51
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.47
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.47
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.47
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.39
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.36
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.25
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.24
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.22
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.21
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.19
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.17
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.07
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.02
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.0
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.96
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.91
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.91
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.85
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.73
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.7
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.44
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.96
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.91
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.6
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.91
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.79
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.68
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.74
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.05
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.88
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	85.18
d1bpoa1	157	Clathrin heavy-chain linker domain {Rat (Rattus no	80.86

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=2.1e-22  Score=204.06  Aligned_cols=381  Identities=15%  Similarity=0.049  Sum_probs=253.0

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCH
Q 004362          293 MCGLCKNSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDV  372 (759)
Q Consensus       293 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  372 (759)
                      ...+.+.|++++|.+.++++.+.. +-+...+..+...+.+.|++++|...++.+++.. +.+..++..+..++.+.|++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            344555666666666666666542 2244555666666666677777777766666553 22445666667777777777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004362          373 DRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDA  452 (759)
Q Consensus       373 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  452 (759)
                      ++|...+.......+. +..............+....+........... .................+....+...+...
T Consensus        84 ~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccccc-cccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHh
Confidence            7777777777665443 33334444444444444444444444443332 223334444455555666666776666666


Q ss_pred             HHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh
Q 004362          453 ISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNII  532 (759)
Q Consensus       453 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  532 (759)
                      .... +.+...+..+...+...|+++.|...+++..+.. +-+...+..+..++...|++++|+..++...... +.+..
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  238 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHH
Confidence            5543 3355666677777777888888888887777653 2256677777777788888888888888777654 33556


Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHH
Q 004362          533 TYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAF  612 (759)
Q Consensus       533 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  612 (759)
                      .+..++.++...|++++|...++++++. .+.+..++..++.++...|++++|++.++.+...  .|.+...+..++.++
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~  315 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIEL-QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT-CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHH
Confidence            6777777788888888888888887775 3456677777888888888888888888887777  677777888888888


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCc
Q 004362          613 SEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS-TIGRVINCLCVDHR  687 (759)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g~  687 (759)
                      ...|++++|+..|+++++.  .|+ ..++..++.+|...|++++|+..|+++++  +.|+.. .+..+...+.+.||
T Consensus       316 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         316 REQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCC
Confidence            8888888888888887754  454 67777788888888888888888888887  777643 45556666555554

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=4.6e-22  Score=201.55  Aligned_cols=381  Identities=13%  Similarity=0.074  Sum_probs=236.9

Q ss_pred             HHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChH
Q 004362          224 HTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVV  303 (759)
Q Consensus       224 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  303 (759)
                      ..+.+.|++++|.+.++++++.. +.+...+..+...|.+.|++++|...++++.+.+ +.+..+|..+..++...|+++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccc
Confidence            34445555555555555555442 1234444555555555555555555555544332 223344444444455555555


Q ss_pred             HHHHHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004362          304 EAEYYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKAL  383 (759)
Q Consensus       304 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  383 (759)
                      +|...+.........                                    +..............+....+........
T Consensus        85 ~A~~~~~~~~~~~~~------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (388)
T d1w3ba_          85 EAIEHYRHALRLKPD------------------------------------FIDGYINLAAALVAAGDMEGAVQAYVSAL  128 (388)
T ss_dssp             HHHHHHHHHHHHCTT------------------------------------CHHHHHHHHHHHHHHSCSSHHHHHHHHHH
T ss_pred             ccccccccccccccc------------------------------------ccccccccccccccccccccccccccccc
Confidence            555554444443211                                    22222222222333333333333333333


Q ss_pred             HcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhh
Q 004362          384 EKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFT  463 (759)
Q Consensus       384 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  463 (759)
                      ..... ...............+....+...+....... +.+...+..+...+...|++++|...++...... +.+...
T Consensus       129 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  205 (388)
T d1w3ba_         129 QYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDA  205 (388)
T ss_dssp             HHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             ccccc-cccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHH
Confidence            32222 33333333444445555555555555554432 2234455555666666666777776666666543 335566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh
Q 004362          464 FNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK  543 (759)
Q Consensus       464 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  543 (759)
                      +..+...+...|++++|...+++....+ +.+...+..+..++.+.|++++|+..|++.++.. +.+..++..++.++..
T Consensus       206 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  283 (388)
T d1w3ba_         206 YINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            6777777777777777777777777653 2356667777777888888888888888887763 3356677788888888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 004362          544 AHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEK  623 (759)
Q Consensus       544 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  623 (759)
                      .|++++|...++..... .+.+...+..+..++...|++++|+..|+++.+.  .|.+..++..++.+|...|++++|+.
T Consensus       284 ~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~  360 (388)
T d1w3ba_         284 KGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             cCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            88888888888888776 4667778888888888999999999999988887  78888888899999999999999999


Q ss_pred             HHHHHHHcCCCCC-HhhHHHHHHHHHhcCC
Q 004362          624 LFYEMSEKGCPPD-NYTYRIMIDSFCKTGG  652 (759)
Q Consensus       624 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  652 (759)
                      .|+++++.  .|+ ..+|..++.+|.+.||
T Consensus       361 ~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         361 HYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            99998854  565 7788888888888775

>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=99.68  E-value=5.1e-15  Score=144.52  Aligned_cols=247  Identities=13%  Similarity=-0.012  Sum_probs=153.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCC
Q 004362          397 LIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLK  476 (759)
Q Consensus       397 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  476 (759)
                      ....+.+.|++++|+..|+++.+.. +-+..+|..+..++...|++++|...+.++++.. +.+...+..+...|...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            3444555566666666665555542 1134455555555555555555555555555442 2244455555555555555


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          477 MEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEE  556 (759)
Q Consensus       477 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  556 (759)
                      +++|.+.++.+....  |+............                   ...+..........+...+.+.++...+.+
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGA-------------------GGAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhh-------------------hhcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            555555555555431  21100000000000                   000000111112233445667778888887


Q ss_pred             HHHCC-CCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004362          557 MENKG-LTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPP  635 (759)
Q Consensus       557 ~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  635 (759)
                      +.+.. ...+..++..+...+...|++++|+..|+++...  .|.+..+|..++.+|...|++++|++.|+++++.  .|
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p  237 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QP  237 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHH--hh
Confidence            77642 2345677888888888999999999999998887  7888889999999999999999999999998865  45


Q ss_pred             C-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 004362          636 D-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL  672 (759)
Q Consensus       636 ~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  672 (759)
                      + ..+|..++.+|...|++++|+..|+++++  +.|++
T Consensus       238 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~  273 (323)
T d1fcha_         238 GYIRSRYNLGISCINLGAHREAVEHFLEALN--MQRKS  273 (323)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHHTC
T ss_pred             ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCcC
Confidence            4 77888899999999999999999999887  55543

>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=99.65  E-value=7.3e-14  Score=136.15  Aligned_cols=275  Identities=12%  Similarity=0.025  Sum_probs=203.8

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          355 DEFTYCSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVIN  434 (759)
Q Consensus       355 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  434 (759)
                      +..........+.+.|++++|+..|+++++..+. +..+|..+..++...|++++|...+.+..+.. +-+...+..+..
T Consensus        18 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~   95 (323)
T d1fcha_          18 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV   95 (323)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccc
Confidence            3333445777899999999999999999998766 78899999999999999999999999998864 236778888899


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004362          435 GLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSED  514 (759)
Q Consensus       435 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  514 (759)
                      .+...|++++|...++.+....  |+..............                   .+.......+..+...+...+
T Consensus        96 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~  154 (323)
T d1fcha_          96 SFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGG-------------------AGLGPSKRILGSLLSDSLFLE  154 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC----------------------------------CTTHHHHHHHHHHH
T ss_pred             cccccccccccccchhhHHHhc--cchHHHHHhhhhhhhh-------------------cccccchhhHHHHHHhhHHHH
Confidence            9999999999999999988763  2221110000000000                   000111111222344556777


Q ss_pred             HHHHHHHHHHcCC-CCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHH
Q 004362          515 VMETFKTMIEKRC-VPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRME  593 (759)
Q Consensus       515 a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  593 (759)
                      |.+.|.+.++... .++...+..++..+...|++++|+..+++.... .+.+...|..++.+|...|++++|++.|+++.
T Consensus       155 a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  233 (323)
T d1fcha_         155 VKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV-RPNDYLLWNKLGATLANGNQSEEAVAAYRRAL  233 (323)
T ss_dssp             HHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc-ccccccchhhhhhcccccccchhHHHHHHHHH
Confidence            8888888776532 234567788888999999999999999999876 35578889999999999999999999999999


Q ss_pred             HccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC------------HhhHHHHHHHHHhcCChHHHH
Q 004362          594 DQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD------------NYTYRIMIDSFCKTGGINSGY  657 (759)
Q Consensus       594 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~------------~~~~~~l~~~~~~~g~~~~A~  657 (759)
                      +.  .|.++.+|..++.+|...|++++|+..|+++++.  .|+            ...|..+..++...|+.+.+.
T Consensus       234 ~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         234 EL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNM--QRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            88  7889999999999999999999999999998863  232            124455555665566555443

>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=99.47  E-value=6.4e-12  Score=120.28  Aligned_cols=196  Identities=11%  Similarity=0.087  Sum_probs=116.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCccHHHHHHHHHHH
Q 004362          498 TYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAH-KITEAFNLLEEMENKGLTLDTVAFGTLINGF  576 (759)
Q Consensus       498 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  576 (759)
                      .++.+...+.+.+.+++|+++++++++.+ +-+...|...+.++...| ++++|+..++.+++. .+-+..+|.....++
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~-~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE-QPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH-HHhhhhHHHHHhHHH
Confidence            34445555556666666666666666653 224445555666655554 366666666666654 244566666666666


Q ss_pred             HccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCC----
Q 004362          577 CNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGG----  652 (759)
Q Consensus       577 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----  652 (759)
                      .+.|++++|+..++++.+.  .|.+..+|..++.++...|++++|++.++++++.+ +.+...|+.++.++...|.    
T Consensus       123 ~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchh
Confidence            6666666676666666666  66666666666666666666666766666666542 2235566666655555444    


Q ss_pred             --hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          653 --INSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       653 --~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                        +++|+..+.++++  +.|++......+..++.....+++.+.+++..+
T Consensus       200 ~~~~~ai~~~~~al~--~~P~~~~~~~~l~~ll~~~~~~~~~~~~~~~~~  247 (315)
T d2h6fa1         200 AVLEREVQYTLEMIK--LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLD  247 (315)
T ss_dssp             HHHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHH--hCCCchHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence              4566666666666  566544443333344444445666666666655

