Citrus Sinensis ID: 044628

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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-----
Protein Sequence
MLSRCPAPPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDKEMDECTLWLPG
Secondary Structure (PSIPRED)
cccccccccHHHHHcccccccccccHHHHHHHHHHccccccHHHHHHHHHHccccccccccccccHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHcccccHHHHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHcccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEHHHHHHHHHHcccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHcHHcccccccccHHHHHHHHHHccccHHHHHHHHHcccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHccccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHccHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEHHHHHHHHHHcHcHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHcccccccHHHHHcHHHHHHHHcc
Coil and Loop (DISEMBL)
mlsrcpappiftvhfkrplsyltpalyqnQTTTITNAQKHDRSVLssqlrnsgtihesthsahSFYSQALKVSakfgflqqgKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIincggnvtpyFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYgkcgfvedaRRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRlegmkgdyftFSSLVNscgtlgssklgrqIHGLvikqsfdlDVLVATSLVDMyakngniddacrvfdgmtaknvVSWNTMVVGFGQNGDGREAVKLLRDMlqgsfcpdeVTLASILSScgslsisceTRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAgalqcfgsvkepdlvTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSAcshgglvseGLRYFNLMIsdyhilpdsehyTCLTDLLGRVGLLVEAYDLlasmpieprsdtlGAFIGACKVHGSIGLAKWAAEKLLelepskpvnyALVSNVYASERCWFDVARLRKMMrdncdhkvpgcswiEIAGEIHtfvssdrshpqAVHMYAMLCTVFGLmeennvsghcnvldkemdectlwlpg
Flexible Loop (DISEMBL)
mlsrcpappiftvhfkrplsYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDkemdectlwlpg
Low Complexity Region (SEG)
MLSRCPAPPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLAsilsscgslsiscETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGlakwaaekllelePSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDKEMDECTLWLPG
Disordered region (IsUnstruct)
********PIFTVHFKRPLSYLTPALYQNQTTTI*****************************SFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDKEMDECTLWL**
Disordered Region (DISOPRED)
MLSRC**PPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDKEMDECTLWLPG
Disordered Region (DISEMBL)
MLSRCPAPPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDKEMDECTLWLPG
Disordered Region (DISPRO)
MLSRCPAPPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDKEMDECTLWLPG
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLSRCPAPPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDKEMDECTLWLPG
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	665	2.2.26 [Sep-21-2011]
O82363	590	Pentatricopeptide repeat-	yes	no	0.8	0.901	0.497	1e-154
Q9STE1	857	Pentatricopeptide repeat-	no	no	0.855	0.663	0.360	1e-112
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.864	0.660	0.359	1e-111
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.870	0.830	0.341	1e-111
Q9ZUW3	868	Pentatricopeptide repeat-	no	no	0.863	0.661	0.331	1e-105
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.881	0.658	0.342	1e-105
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.854	0.702	0.342	1e-105
Q9CAA8	743	Putative pentatricopeptid	no	no	0.8	0.716	0.355	1e-105
Q9SVA5	834	Pentatricopeptide repeat-	no	no	0.900	0.718	0.344	1e-103
Q9LUJ2	842	Pentatricopeptide repeat-	no	no	0.849	0.671	0.356	1e-103

>sp|O82363|PP203_ARATH Pentatricopeptide repeat-containing protein At2g46050, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E39 PE=3 SV=1

 Score =  546 bits (1407), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 272/547 (49%), Positives = 363/547 (66%), Gaps = 15/547 (2%)

Query: 71  KVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIV 130
           K+SA    L   KQ H  ++K G+ N L LQN++L  Y K + FDD +KLFDEM +RNIV
Sbjct: 44  KLSASLDHLSDVKQEHGFMVKQGIYNSLFLQNKLLQAYTKIREFDDADKLFDEMPLRNIV 103