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=3.4e-11  Score=115.14  Aligned_cols=202  Identities=11%  Similarity=0.056  Sum_probs=166.1

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCChhcHHHHHH
Q 004362          461 IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAA-KSEDVMETFKTMIEKRCVPNIITYSILGE  539 (759)
Q Consensus       461 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  539 (759)
                      ...++.+...+.+.+.+++|+.+++++++.++ -+...|+....++...| ++++|+..++..++.. +-+..+|..++.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP-~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            34566677778888899999999999998743 36778888888888776 5899999999998874 336778999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCC--
Q 004362          540 SLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLN--  617 (759)
Q Consensus       540 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--  617 (759)
                      .+...|++++|+..++.+++. .+.+...|..++.++...|++++|+..++++++.  .|.+..+|+.++.++...+.  
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~-dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQ-DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHhhccHHHHHHHHhhhhhh-hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccc
Confidence            999999999999999999986 4567889999999999999999999999999998  89999999999988877665  


Q ss_pred             ----HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          618 ----FYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       618 ----~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                          +++|++.+.++++.. |.+...|..++..+.. ...+++...++++++  +.|+
T Consensus       198 ~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~--l~~~  251 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLD--LQPS  251 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHH--HTTT
T ss_pred             hhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHH--hCCC
Confidence                688999999998763 4458888888776554 446888899998887  5554

>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=99.31  E-value=7.1e-10  Score=109.21  Aligned_cols=265  Identities=14%  Similarity=0.051  Sum_probs=154.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CC----CHhhHHHHHHHH
Q 004362          401 LSQQGLILQALQLMNEMSESGCCPD----MWTYNIVINGLCKMGCVSDANNLVNDAISKGY-IP----DIFTFNTLIDGY  471 (759)
Q Consensus       401 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~  471 (759)
                      +...|++++|+.++++........+    ...+..+...+...|++++|...++....... .+    ....+..+...+
T Consensus        22 ~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  101 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  101 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHH
Confidence            3444555555555555444321111    12333344445555555555555554443210 00    112334444556


Q ss_pred             HhcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC----CCChhcHHHHHHH
Q 004362          472 CKQLKMEIAIEILNTMWSH----GVT--P-DVITYNSLLNGLCKAAKSEDVMETFKTMIEKRC----VPNIITYSILGES  540 (759)
Q Consensus       472 ~~~~~~~~A~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~  540 (759)
                      ...|++..+...+......    +..  + ....+..+...+...|+++.+...+........    ......+......
T Consensus       102 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (366)
T d1hz4a_         102 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  181 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence            6666766666666655431    111  1 122344556667777788887777777665421    1122344555666


Q ss_pred             HHhcCCHHHHHHHHHHHHHC----CCCc--cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCC--CchhhHHHHHHHH
Q 004362          541 LCKAHKITEAFNLLEEMENK----GLTL--DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKIS--HTTATYNIMINAF  612 (759)
Q Consensus       541 ~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~~l~~~~  612 (759)
                      +...+++..+...+.+....    +..+  ....+......+...|++++|...++.........  .....+..++.++
T Consensus       182 ~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~  261 (366)
T d1hz4a_         182 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  261 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHH
Confidence            67777888777777766542    1111  12345556677788888999988888876552221  1234456678888


Q ss_pred             HhcCCHHHHHHHHHHHHHc----CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          613 SEKLNFYMAEKLFYEMSEK----GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ...|++++|...++++...    +..|+ ..++..++.+|...|++++|+..++++++
T Consensus       262 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         262 ILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8889999998888887632    33444 56778888899999999999999998876

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.25  E-value=1.3e-09  Score=103.96  Aligned_cols=185  Identities=9%  Similarity=0.015  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHH
Q 004362          513 EDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRM  592 (759)
Q Consensus       513 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  592 (759)
                      ++|..+|++.++...+.+...+...+..+...|+++.|..+|+.+++........+|..++..+.+.|+++.|+.+|+++
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            44444444444332222233344444444455555555555555544321122334455555555555555555555555


Q ss_pred             HHccCCCCchhhHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCC
Q 004362          593 EDQYKISHTTATYNIMINAF-SEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDK-GFIP  670 (759)
Q Consensus       593 ~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-g~~p  670 (759)
                      ...  .|.+...|...+... ...|+.+.|..+|+++++. .+.+...|..++..+...|+++.|+.+|+++++. +..|
T Consensus       161 l~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         161 RED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            544  344444444443332 2234555555555555543 1333455555555555555555555555555542 1222


Q ss_pred             C--HHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          671 S--LSTIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       671 ~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +  ...|...+..-...|+.+.+.++++++.+
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2  11233333322444555555555555544

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.24  E-value=2e-10  Score=107.07  Aligned_cols=200  Identities=11%  Similarity=-0.057  Sum_probs=112.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHH
Q 004362          463 TFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLC  542 (759)
Q Consensus       463 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  542 (759)
                      ++..+..+|.+.|++++|+..|++.++.. +-++.+|..+..+|.+.|++++|++.|+++++.. +.+..++..++.++.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            45555666777777777777777776653 2256667777777777777777777777777653 224556666777777


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc----CCH
Q 004362          543 KAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK----LNF  618 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~  618 (759)
                      ..|++++|...++..++.. +.+......+...+.+.+..+.+..+........   +....+. +...+...    +..
T Consensus       117 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD---KEQWGWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC---CCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc---hhhhhhh-HHHHHHHHHHHHHHH
Confidence            7777777777777776652 3344444344444445454444444444444331   1111111 12222211    112


Q ss_pred             HHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 004362          619 YMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLS  673 (759)
Q Consensus       619 ~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  673 (759)
                      +.+...+......  .|+ ..+|..++..+...|++++|+..|++++.  ..|++.
T Consensus       192 ~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~  243 (259)
T d1xnfa_         192 ERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NNVHNF  243 (259)
T ss_dssp             HHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCTTC
T ss_pred             HHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCCH
Confidence            2222222222211  232 34666777788888888888888888887  667643

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.24  E-value=4.7e-11  Score=116.17  Aligned_cols=225  Identities=8%  Similarity=-0.044  Sum_probs=155.6

Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHhcCCHHHH
Q 004362          439 MGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCKQL--KMEIAIEILNTMWSHGVTPDVITYN-SLLNGLCKAAKSEDV  515 (759)
Q Consensus       439 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a  515 (759)
                      .+.+++|..+++.+.+.. +.+...|..+..++...+  ++++|...+.++..... ++...+. .....+...+.+++|
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHH
Confidence            444667777777776653 335566666666665554  47788888888776532 2455543 344566667888888


Q ss_pred             HHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHc
Q 004362          516 METFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQ  595 (759)
Q Consensus       516 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  595 (759)
                      +..++.+++.+ +-+...|..++.++...|++++|...++...+.  .|.   .......+...+..+++...+......
T Consensus       164 l~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~  237 (334)
T d1dcea1         164 LAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLG  237 (334)
T ss_dssp             HHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHS
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHh
Confidence            88888877764 335667777888888888777766555544432  111   112233445567778888888888777


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 004362          596 YKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLST  674 (759)
Q Consensus       596 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  674 (759)
                        .|++...+..++..+...|++.+|+..+.+..+.  .|+ ..+|..++.++...|++++|+.+++++++  ++|+...
T Consensus       238 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~  311 (334)
T d1dcea1         238 --RAEPLFRCELSVEKSTVLQSELESCKELQELEPE--NKWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAA  311 (334)
T ss_dssp             --CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHH
T ss_pred             --CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHH
Confidence              6777777788888888888888888888888754  454 67788888888888999999999999988  8887655


Q ss_pred             HHH
Q 004362          675 IGR  677 (759)
Q Consensus       675 ~~~  677 (759)
                      ++.
T Consensus       312 y~~  314 (334)
T d1dcea1         312 YLD  314 (334)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.23  E-value=4.6e-09  Score=103.21  Aligned_cols=269  Identities=11%  Similarity=0.006  Sum_probs=196.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHH
Q 004362          432 VINGLCKMGCVSDANNLVNDAISKGYIPD----IFTFNTLIDGYCKQLKMEIAIEILNTMWSHGV-TPD----VITYNSL  502 (759)
Q Consensus       432 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~l  502 (759)
                      ....+...|++++|..++++........+    ...+..+...|...|++++|...|++...... .++    ...+..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            34567789999999999999988642222    23567778899999999999999998875311 111    3345667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc----CCCCC---hhcHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCccHHHHHH
Q 004362          503 LNGLCKAAKSEDVMETFKTMIEK----RCVPN---IITYSILGESLCKAHKITEAFNLLEEMENK----GLTLDTVAFGT  571 (759)
Q Consensus       503 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~  571 (759)
                      ...+...|++..+...+......    ...+.   ...+..++..+...|+++.+...+......    +.......+..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            77888999999999999887652    11111   124556778889999999999999988764    22233455666


Q ss_pred             HHHHHHccCChhhHHHHHHHHHHccCCCC-----chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HhhHHHH
Q 004362          572 LINGFCNSGDLDGAYQLFRRMEDQYKISH-----TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD---NYTYRIM  643 (759)
Q Consensus       572 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l  643 (759)
                      ....+...|++..+...+...........     ....+..++..+...|++++|...+++..+.....+   ...+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            77788889999999999888765432211     234566677888899999999999999875432222   3456678


Q ss_pred             HHHHHhcCChHHHHHHHHHHHh----CCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          644 IDSFCKTGGINSGYCLLLENID----KGFIPSLS-TIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       644 ~~~~~~~g~~~~A~~~~~~~~~----~g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +.++...|++++|...+++++.    .+..|+.. .+..+...+...|++++|.+.++++.+
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8899999999999999999874    24555543 344556666899999999999999876

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.22  E-value=2.6e-09  Score=101.86  Aligned_cols=186  Identities=13%  Similarity=0.097  Sum_probs=112.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHH
Q 004362          477 MEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEE  556 (759)
Q Consensus       477 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  556 (759)
                      .++|..+|++.++...+.+...|...+......|+.+.|..+|+++++.........|...+..+.+.|+.+.|..+|+.
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            35555566665544333344555555566666666666666666665542222223455666666666666666666666


Q ss_pred             HHHCCCCccHHHHHHHHHH-HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CC
Q 004362          557 MENKGLTLDTVAFGTLING-FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKG-CP  634 (759)
Q Consensus       557 ~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  634 (759)
                      +++. .+.+...|...+.. +...|+.+.|..+|+.+...  .|.++..|...+..+...|+.+.|..+|+++++.. .+
T Consensus       160 al~~-~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         160 ARED-ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHTS-TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHh-CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            6654 23344444444333 23456777777777777766  66677777777777777777777777777776542 23


Q ss_pred             CC--HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          635 PD--NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       635 p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      |+  ...|...+..-...|+.+.+..+++++.+
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            32  34566666666677777777777777766

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.18  E-value=1.7e-10  Score=112.02  Aligned_cols=230  Identities=9%  Similarity=-0.033  Sum_probs=103.3

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCChHHHH
Q 004362          370 GDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQG--LILQALQLMNEMSESGCCPDMWTYN-IVINGLCKMGCVSDAN  446 (759)
Q Consensus       370 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~  446 (759)
                      |++++|+.+++.+.+..++ +...|..+..++...+  ++++|+..+.++..... ++...+. .....+...+.+++|.
T Consensus        87 ~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          87 ALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHHH
Confidence            3455566666666555444 5555555555544443  35566666666555421 2233332 2223444455555666


Q ss_pred             HHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          447 NLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSEDVMETFKTMIEKR  526 (759)
Q Consensus       447 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  526 (759)
                      ..++.++... +.+...|+.+...+...|++++|...+......  .|+   .......+...+..+++...+.......
T Consensus       165 ~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~  238 (334)
T d1dcea1         165 AFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (334)
T ss_dssp             HHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC
Confidence            5555555443 234555555555555555555544433332221  011   0111122233344444444444444432


Q ss_pred             CCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHH
Q 004362          527 CVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYN  606 (759)
Q Consensus       527 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  606 (759)
                       +++...+..++..+...+++++|...+.+.... .+.+...+..++.+|...|++++|++.|+++.+.  .|.....|.
T Consensus       239 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~  314 (334)
T d1dcea1         239 -AEPLFRCELSVEKSTVLQSELESCKELQELEPE-NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLD  314 (334)
T ss_dssp             -CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHH
T ss_pred             -cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHH
Confidence             223333333444444444445555544444433 1223334444444444555555555555555444  444444444


Q ss_pred             HHHHH
Q 004362          607 IMINA  611 (759)
Q Consensus       607 ~l~~~  611 (759)
                      .+...
T Consensus       315 ~L~~~  319 (334)
T d1dcea1         315 DLRSK  319 (334)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44333

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.17  E-value=5.9e-10  Score=103.82  Aligned_cols=127  Identities=10%  Similarity=-0.101  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHH
Q 004362          498 TYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFC  577 (759)
Q Consensus       498 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  577 (759)
                      ++..+..+|.+.|++++|+..|++.++.. +-++.++..++.++...|++++|+..|+++++. .|.+..++..++.+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~-~p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL-DPTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH-HhhhhhhHHHHHHHHH
Confidence            44445555555666666666666655542 224445555555555666666666666555554 2233445555555555


Q ss_pred             ccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          578 NSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEM  628 (759)
Q Consensus       578 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  628 (759)
                      ..|++++|+..|+...+.  .|.+......+..++...+..+.+..+....
T Consensus       117 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  165 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            556666666666555555  4444444444444444444444443333333

>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=99.03  E-value=3.7e-09  Score=83.41  Aligned_cols=108  Identities=12%  Similarity=0.051  Sum_probs=90.2

Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh
Q 004362          570 GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK  649 (759)
Q Consensus       570 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  649 (759)
                      ..-+..+...|++++|+..|++++..  .|.++.+|..++.+|...|++++|+..++++++.. +.++..|..++.++..
T Consensus         7 ~~~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~   83 (117)
T d1elwa_           7 KEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEF   83 (117)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHH
Confidence            34466778889999999999999888  88899999999999999999999999999998764 4458889999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          650 TGGINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       650 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      .|++++|+..|+++++  +.|+++.+...+..+
T Consensus        84 ~~~~~~A~~~~~~a~~--~~p~~~~~~~~l~~l  114 (117)
T d1elwa_          84 LNRFEEAKRTYEEGLK--HEANNPQLKEGLQNM  114 (117)
T ss_dssp             TTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            9999999999999998  888877665554433

>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=98.92  E-value=5.2e-09  Score=98.69  Aligned_cols=161  Identities=8%  Similarity=-0.081  Sum_probs=85.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC----CCCc-cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC----chhhHHHH
Q 004362          538 GESLCKAHKITEAFNLLEEMENK----GLTL-DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH----TTATYNIM  608 (759)
Q Consensus       538 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~~l  608 (759)
                      +..|...+++++|...|.++.+.    +.++ ...+|..++.+|.+.|++++|+..++++........    ...++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            34455666666666666665542    1111 123556666666666666666666666554321111    13344455


Q ss_pred             HHHHHh-cCCHHHHHHHHHHHHHc----CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-------HH-
Q 004362          609 INAFSE-KLNFYMAEKLFYEMSEK----GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL-------ST-  674 (759)
Q Consensus       609 ~~~~~~-~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-------~~-  674 (759)
                      +.+|.. .|++++|++.|+++.+.    +.++. ..++..++..+...|++++|+.+|++++.  ..|+.       .. 
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~--~~~~~~~~~~~~~~~  201 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIK--SSMGNRLSQWSLKDY  201 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTSSCTTTGGGHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHH--hCccchhhhhhHHHH
Confidence            555533 46677777776665432    11111 34456666667777777777777777665  22211       11 


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          675 IGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       675 ~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +...+.++...|+++.|.+.+++..+
T Consensus       202 ~~~~~~~~l~~~d~~~A~~~~~~~~~  227 (290)
T d1qqea_         202 FLKKGLCQLAATDAVAAARTLQEGQS  227 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            11222233456777777777766654

>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=98.92  E-value=1.2e-08  Score=85.86  Aligned_cols=121  Identities=11%  Similarity=-0.013  Sum_probs=97.6

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHH
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFC  648 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  648 (759)
                      +...+..|.+.|++++|+..|+++.+.  .|.+...|..++.+|...|++++|+..|+++++.. +.+..+|..++.++.
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~   89 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHH
Confidence            344566788999999999999999998  89999999999999999999999999999999763 334789999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---HhcCcHHHHHHH
Q 004362          649 KTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL---CVDHRVHEAVGF  694 (759)
Q Consensus       649 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~---~~~g~~~~A~~~  694 (759)
                      ..|++++|+..++++++  +.|++......+..+   ...+.+++|...
T Consensus        90 ~~g~~~eA~~~~~~a~~--~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          90 ALGKFRAALRDYETVVK--VKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999  788766554433322   344556666543

>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=98.88  E-value=5.8e-08  Score=84.27  Aligned_cols=125  Identities=10%  Similarity=-0.025  Sum_probs=92.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCC
Q 004362          538 GESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLN  617 (759)
Q Consensus       538 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  617 (759)
                      +..+...|++++|++.|.++    .++++.+|..++.+|...|++++|++.|+++++.  .|.++.+|..++.++...|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhcc
Confidence            44456777888887777653    3456777778888888888888888888888887  77788888888888888888


Q ss_pred             HHHHHHHHHHHHHcCCCCC----------------HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 004362          618 FYMAEKLFYEMSEKGCPPD----------------NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS  671 (759)
Q Consensus       618 ~~~A~~~~~~~~~~~~~p~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  671 (759)
                      +++|+..|+++++.. +++                ..++..++.++...|++++|...+.++++  +.|+
T Consensus        86 ~~~A~~~~~kAl~~~-~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~--~~~~  152 (192)
T d1hh8a_          86 YDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS--MKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCS
T ss_pred             HHHHHHHHHHHHHhC-ccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCC
Confidence            888888888876531 111                24556677778888888888888888887  5565

>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=98.85  E-value=5.6e-08  Score=84.34  Aligned_cols=120  Identities=13%  Similarity=0.012  Sum_probs=101.3

Q ss_pred             HHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcC
Q 004362          573 INGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTG  651 (759)
Q Consensus       573 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  651 (759)
                      +..+...|++++|++.|..+     .++++.+|..++.+|...|++++|++.|+++++.  .|+ ...|..++.+|.+.|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhc
Confidence            55677899999999999764     4567889999999999999999999999999976  455 889999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCC-----------------HHHHHHHHHHHHhcCcHHHHHHHHHHHHHC
Q 004362          652 GINSGYCLLLENIDKGFIPS-----------------LSTIGRVINCLCVDHRVHEAVGFVHLMVQK  701 (759)
Q Consensus       652 ~~~~A~~~~~~~~~~g~~p~-----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  701 (759)
                      ++++|+..|+++++.  .|.                 ...++.+..++...|++++|.+.++++...
T Consensus        85 ~~~~A~~~~~kAl~~--~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          85 KYDLAIKDLKEALIQ--LRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             CHHHHHHHHHHHHHT--TTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHHh--CccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            999999999999872  221                 244556677778999999999999998873

>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=98.84  E-value=6.4e-09  Score=81.99  Aligned_cols=109  Identities=10%  Similarity=0.003  Sum_probs=89.4

Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCC-HhhHHHHHH
Q 004362          570 GTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKL---NFYMAEKLFYEMSEKGCPPD-NYTYRIMID  645 (759)
Q Consensus       570 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~  645 (759)
                      ..++..+...+++++|.+.|+++...  .|+++.++..++.++.+.+   ++++|+.+++++++.+..|+ ..+|..++.
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            45677888889999999999999998  8999999999999998754   45679999999986542233 347888999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          646 SFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       646 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      +|...|++++|+.+|+++++  +.|++.....+...+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~--~~P~~~~A~~l~~~I  115 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQ--TEPQNNQAKELERLI  115 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHH--hCcCCHHHHHHHHHH
Confidence            99999999999999999999  889877666655443

>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=98.81  E-value=7.3e-08  Score=75.69  Aligned_cols=106  Identities=14%  Similarity=0.085  Sum_probs=87.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK  615 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  615 (759)
                      .-+..+...|++++|+.+|+++++. .|.+...|..+..+|...|++++|+..+.++...  .|.++..|..++.++...
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~-~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKL-DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc-CCcchhhhhcccccccccccccccchhhhhHHHh--ccchhhHHHHHHHHHHHc
Confidence            3466778889999999999998886 4667888899999999999999999999999988  888999999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDS  646 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~  646 (759)
                      |++++|+..|+++.+.  .|+ +.++..+..+
T Consensus        85 ~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~l  114 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKH--EANNPQLKEGLQNM  114 (117)
T ss_dssp             TCHHHHHHHHHHHHTT--CTTCHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            9999999999999865  565 5555555443