Query: 131 TWNTLISGIINCGGNVTP-------YFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRR 183
           TWN LI G+I   G+          Y  R+L  +V LDH++F  L+R C  + +++ G +
Sbjct: 104 TWNILIHGVIQRDGDTNHRAHLGFCYLSRILFTDVSLDHVSFMGLIRLCTDSTNMKAGIQ 163

Query: 184 LHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCL 243
           LH  ++K G   +CF S++LV  YGKCG + +ARRVF+ VL RDLVLWN +VS Y LN +
Sbjct: 164 LHCLMVKQGLESSCFPSTSLVHFYGKCGLIVEARRVFEAVLDRDLVLWNALVSSYVLNGM 223

Query: 244 GDGAIAVFNLMRLEG--MKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVA 301
            D A  +  LM  +    +GDYFTFSSL+++C      + G+QIH ++ K S+  D+ VA
Sbjct: 224 IDEAFGLLKLMGSDKNRFRGDYFTFSSLLSACRI----EQGKQIHAILFKVSYQFDIPVA 279

Query: 302 TSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFC 361
           T+L++MYAK+ ++ DA   F+ M  +NVVSWN M+VGF QNG+GREA++L   ML  +  
Sbjct: 280 TALLNMYAKSNHLSDARECFESMVVRNVVSWNAMIVGFAQNGEGREAMRLFGQMLLENLQ 339

Query: 362 PDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQC 421
           PDE+T AS+LSSC   S   E +QV A   K G   FLS+ N+LI++YS+ G+++ AL C
Sbjct: 340 PDELTFASVLSSCAKFSAIWEIKQVQAMVTKKGSADFLSVANSLISSYSRNGNLSEALLC 399

Query: 422 FGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLV 481
           F S++EPDLV+WTS+IGA A HG ++ES+++FE ML   ++PD I FLEVLSACSHGGLV
Sbjct: 400 FHSIREPDLVSWTSVIGALASHGFAEESLQMFESML-QKLQPDKITFLEVLSACSHGGLV 458

Query: 482 SEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIG 541
            EGLR F  M   Y I  + EHYTCL DLLGR G + EA D+L SMP EP +  L AF G
Sbjct: 459 QEGLRCFKRMTEFYKIEAEDEHYTCLIDLLGRAGFIDEASDVLNSMPTEPSTHALAAFTG 518

Query: 542 ACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC-DHK 600
            C +H      KW A+KLLE+EP+KPVNY+++SN Y SE  W   A LRK  R NC + K
Sbjct: 519 GCNIHEKRESMKWGAKKLLEIEPTKPVNYSILSNAYVSEGHWNQAALLRKRERRNCYNPK 578

Query: 601 VPGCSWI 607
            PGCSW+
Sbjct: 579 TPGCSWL 585

Arabidopsis thaliana (taxid: 3702)

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

 Score =  404 bits (1039), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 206/572 (36%), Positives = 342/572 (59%), Gaps = 3/572 (0%)

Query: 70  LKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNI 129
           L V A    +  G QLH  ++  G+  + S++N +L +Y KC  FDD  KLF  M   + 
Sbjct: 246 LSVCASKLLIDLGVQLHGLVVVSGVDFEGSIKNSLLSMYSKCGRFDDASKLFRMMSRADT 305

Query: 130 VTWNTLISGIINCG--GNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSF 187
           VTWN +ISG +  G       +F  M+   V  D ITF+SLL +  + +++E  +++H +
Sbjct: 306 VTWNCMISGYVQSGLMEESLTFFYEMISSGVLPDAITFSSLLPSVSKFENLEYCKQIHCY 365

Query: 188 ILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGA 247
           I++    L+ F++SAL+D Y KC  V  A+ +F +    D+V++  M+S Y  N L   +
Sbjct: 366 IMRHSISLDIFLTSALIDAYFKCRGVSMAQNIFSQCNSVDVVVFTAMISGYLHNGLYIDS 425

Query: 248 IAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDM 307
           + +F  +    +  +  T  S++   G L + KLGR++HG +IK+ FD    +  +++DM
Sbjct: 426 LEMFRWLVKVKISPNEITLVSILPVIGILLALKLGRELHGFIIKKGFDNRCNIGCAVIDM 485

Query: 308 YAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTL 367
           YAK G ++ A  +F+ ++ +++VSWN+M+    Q+ +   A+ + R M     C D V++
Sbjct: 486 YAKCGRMNLAYEIFERLSKRDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVSI 545

Query: 368 ASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE 427
           ++ LS+C +L      + +H + IK+ + + +  E+ LI+ Y+KCG++  A+  F ++KE
Sbjct: 546 SAALSACANLPSESFGKAIHGFMIKHSLASDVYSESTLIDMYAKCGNLKAAMNVFKTMKE 605

Query: 428 PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHA-VRPDSIAFLEVLSACSHGGLVSEGLR 486
            ++V+W SII A   HG  K+S+ +F +M+  + +RPD I FLE++S+C H G V EG+R
Sbjct: 606 KNIVSWNSIIAACGNHGKLKDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGVR 665

Query: 487 YFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVH 546
           +F  M  DY I P  EHY C+ DL GR G L EAY+ + SMP  P +   G  +GAC++H
Sbjct: 666 FFRSMTEDYGIQPQQEHYACVVDLFGRAGRLTEAYETVKSMPFPPDAGVWGTLLGACRLH 725

Query: 547 GSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSW 606
            ++ LA+ A+ KL++L+PS    Y L+SN +A+ R W  V ++R +M++    K+PG SW
Sbjct: 726 KNVELAEVASSKLMDLDPSNSGYYVLISNAHANAREWESVTKVRSLMKEREVQKIPGYSW 785

Query: 607 IEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFG 638
           IEI    H FVS D +HP++ H+Y++L ++ G
Sbjct: 786 IEINKRTHLFVSGDVNHPESSHIYSLLNSLLG 817

Arabidopsis thaliana (taxid: 3702)

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

 Score =  404 bits (1038), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 209/581 (35%), Positives = 331/581 (56%), Gaps = 6/581 (1%)

Query: 72  VSAKFGFLQQ---GKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRN 128
           VS  F  L+    G+QLH  I+K G   + S+ N ++  Y+K +  D   K+FDEM  R+
Sbjct: 201 VSKSFSSLRSVHGGEQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERD 260

Query: 129 IVTWNTLISGIINCG--GNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHS 186
           +++WN++I+G ++ G        F +ML+  + +D  T  S+   C  +  I +GR +HS
Sbjct: 261 VISWNSIINGYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHS 320

Query: 187 FILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDG 246
             +K  F       + L+D+Y KCG ++ A+ VF E+  R +V +  M++ YA   L   
Sbjct: 321 IGVKACFSREDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGE 380

Query: 247 AIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVD 306
           A+ +F  M  EG+  D +T ++++N C        G+++H  + +     D+ V+ +L+D
Sbjct: 381 AVKLFEEMEEEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMD 440

Query: 307 MYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQ-GSFCPDEV 365
           MYAK G++ +A  VF  M  K+++SWNT++ G+ +N    EA+ L   +L+   F PDE 
Sbjct: 441 MYAKCGSMQEAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDER 500

Query: 366 TLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSV 425
           T+A +L +C SLS   + R++H Y ++NG  +   + N+L++ Y+KCG++  A   F  +
Sbjct: 501 TVACVLPACASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDI 560

Query: 426 KEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGL 485
              DLV+WT +I  Y  HG  KE+I +F +M    +  D I+F+ +L ACSH GLV EG 
Sbjct: 561 ASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGW 620

Query: 486 RYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKV 545
           R+FN+M  +  I P  EHY C+ D+L R G L++AY  + +MPI P +   GA +  C++
Sbjct: 621 RFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRI 680

Query: 546 HGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCS 605
           H  + LA+  AEK+ ELEP     Y L++N+YA    W  V RLRK +      K PGCS
Sbjct: 681 HHDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCS 740