>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=98.80  E-value=1.3e-08  Score=90.09  Aligned_cols=98  Identities=7%  Similarity=-0.111  Sum_probs=67.8

Q ss_pred             ccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHH
Q 004362          564 LDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRI  642 (759)
Q Consensus       564 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~  642 (759)
                      |+...+...+..|.+.|++++|+..|++++..  .|.++.+|..++.+|...|++++|+..|+++++  +.|+ ..+|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHH
Confidence            45555666666777777777777777777766  666777777777777777777777777777763  3454 666777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 004362          643 MIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       643 l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                      ++.+|...|++++|+..|+++++
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777777777777777665

>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=98.78  E-value=5.6e-08  Score=91.40  Aligned_cols=195  Identities=9%  Similarity=-0.039  Sum_probs=128.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc----CCCC-ChhcHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CCccHHHHHHH
Q 004362          503 LNGLCKAAKSEDVMETFKTMIEK----RCVP-NIITYSILGESLCKAHKITEAFNLLEEMENK----G-LTLDTVAFGTL  572 (759)
Q Consensus       503 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l  572 (759)
                      ...|...|++++|.+.|.++.+.    +-++ -..+|..++.+|.+.|++++|...+++....    + ......++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            45677778888888888777653    1111 2346777888888888898888888877652    1 11123456666


Q ss_pred             HHHHH-ccCChhhHHHHHHHHHHccC---C-CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH------hhHH
Q 004362          573 INGFC-NSGDLDGAYQLFRRMEDQYK---I-SHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDN------YTYR  641 (759)
Q Consensus       573 ~~~~~-~~g~~~~A~~~~~~~~~~~~---~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~------~~~~  641 (759)
                      +..|. ..|++++|+..|+++.+...   . +....++..++.++...|++++|++.|+++.........      ..+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            66674 46999999999998865421   1 112456788899999999999999999998865311111      2234


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH------HHHHHHHHHHh--cCcHHHHHHHHHHHH
Q 004362          642 IMIDSFCKTGGINSGYCLLLENIDKGFIPSLS------TIGRVINCLCV--DHRVHEAVGFVHLMV  699 (759)
Q Consensus       642 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~------~~~~l~~~~~~--~g~~~~A~~~~~~~~  699 (759)
                      ..+.++...|++..|...++++.+  +.|...      ....++.++..  .+.+++|+..|+++.
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~--~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHH--hCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            556677889999999999999988  666422      22333333322  345777777776654

>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=98.71  E-value=6.2e-06  Score=75.93  Aligned_cols=61  Identities=7%  Similarity=-0.088  Sum_probs=28.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHc
Q 004362          462 FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCK----AAKSEDVMETFKTMIEK  525 (759)
Q Consensus       462 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  525 (759)
                      ..+..|...+...+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......
T Consensus         3 ~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~   67 (265)
T d1ouva_           3 KELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL   67 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccc
Confidence            334444444445555555555555555443   33444444444433    33445555555554443

>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=98.69  E-value=2.3e-07  Score=77.77  Aligned_cols=121  Identities=9%  Similarity=-0.007  Sum_probs=95.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHH
Q 004362          534 YSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFS  613 (759)
Q Consensus       534 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  613 (759)
                      +...+..|.+.|++++|...|+++++. .|.+...|..+..+|...|++++|+..|+++++.  .|.+..+|..++.++.
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~   89 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIEL-NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhcccc-chhhhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHH
Confidence            334566788899999999999999987 3668888999999999999999999999999988  8889999999999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHH--HhcCChHHHHHH
Q 004362          614 EKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSF--CKTGGINSGYCL  659 (759)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~--~~~g~~~~A~~~  659 (759)
                      ..|++++|+..++++.+.  .|+ ...+..+..+.  ...+.+++|+..
T Consensus        90 ~~g~~~eA~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999876  454 55555554432  233445555443

>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=98.68  E-value=8.4e-08  Score=74.59  Aligned_cols=85  Identities=12%  Similarity=0.014  Sum_probs=36.5

Q ss_pred             HHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChH
Q 004362          575 GFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGIN  654 (759)
Q Consensus       575 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  654 (759)
                      .+.+.|++++|+..|+++...  .|.++.+|..++.++...|++++|+..|+++++.. |.+..+|..++.+|...|+++
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~  101 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  101 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHH
Confidence            344444444444444444444  34444444444444444444444444444444321 112444444444444444444


Q ss_pred             HHHHHHHH
Q 004362          655 SGYCLLLE  662 (759)
Q Consensus       655 ~A~~~~~~  662 (759)
                      +|++.+++
T Consensus       102 ~A~~~l~~  109 (112)
T d1hxia_         102 AALASLRA  109 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444443

>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=98.64  E-value=2.1e-07  Score=81.98  Aligned_cols=100  Identities=9%  Similarity=-0.067  Sum_probs=88.7

Q ss_pred             CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHH
Q 004362           37 KHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNT  116 (759)
Q Consensus        37 ~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  116 (759)
                      +|+...+...+..|.+.|++++|+..|..++..+|.  +..+|..++.+|.+.|++++|+..|+++.... +.++.+|..
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~--~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~   77 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL--VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFF   77 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHH
Confidence            467788888999999999999999999999999988  88899999999999999999999999998665 456788999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHH
Q 004362          117 IMNILVEYGYFSQVHKVYMRMRN  139 (759)
Q Consensus       117 l~~~~~~~~~~~~a~~~~~~~~~  139 (759)
                      ++.+|...|++++|+..|.++.+
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999998876

>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=98.63  E-value=1.8e-05  Score=72.66  Aligned_cols=220  Identities=11%  Similarity=-0.007  Sum_probs=101.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004362          429 YNIVINGLCKMGCVSDANNLVNDAISKGYIPDIFTFNTLIDGYCK----QLKMEIAIEILNTMWSHGVTPDVITYNSLLN  504 (759)
Q Consensus       429 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  504 (759)
                      +..+...+...+++++|.++|++..+.|   +...+..|...|..    ..+...|...+......+   +......+..
T Consensus         5 ~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~   78 (265)
T d1ouva_           5 LVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGN   78 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhcccc
Confidence            3334444444455555555555554443   33334444444443    345555555555555443   2233333333


Q ss_pred             HHHh----cCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHH
Q 004362          505 GLCK----AAKSEDVMETFKTMIEKRCVPNIITYSILGESLCK----AHKITEAFNLLEEMENKGLTLDTVAFGTLINGF  576 (759)
Q Consensus       505 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  576 (759)
                      .+..    ..+.+.|...++...+.|.   ......+...+..    ......+...+......   .+...+..+...|
T Consensus        79 ~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~  152 (265)
T d1ouva_          79 LYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLY  152 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhh
Confidence            3222    2344555555555554431   1122222222221    22344455555554443   2344444555555


Q ss_pred             Hc----cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHH
Q 004362          577 CN----SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE----KLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFC  648 (759)
Q Consensus       577 ~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  648 (759)
                      ..    ..+...+...++...+.    .++.+...++..|..    ..++++|+.+|++..+.|   ++..+..|+..|.
T Consensus       153 ~~~~~~~~~~~~~~~~~~~a~~~----g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~  225 (265)
T d1ouva_         153 DAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQY  225 (265)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             ccCCCcccccccchhhhhccccc----cccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHH
Confidence            43    23344555555554433    244555555555554    345666666666665543   3344455555554


Q ss_pred             h----cCChHHHHHHHHHHHhCC
Q 004362          649 K----TGGINSGYCLLLENIDKG  667 (759)
Q Consensus       649 ~----~g~~~~A~~~~~~~~~~g  667 (759)
                      .    ..++++|..+|+++.+.|
T Consensus       226 ~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         226 NGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             TTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cCCCCccCHHHHHHHHHHHHHCc
Confidence            3    235666666666666543

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=6.3e-07  Score=75.77  Aligned_cols=77  Identities=6%  Similarity=-0.049  Sum_probs=63.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      .+|+.++.+|.+.|++++|+..++++++.. |.+..+|..++.+|...|++++|+..|+++++  +.|++......+..+
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~P~n~~~~~~l~~~  139 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPNNKAAKTQLAVC  139 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            457778899999999999999999998763 33588899999999999999999999999999  888776665555444

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.56  E-value=1.4e-07  Score=77.18  Aligned_cols=116  Identities=9%  Similarity=-0.009  Sum_probs=85.9

Q ss_pred             HHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc----------CCHHHHHHHHHHHHHcCCCCC-HhhHHHHH
Q 004362          576 FCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK----------LNFYMAEKLFYEMSEKGCPPD-NYTYRIMI  644 (759)
Q Consensus       576 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~  644 (759)
                      |.+.+.+++|+..|+.+.+.  .|.++.++..++.++...          +.+++|+..|+++++.  .|+ ..+|..++
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHH
Confidence            34556678888888888877  788888888888777643          4457888888888865  454 78888888


Q ss_pred             HHHHhcC-----------ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCC
Q 004362          645 DSFCKTG-----------GINSGYCLLLENIDKGFIPSLSTIGRVINCLCVDHRVHEAVGFVHLMVQKGI  703 (759)
Q Consensus       645 ~~~~~~g-----------~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  703 (759)
                      .+|...|           ++++|...|+++++  +.|++..+...+..      ..+|.+++.++.++|+
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~------~~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEM------TAKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHH------HHTHHHHHHHHHHSSS
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHH------HHHHHHHHHHHHHHhc
Confidence            8887654           36889999999999  88988876655443      3567777777777664

>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=98.56  E-value=4.3e-07  Score=72.51  Aligned_cols=101  Identities=12%  Similarity=0.098  Sum_probs=77.7

Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H-------hhH
Q 004362          569 FGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-N-------YTY  640 (759)
Q Consensus       569 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~-------~~~  640 (759)
                      +..+...|.+.|++++|+..|.++++.  .|.+..++..++.+|...|++++|+..++++++.  .|+ .       .+|
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l--~~~~~~~~~~~a~~~   82 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEV--GRENREDYRQIAKAY   82 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            456677788888888888888888888  7888888888888888888888888888887753  222 2       356


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          641 RIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       641 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      ..++..+...+++++|+.+|++.+.  ..|+....
T Consensus        83 ~~lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~  115 (128)
T d1elra_          83 ARIGNSYFKEEKYKDAIHFYNKSLA--EHRTPDVL  115 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HCCCHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHh--cCCCHHHH
Confidence            6677777888888888888888887  55665443