Query: 606 WIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVS 646
           WIEI G ++ FV+ D S+P+  ++ A L  V   M E   S
Sbjct: 741 WIEIKGRVNIFVAGDSSNPETENIEAFLRKVRARMIEEGYS 781

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIT7|PP151_ARATH Pentatricopeptide repeat-containing protein At2g13600 OS=Arabidopsis thaliana GN=PCMP-E76 PE=3 SV=1

 Score =  404 bits (1037), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 224/655 (34%), Positives = 351/655 (53%), Gaps = 76/655 (11%)

Query: 83  KQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINC 142
           + +H+ ++K G  N++ +QN+++  Y KC + +D  ++FD+M  RNI TWN++++G+   
Sbjct: 40  RYVHASVIKSGFSNEIFIQNRLIDAYSKCGSLEDGRQVFDKMPQRNIYTWNSVVTGLTKL 99

Query: 143 G---------------------------------GNVTPYFRRMLLDNVRLDHITFNSLL 169
           G                                      YF  M  +   L+  +F S+L
Sbjct: 100 GFLDEADSLFRSMPERDQCTWNSMVSGFAQHDRCEEALCYFAMMHKEGFVLNEYSFASVL 159

Query: 170 RACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLV 229
            AC   +D+  G ++HS I K  F  + ++ SALVD+Y KCG V DA+RVFDE+  R++V
Sbjct: 160 SACSGLNDMNKGVQVHSLIAKSPFLSDVYIGSALVDMYSKCGNVNDAQRVFDEMGDRNVV 219

Query: 230 LWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLV 289
            WN +++C+  N     A+ VF +M    ++ D  T +S++++C +L + K+G+++HG V
Sbjct: 220 SWNSLITCFEQNGPAVEALDVFQMMLESRVEPDEVTLASVISACASLSAIKVGQEVHGRV 279

Query: 290 IKQ-SFDLDVLVATSLVDMYAKNGNIDDACRVFDGM------------------------ 324
           +K      D++++ + VDMYAK   I +A  +FD M                        
Sbjct: 280 VKNDKLRNDIILSNAFVDMYAKCSRIKEARFIFDSMPIRNVIAETSMISGYAMAASTKAA 339

Query: 325 -------TAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSL 377
                    +NVVSWN ++ G+ QNG+  EA+ L   + + S CP   + A+IL +C  L
Sbjct: 340 RLMFTKMAERNVVSWNALIAGYTQNGENEEALSLFCLLKRESVCPTHYSFANILKACADL 399

Query: 378 SISCETRQVHAYAIKNGVQAFLSIE-------NALINAYSKCGSIAGALQCFGSVKEPDL 430
           +      Q H + +K+G + F S E       N+LI+ Y KCG +      F  + E D 
Sbjct: 400 AELHLGMQAHVHVLKHGFK-FQSGEEDDIFVGNSLIDMYVKCGCVEEGYLVFRKMMERDC 458

Query: 431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNL 490
           V+W ++I  +A +G   E++E+F +ML    +PD I  + VLSAC H G V EG  YF+ 
Sbjct: 459 VSWNAMIIGFAQNGYGNEALELFREMLESGEKPDHITMIGVLSACGHAGFVEEGRHYFSS 518

Query: 491 MISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIG 550
           M  D+ + P  +HYTC+ DLLGR G L EA  ++  MP++P S   G+ + ACKVH +I 
Sbjct: 519 MTRDFGVAPLRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQPDSVIWGSLLAACKVHRNIT 578

Query: 551 LAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIA 610
           L K+ AEKLLE+EPS    Y L+SN+YA    W DV  +RK MR     K PGCSWI+I 
Sbjct: 579 LGKYVAEKLLEVEPSNSGPYVLLSNMYAELGKWEDVMNVRKSMRKEGVTKQPGCSWIKIQ 638

Query: 611 GEIHTFVSSDRSHPQAVHMYAMLCTVFGLME-ENNVSGHCNVLDKEMDECT--LW 662
           G  H F+  D+SHP+   ++++L  +   M  E + +   ++  +EMD  +  LW
Sbjct: 639 GHDHVFMVKDKSHPRKKQIHSLLDILIAEMRPEQDHTEIGSLSSEEMDYSSNLLW 693

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUW3|PP172_ARATH Pentatricopeptide repeat-containing protein At2g27610 OS=Arabidopsis thaliana GN=PCMP-H60 PE=2 SV=1

 Score =  383 bits (984), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 193/582 (33%), Positives = 340/582 (58%), Gaps = 8/582 (1%)

Query: 56  HESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFD 115
           +E T      ++ AL V A+ G   +G Q+H+ ++K GL   + + N ++++Y+KC    
Sbjct: 187 NEGTQPNSFTFAAALGVLAEEGVGGRGLQVHTVVVKNGLDKTIPVSNSLINLYLKCGNVR 246

Query: 116 DMEKLFDEMRVRNIVTWNTLISGIINCGGNVTP--YFRRMLLDNVRLDHITFNSLLRACV 173
               LFD+  V+++VTWN++ISG    G ++     F  M L+ VRL   +F S+++ C 
Sbjct: 247 KARILFDKTEVKSVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSESSFASVIKLCA 306

Query: 174 QADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLC-RDLVLWN 232
              ++    +LH  ++K GF  +  + +AL+  Y KC  + DA R+F E+ C  ++V W 
Sbjct: 307 NLKELRFTEQLHCSVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEIGCVGNVVSWT 366

Query: 233 VMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQ 292
            M+S +  N   + A+ +F+ M+ +G++ + FT+S ++ +   +  S    ++H  V+K 
Sbjct: 367 AMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALPVISPS----EVHAQVVKT 422

Query: 293 SFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLL 352
           +++    V T+L+D Y K G +++A +VF G+  K++V+W+ M+ G+ Q G+   A+K+ 
Sbjct: 423 NYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGETEAAIKMF 482

Query: 353 RDMLQGSFCPDEVTLASILSSCGSLSISC-ETRQVHAYAIKNGVQAFLSIENALINAYSK 411
            ++ +G   P+E T +SIL+ C + + S  + +Q H +AIK+ + + L + +AL+  Y+K
Sbjct: 483 GELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSALLTMYAK 542

Query: 412 CGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEV 471
            G+I  A + F   +E DLV+W S+I  YA HG + ++++VF++M    V+ D + F+ V
Sbjct: 543 KGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMDGVTFIGV 602

Query: 472 LSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEP 531
            +AC+H GLV EG +YF++M+ D  I P  EH +C+ DL  R G L +A  ++ +MP   
Sbjct: 603 FAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVIENMPNPA 662

Query: 532 RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRK 591
            S      + AC+VH    L + AAEK++ ++P     Y L+SN+YA    W + A++RK
Sbjct: 663 GSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQERAKVRK 722

Query: 592 MMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAML 633
           +M +    K PG SWIE+  + ++F++ DRSHP    +Y  L
Sbjct: 723 LMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKL 764

Arabidopsis thaliana (taxid: 3702)

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

 Score =  382 bits (982), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 207/605 (34%), Positives = 338/605 (55%), Gaps = 19/605 (3%)

Query: 79  LQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISG 138
           L  GKQ+H++ ++ G  N   + N ++ +Y K       + L      R++VTWNT++S 
Sbjct: 218 LMMGKQVHAYGLRKGELNSFII-NTLVAMYGKLGKLASSKVLLGSFGGRDLVTWNTVLSS 276

Query: 139 IINCGG--NVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVG-FGL 195
           +           Y R M+L+ V  D  T +S+L AC   + +  G+ LH++ LK G    
Sbjct: 277 LCQNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDE 336