>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=98.55  E-value=3.1e-07  Score=71.26  Aligned_cols=95  Identities=14%  Similarity=-0.061  Sum_probs=84.5

Q ss_pred             hcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHH
Q 004362          532 ITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINA  611 (759)
Q Consensus       532 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  611 (759)
                      ......+..+.+.|++++|+..++++++. .|.+..+|..++.++.+.|++++|+..|+++.+.  .|.+..+|..++.+
T Consensus        17 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~-~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~   93 (112)
T d1hxia_          17 ENPMEEGLSMLKLANLAEAALAFEAVCQK-EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVS   93 (112)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHhhhccc-ccccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHH
Confidence            34556778888999999999999999986 3557889999999999999999999999999998  89999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 004362          612 FSEKLNFYMAEKLFYEMS  629 (759)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~  629 (759)
                      |...|++++|++.+++.+
T Consensus        94 y~~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          94 HTNEHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHh
Confidence            999999999999998864

>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=98.51  E-value=1.7e-06  Score=72.99  Aligned_cols=94  Identities=6%  Similarity=-0.103  Sum_probs=70.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINCL  682 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  682 (759)
                      .+|..++.+|...|++++|+..++++++.. |.+..+|..++.++...|++++|+..|+++++  +.|++......+..+
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l~~~  141 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQIFMC  141 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            457778889999999999999999998763 44588899999999999999999999999999  888877665555444


Q ss_pred             -HhcCcHH-HHHHHHHHHH
Q 004362          683 -CVDHRVH-EAVGFVHLMV  699 (759)
Q Consensus       683 -~~~g~~~-~A~~~~~~~~  699 (759)
                       ...+... ...+.+.+|-
T Consensus       142 ~~~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         142 QKKAKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHH
Confidence             3333332 3344444443

>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=98.47  E-value=1.6e-06  Score=71.68  Aligned_cols=76  Identities=7%  Similarity=-0.057  Sum_probs=62.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004362          603 ATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVINC  681 (759)
Q Consensus       603 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~  681 (759)
                      .+|..++.+|.+.|++++|++.++++++.. |.+..+|..++.++...|++++|+..|+++++  +.|++......+..
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~~~~~l~~  143 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSYEL  143 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            467788899999999999999999988763 33588999999999999999999999999999  88877666544443

>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=98.47  E-value=4e-07  Score=72.67  Aligned_cols=95  Identities=16%  Similarity=0.126  Sum_probs=76.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH--------HHH
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL--------STI  675 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~--------~~~  675 (759)
                      .+..++..+...|++++|+..|+++++.+ |.+..+|..++.+|...|++++|+..++++++  +.|+.        .++
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~--l~~~~~~~~~~~a~~~   82 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE--VGRENREDYRQIAKAY   82 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH--hCcccHHHHHHHHHHH
Confidence            45678899999999999999999999764 44588999999999999999999999999997  55532        234


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHC
Q 004362          676 GRVINCLCVDHRVHEAVGFVHLMVQK  701 (759)
Q Consensus       676 ~~l~~~~~~~g~~~~A~~~~~~~~~~  701 (759)
                      ..+...+...+++++|++++++....
T Consensus        83 ~~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            45556667788899999888887663

>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=98.47  E-value=5e-07  Score=70.83  Aligned_cols=96  Identities=17%  Similarity=0.094  Sum_probs=79.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC---ChHHHHHHHHHHHhCCCCCCHH---HHHHHH
Q 004362          606 NIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTG---GINSGYCLLLENIDKGFIPSLS---TIGRVI  679 (759)
Q Consensus       606 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~g~~p~~~---~~~~l~  679 (759)
                      ..+++.+...+++++|.+.|+++++.+ +.++.++..++.++.+++   ++++|+.+++++++  ..|++.   .++.+.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~--~~~~~~~~~~~~~Lg   79 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLP--KGSKEEQRDYVFYLA   79 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTT--TSCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHh--ccCCchHHHHHHHHH
Confidence            457778888999999999999999774 556899999999998755   45579999999998  555443   566788


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHCCCCCc
Q 004362          680 NCLCVDHRVHEAVGFVHLMVQKGIVPE  706 (759)
Q Consensus       680 ~~~~~~g~~~~A~~~~~~~~~~~~~p~  706 (759)
                      .++.+.|++++|++.++++++  +.|+
T Consensus        80 ~~y~~~g~~~~A~~~~~~aL~--~~P~  104 (122)
T d1nzna_          80 VGNYRLKEYEKALKYVRGLLQ--TEPQ  104 (122)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HCTT
T ss_pred             HHHHHHhhhHHHHHHHHHHHH--hCcC
Confidence            888999999999999999998  6776

>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=98.39  E-value=4.3e-06  Score=70.45  Aligned_cols=83  Identities=10%  Similarity=-0.035  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMID  645 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~  645 (759)
                      .+|..+..+|.+.|++++|+..++.++..  .|.++.+|..++.+|...|++++|+..|+++++.  .|+ ..+...+..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~--~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l~~  138 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAV  138 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhc--cccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            35677888999999999999999999998  8999999999999999999999999999999975  464 666666655


Q ss_pred             HHHhcCCh
Q 004362          646 SFCKTGGI  653 (759)
Q Consensus       646 ~~~~~g~~  653 (759)
                      +..+.+..
T Consensus       139 ~~~~~~~~  146 (170)
T d1p5qa1         139 CQQRIRRQ  146 (170)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            54444433

>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=98.36  E-value=2.1e-06  Score=72.50  Aligned_cols=78  Identities=9%  Similarity=-0.048  Sum_probs=63.9

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 004362          599 SHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGR  677 (759)
Q Consensus       599 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  677 (759)
                      |.....|..++.++...|++++|+..++++++.  .|+ ..+|..++.++...|++++|+..|+++++  +.|++.....
T Consensus        74 ~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~--~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~--l~p~n~~~~~  149 (169)
T d1ihga1          74 PVALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTKALYRRAQGWQGLKEYDQALADLKKAQE--IAPEDKAIQA  149 (169)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHH
T ss_pred             hhhHHHHHHHHHHHHhhcccchhhhhhhhhhhh--hhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHH
Confidence            445667888899999999999999999999865  455 88899999999999999999999999999  8887665544


Q ss_pred             HHH
Q 004362          678 VIN  680 (759)
Q Consensus       678 l~~  680 (759)
                      .+.
T Consensus       150 ~l~  152 (169)
T d1ihga1         150 ELL  152 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>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=98.25  E-value=3.2e-07  Score=93.21  Aligned_cols=135  Identities=11%  Similarity=-0.001  Sum_probs=77.7

Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHH
Q 004362          510 AKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLF  589 (759)
Q Consensus       510 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  589 (759)
                      +.++.++..++...+.. +++...+..++..+.+.|+.++|...+.......   ...++..++..+...|++++|+..|
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHH
Confidence            34444444444433322 2345566677777777888888877777665421   2356777888888889999999999


Q ss_pred             HHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcC
Q 004362          590 RRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTG  651 (759)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  651 (759)
                      +++...  .|++...|+.++.++...|+..+|+..|.+.+... +|.+.++..|...+.+..
T Consensus       176 ~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         176 RHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhh
Confidence            999888  88888999999999999999999999999888653 555788888877765543

>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=98.24  E-value=9e-06  Score=68.32  Aligned_cols=94  Identities=14%  Similarity=-0.049  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHH
Q 004362          567 VAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMID  645 (759)
Q Consensus       567 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~  645 (759)
                      .+|..+..+|.+.|++++|+..++.+...  .|.+..+|..++.++...|++++|+..|+++++.  .|+ ..+...+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~  140 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGL--DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFM  140 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhc--ccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            34667888899999999999999999998  8999999999999999999999999999999965  454 666666666


Q ss_pred             HHHhcCChH-HHHHHHHHHH
Q 004362          646 SFCKTGGIN-SGYCLLLENI  664 (759)
Q Consensus       646 ~~~~~g~~~-~A~~~~~~~~  664 (759)
                      +....+... .....+.+|.
T Consensus       141 ~~~~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         141 CQKKAKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHH
Confidence            555544433 3444554444

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.22  E-value=0.0017  Score=60.06  Aligned_cols=135  Identities=11%  Similarity=0.022  Sum_probs=70.5

Q ss_pred             CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHH
Q 004362           38 HTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTI  117 (759)
Q Consensus        38 ~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  117 (759)
                      |+..-...++..|.+.|.++.|..+|..+..          +..++..+.+.+++..|.+++.+..      +..+|..+
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d----------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~   75 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN----------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEV   75 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC----------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC----------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHH
Confidence            3444455566777777777777777764332          4455666677777777777766543      45567777


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhc
Q 004362          118 MNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEE  194 (759)
Q Consensus       118 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  194 (759)
                      ...+.+......+     .+.......++.....++..|-..|.++....+++...... +.+...++.++..|++.
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            7777766554433     12222223344445566666777777777777777655432 34556666666666554

>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=98.21  E-value=8.3e-06  Score=68.74  Aligned_cols=82  Identities=10%  Similarity=-0.039  Sum_probs=69.1

Q ss_pred             cHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHH
Q 004362          565 DTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIM  643 (759)
Q Consensus       565 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l  643 (759)
                      ....+..+..+|.+.|++++|+..++++++.  .|.++.+|..++.+|...|++++|+..|+++++.  .|+ ..+...+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~--~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l  151 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAEL  151 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhh--hhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            4556778889999999999999999999998  8999999999999999999999999999999976  454 6666666


Q ss_pred             HHHHHhc
Q 004362          644 IDSFCKT  650 (759)
Q Consensus       644 ~~~~~~~  650 (759)
                      ..+..+.
T Consensus       152 ~~~~~~l  158 (169)
T d1ihga1         152 LKVKQKI  158 (169)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6554443

>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=98.19  E-value=1.6e-05  Score=65.39  Aligned_cols=126  Identities=8%  Similarity=-0.010  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHH
Q 004362          497 ITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGF  576 (759)
Q Consensus       497 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  576 (759)
                      ..+..-+..+.+.|++.+|+..|++.+..-  +.....           . +....  ....    +....++..++.+|
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~~~-----------~-~~~~~--~~~~----~~~~~~~~Nla~~~   77 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEW-----------D-DQILL--DKKK----NIEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTC-----------C-CHHHH--HHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cchhhh-----------h-hHHHH--Hhhh----hHHHHHHhhHHHHH
Confidence            344555566677777777777777776531  100000           0 00000  0000    01234677888999