Query: 196 NCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVF-NLM 254
           N FV SALVD+Y  C  V   RRVFD +  R + LWN M++ Y+ N     A+ +F  + 
Sbjct: 337 NSFVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGME 396

Query: 255 RLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNI 314
              G+  +  T + +V +C   G+      IHG V+K+  D D  V  +L+DMY++ G I
Sbjct: 397 ESAGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKI 456

Query: 315 DDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDML-----------QGSFCPD 363
           D A R+F  M  +++V+WNTM+ G+  +    +A+ LL  M            + S  P+
Sbjct: 457 DIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPN 516

Query: 364 EVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFG 423
            +TL +IL SC +LS   + +++HAYAIKN +   +++ +AL++ Y+KCG +  + + F 
Sbjct: 517 SITLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFD 576

Query: 424 SVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSE 483
            + + +++TW  II AY  HG  +E+I++   M+   V+P+ + F+ V +ACSH G+V E
Sbjct: 577 QIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDE 636

Query: 484 GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIE-PRSDTLGAFIGA 542
           GLR F +M  DY + P S+HY C+ DLLGR G + EAY L+  MP +  ++    + +GA
Sbjct: 637 GLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGA 696

Query: 543 CKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVP 602
            ++H ++ + + AA+ L++LEP+   +Y L++N+Y+S   W     +R+ M++    K P
Sbjct: 697 SRIHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEP 756

Query: 603 GCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNV--SGHCNVLDKEMDECT 660
           GCSWIE   E+H FV+ D SHPQ+  +   L T++  M +        C + + E DE  
Sbjct: 757 GCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVPDTSCVLHNVEEDEKE 816

Query: 661 LWLPG 665
           + L G
Sbjct: 817 ILLCG 821

Arabidopsis thaliana (taxid: 3702)

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

 Score =  382 bits (981), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 195/570 (34%), Positives = 318/570 (55%), Gaps = 2/570 (0%)

Query: 66  YSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMR 125
           ++  LKV      L+ GK++H  ++K G    L     + ++Y KC+  ++  K+FD M 
Sbjct: 138 FTYLLKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMP 197

Query: 126 VRNIVTWNTLISGIINCGGN--VTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRR 183
            R++V+WNT+++G    G         + M  +N++   IT  S+L A      I VG+ 
Sbjct: 198 ERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVGKE 257

Query: 184 LHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCL 243
           +H + ++ GF     +S+ALVD+Y KCG +E AR++FD +L R++V WN M+  Y  N  
Sbjct: 258 IHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQNEN 317

Query: 244 GDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATS 303
              A+ +F  M  EG+K    +    +++C  LG  + GR IH L ++   D +V V  S
Sbjct: 318 PKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVVNS 377

Query: 304 LVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD 363
           L+ MY K   +D A  +F  + ++ +VSWN M++GF QNG   +A+     M   +  PD
Sbjct: 378 LISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPD 437

Query: 364 EVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFG 423
             T  S++++   LSI+   + +H   +++ +   + +  AL++ Y+KCG+I  A   F 
Sbjct: 438 TFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFD 497

Query: 424 SVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSE 483
            + E  + TW ++I  Y  HG  K ++E+FE+M    ++P+ + FL V+SACSH GLV  
Sbjct: 498 MMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGLVEA 557

Query: 484 GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGAC 543
           GL+ F +M  +Y I    +HY  + DLLGR G L EA+D +  MP++P  +  GA +GAC
Sbjct: 558 GLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLGAC 617

Query: 544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPG 603
           ++H ++  A+ AAE+L EL P     + L++N+Y +   W  V ++R  M      K PG
Sbjct: 618 QIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKTPG 677

Query: 604 CSWIEIAGEIHTFVSSDRSHPQAVHMYAML 633
           CS +EI  E+H+F S   +HP +  +YA L
Sbjct: 678 CSMVEIKNEVHSFFSGSTAHPDSKKIYAFL 707

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAA8|PP108_ARATH Putative pentatricopeptide repeat-containing protein At1g68930 OS=Arabidopsis thaliana GN=PCMP-H22 PE=3 SV=1

 Score =  382 bits (980), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/565 (35%), Positives = 308/565 (54%), Gaps = 33/565 (5%)

Query: 102 NQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCG--GNVTPYFRRMLLD-NV 158
           N +L  Y K     +ME  F+++  R+ VTWN LI G    G  G     +  M+ D + 
Sbjct: 76  NNLLLAYSKAGLISEMESTFEKLPDRDGVTWNVLIEGYSLSGLVGAAVKAYNTMMRDFSA 135

Query: 159 RLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARR 218
            L  +T  ++L+       + +G+++H  ++K+GF     V S L+ +Y   G + DA++
Sbjct: 136 NLTRVTLMTMLKLSSSNGHVSLGKQIHGQVIKLGFESYLLVGSPLLYMYANVGCISDAKK 195

Query: 219 VFDEV------------------------------LCRDLVLWNVMVSCYALNCLGDGAI 248
           VF  +                              + +D V W  M+   A N L   AI
Sbjct: 196 VFYGLDDRNTVMYNSLMGGLLACGMIEDALQLFRGMEKDSVSWAAMIKGLAQNGLAKEAI 255

Query: 249 AVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMY 308
             F  M+++G+K D + F S++ +CG LG+   G+QIH  +I+ +F   + V ++L+DMY
Sbjct: 256 ECFREMKVQGLKMDQYPFGSVLPACGGLGAINEGKQIHACIIRTNFQDHIYVGSALIDMY 315

Query: 309 AKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLA 368
            K   +  A  VFD M  KNVVSW  MVVG+GQ G   EAVK+  DM +    PD  TL 
Sbjct: 316 CKCKCLHYAKTVFDRMKQKNVVSWTAMVVGYGQTGRAEEAVKIFLDMQRSGIDPDHYTLG 375

Query: 369 SILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEP 428
             +S+C ++S   E  Q H  AI +G+  ++++ N+L+  Y KCG I  + + F  +   
Sbjct: 376 QAISACANVSSLEEGSQFHGKAITSGLIHYVTVSNSLVTLYGKCGDIDDSTRLFNEMNVR 435

Query: 429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYF 488
           D V+WT+++ AYA  G + E+I++F+KM+ H ++PD +    V+SACS  GLV +G RYF
Sbjct: 436 DAVSWTAMVSAYAQFGRAVETIQLFDKMVQHGLKPDGVTLTGVISACSRAGLVEKGQRYF 495

Query: 489 NLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGS 548
            LM S+Y I+P   HY+C+ DL  R G L EA   +  MP  P +      + AC+  G+
Sbjct: 496 KLMTSEYGIVPSIGHYSCMIDLFSRSGRLEEAMRFINGMPFPPDAIGWTTLLSACRNKGN 555

Query: 549 IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIE 608
           + + KWAAE L+EL+P  P  Y L+S++YAS+  W  VA+LR+ MR+    K PG SWI+
Sbjct: 556 LEIGKWAAESLIELDPHHPAGYTLLSSIYASKGKWDSVAQLRRGMREKNVKKEPGQSWIK 615

Query: 609 IAGEIHTFVSSDRSHPQAVHMYAML 633
             G++H+F + D S P    +YA L
Sbjct: 616 WKGKLHSFSADDESSPYLDQIYAKL 640

Arabidopsis thaliana (taxid: 3702)

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

 Score =  376 bits (966), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 210/610 (34%), Positives = 342/610 (56%), Gaps = 11/610 (1%)

Query: 31  TTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIM 90
           TT I+   K  RS +S QL     + ++        S  L   +   FL+ GKQ+H+HI+
Sbjct: 218 TTMISGCVKMGRSYVSLQLFYQ-LMEDNVVPDGYILSTVLSACSILPFLEGGKQIHAHIL 276