Q ss_pred             HccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHH
Q 004362          577 CNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDS  646 (759)
Q Consensus       577 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~  646 (759)
                      .+.|++++|++.++.++..  .|.+..+|..++.++...|++++|+..|+++++.  .|+ ..+...+..+
T Consensus        78 ~~l~~~~~Al~~~~~al~~--~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~~~~~~l~~~  144 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKI--DKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELC  144 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHH
T ss_pred             HHhcccchhhhhhhccccc--cchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            9999999999999999998  8999999999999999999999999999999976  565 5555555443

>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=98.17  E-value=1.2e-06  Score=89.00  Aligned_cols=222  Identities=9%  Similarity=-0.092  Sum_probs=116.6

Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHH
Q 004362          444 DANNLVNDAISKGYIPDIFTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVI-TYNSLLNGLCKAAKSEDVMETFKTM  522 (759)
Q Consensus       444 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~  522 (759)
                      +|.+.|+++.... +.....+..+..+|...+++++|   |++++..  .|+.. ..+..  ...-...+..+++.++..
T Consensus         4 eA~q~~~qA~~l~-p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~e--~~Lw~~~y~~~ie~~r~~   75 (497)
T d1ya0a1           4 QSAQYLRQAEVLK-ADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKVE--QDLWNHAFKNQITTLQGQ   75 (497)
T ss_dssp             HHHHHHHHHHHHH-GGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTHH--HHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhHH--HHHHHHHHHHHHHHHHHh
Confidence            4666676666531 11233344455556666666654   5665543  22211 11111  011111244566677766


Q ss_pred             HHcCCCCChhcHHHHH--HHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCC
Q 004362          523 IEKRCVPNIITYSILG--ESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISH  600 (759)
Q Consensus       523 ~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  600 (759)
                      .+....++........  ......+.++.++..++...+. .+++...+..+...+.+.|+.++|...++.....  .  
T Consensus        76 ~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~--  150 (497)
T d1ya0a1          76 AKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNV-DLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--I--  150 (497)
T ss_dssp             HSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHH--H--
T ss_pred             cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--C--
Confidence            6553333333222211  1222344555565555554443 2345666788888899999999999998887654  2  


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHH
Q 004362          601 TTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPS-LSTIGRV  678 (759)
Q Consensus       601 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l  678 (759)
                      ...++..++.++...|++++|+..|+++.+.  .|+ ...|+.|+..+...|+..+|+.+|.+++.  +.|. ...+..+
T Consensus       151 ~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~--~~~~~~~a~~nL  226 (497)
T d1ya0a1         151 CQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA--VKFPFPAASTNL  226 (497)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS--SSBCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--CCCCCHHHHHHH
Confidence            2467888999999999999999999999976  565 88999999999999999999999999998  5554 4555555


Q ss_pred             HHHH
Q 004362          679 INCL  682 (759)
Q Consensus       679 ~~~~  682 (759)
                      ...+
T Consensus       227 ~~~~  230 (497)
T d1ya0a1         227 QKAL  230 (497)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5554

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.07  E-value=1.1e-05  Score=65.63  Aligned_cols=115  Identities=16%  Similarity=0.116  Sum_probs=76.4

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHc----------cCChhhHHHHHHHHHHccCCCCchhhHHHHHHHH
Q 004362          543 KAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCN----------SGDLDGAYQLFRRMEDQYKISHTTATYNIMINAF  612 (759)
Q Consensus       543 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  612 (759)
                      +.+.+++|+..|+.+++. -|.+..++..+..+|..          .+.+++|+..|+++.+.  .|.+..+|..++.+|
T Consensus         9 r~~~fe~A~~~~e~al~~-~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKS-NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhh-CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHHHHH
Confidence            344455666666666554 24455555555555543          24457899999999988  899999999999998


Q ss_pred             HhcC-----------CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 004362          613 SEKL-----------NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGF  668 (759)
Q Consensus       613 ~~~g-----------~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  668 (759)
                      ...|           ++++|.+.|+++++.  .|+...+...+..+      ..|..++.++.+.|+
T Consensus        86 ~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          86 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            7765           368899999999965  67755444333322      456667777666553

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.02  E-value=0.0053  Score=56.62  Aligned_cols=135  Identities=11%  Similarity=0.111  Sum_probs=59.3

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHH
Q 004362          109 PTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLI  188 (759)
Q Consensus       109 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~  188 (759)
                      ||..--..++..|.+.|.++.|..+|..+..         |..++..+.+.+++..|.+.+...      .+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            3433344455566666666666666654422         445555556666666665555432      1345555555


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc
Q 004362          189 AGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRK  264 (759)
Q Consensus       189 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  264 (759)
                      ..+.+.....-+     .+.......++.....++..|...|.+++...+++..... -..+...++.++..|++.
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTT
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHh
Confidence            555554443222     1222222233444445555566666666666666555432 133444555555555554

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.00  E-value=5.2e-06  Score=75.08  Aligned_cols=119  Identities=9%  Similarity=-0.060  Sum_probs=77.7

Q ss_pred             HccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHH
Q 004362          577 CNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINS  655 (759)
Q Consensus       577 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~  655 (759)
                      .+.|++++|+..+++.++.  .|.+...+..++.+|...|++++|+..++++.+.  .|+ ...+..+..++...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            4567888888888888777  7788888888888888888888888888887755  455 5566666666666665555


Q ss_pred             HHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          656 GYCLLLENIDKGFIPSLSTIG-RVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       656 A~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                      +.......... ..|+..... .....+...|+.++|.+.++++.+
T Consensus        83 a~~~~~~~~~~-~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          83 FAQGAATAKVL-GENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             HTTSCCCEECC-CSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcc-cCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            54433332221 123322222 223334677888888888888776

>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=97.96  E-value=0.00012  Score=61.50  Aligned_cols=123  Identities=8%  Similarity=-0.027  Sum_probs=72.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhc
Q 004362          536 ILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEK  615 (759)
Q Consensus       536 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  615 (759)
                      ..+......|++++|...|...+.. .+-+..         ......+-+...-..+...     ....+..++.++...
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l-~rG~~l---------~~~~~~~w~~~~r~~l~~~-----~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALRE-WRGPVL---------DDLRDFQFVEPFATALVED-----KVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT-CCSSTT---------GGGTTSTTHHHHHHHHHHH-----HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhh-Cccccc---------ccCcchHHHHHHHHHHHHH-----HHHHHHHHHHHHHHC
Confidence            3445566677777777777777664 111100         0001111111122222222     345666777777778


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCCCCHHH
Q 004362          616 LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENID-----KGFIPSLST  674 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~g~~p~~~~  674 (759)
                      |++++|+..++++++.. +-+...|..++.+|...|+.++|+..|+++.+     .|+.|+..+
T Consensus        81 g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          81 GRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            88888888888777653 33477777778888888888888877777643     367776553

>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=97.91  E-value=8.4e-06  Score=73.69  Aligned_cols=125  Identities=10%  Similarity=0.002  Sum_probs=86.7

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHH
Q 004362          542 CKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMA  621 (759)
Q Consensus       542 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  621 (759)
                      ...|++++|+..+++.++. .|.+...+..++..|+..|++++|...|+.+.+.  .|.+...+..+..++...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~-~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA-SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            4568888888888888876 4667788888888888888888888888888887  777777777777776655555544


Q ss_pred             HHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 004362          622 EKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSL  672 (759)
Q Consensus       622 ~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  672 (759)
                      ..-+.+....+ +|+ ...+...+..+...|+.++|...++++.+  ..|+.
T Consensus        84 ~~~~~~~~~~~-~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e--~~p~~  132 (264)
T d1zbpa1          84 AQGAATAKVLG-ENEELTKSLVSFNLSMVSQDYEQVSELALQIEE--LRQEK  132 (264)
T ss_dssp             TTSCCCEECCC-SCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCCCC
T ss_pred             HHHhhhhhccc-CchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh--cCCCC
Confidence            33322211111 222 34444455667778888888888888877  55643

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.91  E-value=0.00015  Score=60.85  Aligned_cols=125  Identities=7%  Similarity=-0.011  Sum_probs=90.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHcc
Q 004362          500 NSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLTLDTVAFGTLINGFCNS  579 (759)
Q Consensus       500 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  579 (759)
                      ..........|++++|.+.|...+..-  +....        ......+.+...-..+..    .....+..++.++...
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHC
Confidence            334456788999999999999998752  11110        000110111111111211    1345677889999999


Q ss_pred             CChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCCHhhH
Q 004362          580 GDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSEKLNFYMAEKLFYEMSE-----KGCPPDNYTY  640 (759)
Q Consensus       580 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~~  640 (759)
                      |++++|+..++++...  .|.+...|..++.+|...|+..+|++.|+++.+     .|+.|...+-
T Consensus        81 g~~~~Al~~~~~al~~--~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          81 GRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             CCchHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            9999999999999999  999999999999999999999999999999743     4889987653

>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=97.85  E-value=6.5e-05  Score=55.45  Aligned_cols=70  Identities=9%  Similarity=0.067  Sum_probs=49.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 004362          604 TYNIMINAFSEKLNFYMAEKLFYEMSEK-----GCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTI  675 (759)
Q Consensus       604 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  675 (759)
                      -+..++..+.+.|++++|+..|+++++.     ...++ ..++..|+.++.+.|++++|+..++++++  +.|+....
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~--l~P~~~~a   82 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEHQRA   82 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH--hCcCCHHH
Confidence            3456677777777777777777776543     11222 45778888888888888888888888888  77875543

>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=97.73  E-value=8.7e-05  Score=61.15  Aligned_cols=98  Identities=9%  Similarity=-0.042  Sum_probs=68.5

Q ss_pred             hhHHHH--HHHHHhcCCHHHHHHHHHHHHHcCC-CCC----------HhhHHHHHHHHHhcCChHHHHHHHHHHHhC---
Q 004362          603 ATYNIM--INAFSEKLNFYMAEKLFYEMSEKGC-PPD----------NYTYRIMIDSFCKTGGINSGYCLLLENIDK---  666 (759)
Q Consensus       603 ~~~~~l--~~~~~~~g~~~~A~~~~~~~~~~~~-~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  666 (759)
                      .+|..+  +..+...|++++|+..|+++++..- .|+          ..+|+.++.+|...|++++|+..++++++.   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            344444  4556667778888888877765310 111          357888899999999999999999998751   


Q ss_pred             --CCCCCHH-----HHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 004362          667 --GFIPSLS-----TIGRVINCLCVDHRVHEAVGFVHLMVQ  700 (759)
Q Consensus       667 --g~~p~~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~  700 (759)
                        ...|+..     .++.+..++...|++++|+..|+++++
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              1223222     345567777899999999999999876

>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=97.70  E-value=0.00015  Score=59.68  Aligned_cols=93  Identities=11%  Similarity=-0.081  Sum_probs=66.1

Q ss_pred             HHHHHccCChhhHHHHHHHHHHccCCCC----------chhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCCC-
Q 004362          573 INGFCNSGDLDGAYQLFRRMEDQYKISH----------TTATYNIMINAFSEKLNFYMAEKLFYEMSEK-----GCPPD-  636 (759)
Q Consensus       573 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~p~-  636 (759)
                      +..+...|++++|+..|++.++....-+          ...+|+.++.+|...|++++|+..+++.++.     ...++ 
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            4455566777777777777776422111          1356778888888888888888888887642     11222 


Q ss_pred             ----HhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 004362          637 ----NYTYRIMIDSFCKTGGINSGYCLLLENID  665 (759)
Q Consensus       637 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  665 (759)
                          ..+++.++.+|...|++++|+..|+++++
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                23567788999999999999999999886

>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=97.44  E-value=0.00066  Score=49.77  Aligned_cols=72  Identities=14%  Similarity=0.097  Sum_probs=36.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC------CCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHH
Q 004362          535 SILGESLCKAHKITEAFNLLEEMENK------GLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIM  608 (759)
Q Consensus       535 ~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  608 (759)
                      ..++..+.+.|++++|+..|+++++.      .......++..+..+|.+.|++++|+..++++++.  .|.++.+++.+
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~~~~a~~Nl   86 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcCCHHHHHHH
Confidence            34445555555555555555554432      00111334555555555555555555555555555  55555554444

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.96  E-value=0.012  Score=46.10  Aligned_cols=81  Identities=9%  Similarity=-0.054  Sum_probs=35.5

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCc
Q 004362          616 LNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCK----TGGINSGYCLLLENIDKGFIPSLSTIGRVINCLCV----DHR  687 (759)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~  687 (759)
                      .+.++|++++++..+.|   ++.....|+..|..    ..+.++|+.+|+++.+.|   +......+...+..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            34455555555554433   23333334443332    234555555555555532   22222333333321    235


Q ss_pred             HHHHHHHHHHHHHCC
Q 004362          688 VHEAVGFVHLMVQKG  702 (759)
Q Consensus       688 ~~~A~~~~~~~~~~~  702 (759)
                      .++|.++++++.+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            555555555555543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.91  E-value=0.013  Score=45.92  Aligned_cols=110  Identities=7%  Similarity=0.027  Sum_probs=64.7

Q ss_pred             CHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHHHHHHh----cCCHHHH
Q 004362          546 KITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMINAFSE----KLNFYMA  621 (759)
Q Consensus       546 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  621 (759)
                      ++++|..+|++..+.|.+   .....+.  .....+.++|+..+++..+.    .++.+...++..|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~----g~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhcc----cchhhhhhHHHhhhhccccchhhHHH
Confidence            445555555555554421   1122222  12335666777777776654    245566666666654    3467788


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHh----cCChHHHHHHHHHHHhCC
Q 004362          622 EKLFYEMSEKGCPPDNYTYRIMIDSFCK----TGGINSGYCLLLENIDKG  667 (759)
Q Consensus       622 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~g  667 (759)
                      .++|++..+.+   ++.....|+..|..    ..|.++|..+|+++.+.|
T Consensus        79 ~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          79 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            88888877664   34445556665554    457788888888887754

>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=96.60  E-value=0.01  Score=44.55  Aligned_cols=76  Identities=7%  Similarity=-0.008  Sum_probs=51.3

Q ss_pred             chhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 004362          601 TTATYNIMINAFSEKL---NFYMAEKLFYEMSEKGCPPD-NYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIG  676 (759)
Q Consensus       601 ~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  676 (759)
                      ...+-...++++.+..   +..+++.+++++.+.+ +.+ ..++..|+-+|.+.|++++|+.+++++++  +.|++.-..
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~qA~  110 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNKQVG  110 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcHHHH
Confidence            3455666677776543   4567777777777542 223 35677777788888888888888888888  778766554


Q ss_pred             HHH
Q 004362          677 RVI  679 (759)
Q Consensus       677 ~l~  679 (759)
                      .+.
T Consensus       111 ~L~  113 (124)
T d2pqrb1         111 ALK  113 (124)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.91  E-value=0.82  Score=44.07  Aligned_cols=389  Identities=8%  Similarity=-0.049  Sum_probs=189.0

Q ss_pred             hcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHh--CCChHHHHHHHHHHHhcCCC-CccHHHHHHHHHHHHhcCC
Q 004362           15 KHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGF--HGNFEEMENLLLEMRMDVDD-SLLEGVHIGVMRNYGRRGK   91 (759)
Q Consensus        15 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~   91 (759)
                      ..+++...+.+....+ +.  + | ...|...-.....  .....+....    +...|. +....+.......+.+.++
T Consensus        17 ~~~~~~~~~~~~~~~L-~d--y-p-L~pYl~~~~l~~~~~~~~~~~i~~F----l~~~p~~P~~~~lr~~~l~~L~~~~~   87 (450)
T d1qsaa1          17 WDNRQMDVVEQMMPGL-KD--Y-P-LYPYLEYRQITDDLMNQPAVTVTNF----VRANPTLPPARTLQSRFVNELARRED   87 (450)
T ss_dssp             HHTTCHHHHHHHSGGG-TT--S-T-THHHHHHHHHHHTGGGCCHHHHHHH----HHHCTTCHHHHHHHHHHHHHHHHTTC
T ss_pred             HHCCCHHHHHHHHhhh-cC--C-C-CHHHHHHHHHHhccccCCHHHHHHH----HHHCCCChhHHHHHHHHHHHHHhccC
Confidence            3677777777776664 22  2 2 2223333222222  3344443333    333433 1123344445666777777


Q ss_pred             hhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCCHHHHHHHHH----------------
Q 004362           92 VQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVHKVYMRMRNKGI-VPDVYTFVIRIK----------------  154 (759)
Q Consensus        92 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~----------------  154 (759)
                      ++..+..+.     ..+.+...-.....+....|+.+.|......+-..|. .|+  ....+..                
T Consensus        88 w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~--~c~~l~~~~~~~~~lt~~~~~~R  160 (450)
T d1qsaa1          88 WRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPN--ACDKLFSVWRASGKQDPLAYLER  160 (450)
T ss_dssp             HHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCT--HHHHHHHHHHHTTCSCHHHHHHH
T ss_pred             HHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCch--HHHHHHHHHHhcCCCCHHHHHHH
Confidence            766554432     1134555555667777778887777777666655432 222  2222222                


Q ss_pred             --HHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHh--cC
Q 004362          155 --SFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFDEMLGMGISPDIATFNKLIHTLCK--KG  230 (759)
Q Consensus       155 --~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g  230 (759)
                        .....|++..|..+...+...    ........+....   +...+......   .  .++......+..++.+  ..
T Consensus       161 ~~~~l~~~~~~~a~~l~~~l~~~----~~~~~~a~~~l~~---~p~~~~~~~~~---~--~~~~~~~~~~~~~l~rla~~  228 (450)
T d1qsaa1         161 IRLAMKAGNTGLVTVLAGQMPAD----YQTIASAIISLAN---NPNTVLTFART---T--GATDFTRQMAAVAFASVARQ  228 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHTCCGG----GHHHHHHHHHHHH---CGGGHHHHHHH---S--CCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCChhhHHHHHhhCChh----HHHHHHHHHHHHh---ChHhHHHHHhc---C--CCChhhhHHHHHHHHHHhcc
Confidence              233344444455444433221    1222233333222   22222222111   1  1222222222222222  24


Q ss_pred             ChhHHHHHHHHHhhCCCCCCHHHHHHHH----HHHHhcCCHHHHHHHHHHHhhCCCCCCcchHHHHHHHHHhCCChHHHH
Q 004362          231 NVRESEKLFNKVLKRGVSPNLFTFNMFI----QGLCRKGAISEAISLLDSLGREDLTPDVVTYNTLMCGLCKNSKVVEAE  306 (759)
Q Consensus       231 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  306 (759)
                      +.+.+..++......... +...+..+-    ......+..+.+...+......+  .+.....-.+......+++..+.
T Consensus       229 d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~~  305 (450)
T d1qsaa1         229 DAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLN  305 (450)
T ss_dssp             CHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             ChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHHH
Confidence            667777777766554222 222222222    22233456667777766665442  23333333444455667888887


Q ss_pred             HHHHHHHHCCCCCChhcHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004362          307 YYLHKMVNEGLEPDGFSYNAVIDGYCKAGMISSADKILNDAIFKGFVPDEFTYCSLINGLCQDGDVDRAMAVYVKALEKG  386 (759)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  386 (759)
                      ..+..|... ......-.--+.+++...|+.+.|...|..+...   ++  .|..|...-... .+.-        ....
T Consensus       306 ~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~--fYG~LAa~~Lg~-~~~~--------~~~~  370 (450)
T d1qsaa1         306 TWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYPMVAAQRIGE-EYEL--------KIDK  370 (450)
T ss_dssp             HHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHHHHHHHHTTC-CCCC--------CCCC
T ss_pred             HHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC--hHHHHHHHHcCC-CCCC--------CcCC
Confidence            777766432 1112223344567777888888888888876532   12  233322211111 0000        0000


Q ss_pred             CCC-CHH-----hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004362          387 LKP-SIV-----LYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKMGCVSDANNLVNDA  452 (759)
Q Consensus       387 ~~~-~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  452 (759)
                      +.. ...     .-...+..+...|....|...+..+...   .+......+.....+.|.++.|+......
T Consensus       371 ~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         371 APQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             CCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             CCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            000 000     0112345566788999998888877754   25556667777788889998888776654

>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=95.79  E-value=0.22  Score=36.54  Aligned_cols=66  Identities=18%  Similarity=0.150  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhcHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004362          497 ITYNSLLNGLCKAAKSEDVMETFKTMIEKRCVPNIITYSILGESLCKAHKITEAFNLLEEMENKGLT  563 (759)
Q Consensus       497 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  563 (759)
                      ......+....++|+-++-.++++.+.+. -+|++.....++.+|.+.|...++.+++.++-+.|.+
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            33444555566667777766777766654 3566666777777777777777777777777666543

>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=95.68  E-value=0.048  Score=40.74  Aligned_cols=71  Identities=8%  Similarity=-0.130  Sum_probs=57.5

Q ss_pred             CCCHhhHHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHHHHCCCCCchH
Q 004362          634 PPDNYTYRIMIDSFCKTGG---INSGYCLLLENIDKGFIPS--LSTIGRVINCLCVDHRVHEAVGFVHLMVQKGIVPEVV  708 (759)
Q Consensus       634 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  708 (759)
                      .|...|-..+++++.++.+   .++|+.+++++.+  ..|.  ...++.+.-++++.|++++|.++++++++  +.|+..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~--~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~  107 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYK--EAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNK  107 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcH
Confidence            3556788888999987754   5789999999998  5564  35677888888999999999999999998  778743

>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=94.74  E-value=0.51  Score=34.61  Aligned_cols=59  Identities=14%  Similarity=0.122  Sum_probs=29.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 004362          609 INAFSEKLNFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGF  668 (759)
Q Consensus       609 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  668 (759)
                      .+.+..+|+-+.-.++++.+.+.+ +|++.....++.+|.+-|+..++-.++.++-++|+
T Consensus        93 Ld~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          93 LDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            344444555555555555544432 45555555555555555555555555555555443

>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=94.05  E-value=2.7  Score=40.18  Aligned_cols=416  Identities=9%  Similarity=-0.026  Sum_probs=209.1

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcCChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcC
Q 004362           46 MIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRGKVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYG  125 (759)
Q Consensus        46 l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  125 (759)
                      .+.-..+.|++.++.++...+. ..|  +.+-+-..-+..........+...++++....  +.....-...+..+.+.+
T Consensus        12 ~a~~a~~~~~~~~~~~~~~~L~-dyp--L~pYl~~~~l~~~~~~~~~~~i~~Fl~~~p~~--P~~~~lr~~~l~~L~~~~   86 (450)
T d1qsaa1          12 QIKQAWDNRQMDVVEQMMPGLK-DYP--LYPYLEYRQITDDLMNQPAVTVTNFVRANPTL--PPARTLQSRFVNELARRE   86 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHSGGGT-TST--THHHHHHHHHHHTGGGCCHHHHHHHHHHCTTC--HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHhhhc-CCC--CHHHHHHHHHHhccccCCHHHHHHHHHHCCCC--hhHHHHHHHHHHHHHhcc
Confidence            3444568889998888877763 223  23333333344444556777777766665421  111222333456777888


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCChhhHHHHHhhchhCCCCCCHHhHHHHHHHHHhcCChhHHHHHHH
Q 004362          126 YFSQVHKVYMRMRNKGIVPDVYTFVIRIKSFCRTRRPHVALRLLKNMPSQGFEPNAVAYCTLIAGFYEENHNVEAYELFD  205 (759)
Q Consensus       126 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  205 (759)
                      +++..+..|.     ..+.+...-.....+....|+...|...+..+-..+ ...+..+.                .+|.
T Consensus        87 ~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~-~~~p~~c~----------------~l~~  144 (450)
T d1qsaa1          87 DWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACD----------------KLFS  144 (450)
T ss_dssp             CHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHH----------------HHHH
T ss_pred             CHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCCchHHH----------------HHHH
Confidence            8776554432     224456666667777888898888887776655443 22222333                3344


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC
Q 004362          206 EMLGMGISPDIATFNKLIHTLCKKGNVRESEKLFNKVLKRGVSPNLFTFNMFIQGLCRKGAISEAISLLDSLGREDLTPD  285 (759)
Q Consensus       206 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  285 (759)
                      .+.+.|. .+...+-.-+......|++..|..+...+-..    ........+....   +...+.......     .++
T Consensus       145 ~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~----~~~~~~a~~~l~~---~p~~~~~~~~~~-----~~~  211 (450)
T d1qsaa1         145 VWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPAD----YQTIASAIISLAN---NPNTVLTFARTT-----GAT  211 (450)
T ss_dssp             HHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGG----GHHHHHHHHHHHH---CGGGHHHHHHHS-----CCC
T ss_pred             HHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChh----HHHHHHHHHHHHh---ChHhHHHHHhcC-----CCC
Confidence            4443332 23333333344455556666666655432111    1222233333222   222222222211     222


Q ss_pred             cchHHHHHHHHHh--CCChHHHHHHHHHHHHCCCCCChhcHHHHHHHH----HHcCChhHHHHHHHHHHhCCCCCCcccH
Q 004362          286 VVTYNTLMCGLCK--NSKVVEAEYYLHKMVNEGLEPDGFSYNAVIDGY----CKAGMISSADKILNDAIFKGFVPDEFTY  359 (759)
Q Consensus       286 ~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~  359 (759)
                      ......+..++.+  ..+.+.+...+......... +...+..+-...    ...+..+.+...+......+  .+....
T Consensus       212 ~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~  288 (450)
T d1qsaa1         212 DFTRQMAAVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLI  288 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHH
T ss_pred             hhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHH
Confidence            2222222233222  34566676666666543211 222222222222    22355566666666555442  233333


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 004362          360 CSLINGLCQDGDVDRAMAVYVKALEKGLKPSIVLYNTLIKGLSQQGLILQALQLMNEMSESGCCPDMWTYNIVINGLCKM  439 (759)
Q Consensus       360 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  439 (759)
                      .-.+......+++..+...+..+... +.......--+..++...|+.+.|...|..+...   ++   |-..+.+ .+.
T Consensus       289 ~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~---fYG~LAa-~~L  360 (450)
T d1qsaa1         289 ERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG---FYPMVAA-QRI  360 (450)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS---HHHHHHH-HHT
T ss_pred             HHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC---hHHHHHH-HHc
Confidence            34444556667777777777665432 1113334445667777788888888888777642   23   3222221 112


Q ss_pred             CChHHHHHHHHHHHHCCCC--CCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004362          440 GCVSDANNLVNDAISKGYI--PDI----FTFNTLIDGYCKQLKMEIAIEILNTMWSHGVTPDVITYNSLLNGLCKAAKSE  513 (759)
Q Consensus       440 ~~~~~a~~~~~~~~~~~~~--~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  513 (759)
                      |..-.       +.....+  +..    ..-..-+..+...|....|...+..+...   .+......+.....+.|.++
T Consensus       361 g~~~~-------~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~  430 (450)
T d1qsaa1         361 GEEYE-------LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWD  430 (450)
T ss_dssp             TCCCC-------CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHH
T ss_pred             CCCCC-------CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChh
Confidence            21100       0000000  000    00112344566788888888888877653   24556666777778888888


Q ss_pred             HHHHHHHHH
Q 004362          514 DVMETFKTM  522 (759)
Q Consensus       514 ~a~~~~~~~  522 (759)
                      .|+......
T Consensus       431 ~aI~a~~~~  439 (450)
T d1qsaa1         431 LSVQATIAG  439 (450)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            888776665

>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=88.88  E-value=1.1  Score=31.06  Aligned_cols=62  Identities=11%  Similarity=0.127  Sum_probs=43.7

Q ss_pred             CHHHHHHHHHHHHHCCCCccHHHHHHHHHHHHccCChhhHHHHHHHHHHccCCCCchhhHHHHH
Q 004362          546 KITEAFNLLEEMENKGLTLDTVAFGTLINGFCNSGDLDGAYQLFRRMEDQYKISHTTATYNIMI  609 (759)
Q Consensus       546 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  609 (759)
                      +.-+..+-++.+...+.-|++.+..+.+.+|.+.+++..|+++++.+..+.+.  +...|..+.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~--~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--cHHHHHHHH
Confidence            34456666667766677888888888888888888888888888888877332  334444433

>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=85.18  E-value=2  Score=29.75  Aligned_cols=63  Identities=14%  Similarity=0.057  Sum_probs=46.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004362          617 NFYMAEKLFYEMSEKGCPPDNYTYRIMIDSFCKTGGINSGYCLLLENIDKGFIPSLSTIGRVIN  680 (759)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  680 (759)
                      +.=++.+-++.+....+-|++.+..+.+.+|.+.+|+..|+++++-...+ ..++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            34455666666666678899999999999999999999999999887643 2344455555443

>d1bpoa1 a.118.1.4 (A:331-487) Clathrin heavy-chain linker domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy-chain linker domain
domain: Clathrin heavy-chain linker domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=80.86  E-value=9.8  Score=28.92  Aligned_cols=114  Identities=11%  Similarity=0.041  Sum_probs=52.6

Q ss_pred             HHHHhcCCChHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHhcC
Q 004362           11 AAVVKHQKNPLTALEMFNSVKREDGFKHTLLTYKYMIDKLGFHGNFEEMENLLLEMRMDVDDSLLEGVHIGVMRNYGRRG   90 (759)
Q Consensus        11 ~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   90 (759)
                      .-++...++++.|+++-.+.    |.+-....|..-.+.+...|+|.+|..+-.........  +.++....-..-...|
T Consensus         6 pyi~~~l~n~~la~~lA~r~----~LpGAd~l~~~~F~~lf~~g~y~eAA~~aA~sP~giLR--t~~Ti~rFk~~~~~pG   79 (157)
T d1bpoa1           6 PYITNVLQNPDLALRMAVRN----NLAGAEELFARKFNALFAQGNYSEAAKVAANAPKGILR--TPDTIRRFQSVPAQPG   79 (157)
T ss_dssp             HHHHHTTCCHHHHHHHHHHT----TCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSGGGSSC--SHHHHHHHTTSCCCTT
T ss_pred             HHHHhccCCHHHHHHHHHhc----CCCChHHHHHHHHHHHHHcCCHHHHHHHHHhCCccccc--CHHHHHHHHcCCCCCC
Confidence            33444556666665554442    22334555666666666777777776666555443322  3333222222222233


Q ss_pred             ChhHHHHHHHHhhhCCCCCCHHHHHHHHHHHHHcCChhHHH
Q 004362           91 KVQEAVDVFERMDFYNCEPTVLSYNTIMNILVEYGYFSQVH  131 (759)
Q Consensus        91 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  131 (759)
                      ...-.+.+|..+.+.+ +.|..--..+.+.-..+|+.+-..
T Consensus        80 q~spLL~YF~~Ll~~~-~LN~~ESlEl~r~vL~q~r~~lve  119 (157)
T d1bpoa1          80 QTSPLLQYFGILLDQG-QLNKYESLELCRPVLQQGRKQLLE  119 (157)
T ss_dssp             SCCHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCHHHHHHHHHHhcC-CCchHHhHHHHHHHHhcCcHHHHH
Confidence            4444444444444333 233333333444444444433333