Query: 91  KLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCG--GNVTP 148
           + GL    SL N ++  YVKC       KLF+ M  +NI++W TL+SG            
Sbjct: 277 RYGLEMDASLMNVLIDSYVKCGRVIAAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAME 336

Query: 149 YFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYG 208
            F  M    ++ D    +S+L +C     +  G ++H++ +K   G + +V+++L+D+Y 
Sbjct: 337 LFTSMSKFGLKPDMYACSSILTSCASLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYA 396

Query: 209 KCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDG-----AIAVFNLMRLEGMKGDY 263
           KC  + DAR+VFD     D+VL+N M+  Y+   LG       A+ +F  MR   ++   
Sbjct: 397 KCDCLTDARKVFDIFAAADVVLFNAMIEGYSR--LGTQWELHEALNIFRDMRFRLIRPSL 454

Query: 264 FTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDG 323
            TF SL+ +  +L S  L +QIHGL+ K   +LD+   ++L+D+Y+    + D+  VFD 
Sbjct: 455 LTFVSLLRASASLTSLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDE 514

Query: 324 MTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCET 383
           M  K++V WN+M  G+ Q  +  EA+ L  ++      PDE T A+++++ G+L+     
Sbjct: 515 MKVKDLVIWNSMFAGYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLG 574

Query: 384 RQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFH 443
           ++ H   +K G++    I NAL++ Y+KCGS   A + F S    D+V W S+I +YA H
Sbjct: 575 QEFHCQLLKRGLECNPYITNALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSVISSYANH 634

Query: 444 GLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEH 503
           G  K+++++ EKM+S  + P+ I F+ VLSACSH GLV +GL+ F LM+  + I P++EH
Sbjct: 635 GEGKKALQMLEKMMSEGIEPNYITFVGVLSACSHAGLVEDGLKQFELMLR-FGIEPETEH 693

Query: 504 YTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELE 563
           Y C+  LLGR G L +A +L+  MP +P +    + +  C   G++ LA+ AAE  +  +
Sbjct: 694 YVCMVSLLGRAGRLNKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSD 753

Query: 564 PSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSH 623
           P    ++ ++SN+YAS+  W +  ++R+ M+     K PG SWI I  E+H F+S D+SH
Sbjct: 754 PKDSGSFTMLSNIYASKGMWTEAKKVRERMKVEGVVKEPGRSWIGINKEVHIFLSKDKSH 813

Query: 624 PQAVHMYAML 633
            +A  +Y +L
Sbjct: 814 CKANQIYEVL 823

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LUJ2|PP249_ARATH Pentatricopeptide repeat-containing protein At3g22690 OS=Arabidopsis thaliana GN=PCMP-H56 PE=2 SV=1

 Score =  376 bits (965), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 214/600 (35%), Positives = 328/600 (54%), Gaps = 35/600 (5%)

Query: 69  ALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRN 128
            L   AK      G Q+H  I+K+G    L +QN ++H Y +C   D   K+FDEM  RN
Sbjct: 140 GLSACAKSRAKGNGIQIHGLIVKMGYAKDLFVQNSLVHFYAECGELDSARKVFDEMSERN 199

Query: 129 IVTWNTLISGIIN---CGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLH 185
           +V+W ++I G          V  +FR +  + V  + +T   ++ AC + +D+E G +++
Sbjct: 200 VVSWTSMICGYARRDFAKDAVDLFFRMVRDEEVTPNSVTMVCVISACAKLEDLETGEKVY 259

Query: 186 SFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGD 245
           +FI   G  +N  + SALVD+Y KC  ++ A+R+FDE    +L L N M S Y    L  
Sbjct: 260 AFIRNSGIEVNDLMVSALVDMYMKCNAIDVAKRLFDEYGASNLDLCNAMASNYVRQGLTR 319

Query: 246 GAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLV 305
            A+ VFNLM   G++ D  +  S ++SC  L +   G+  HG V++  F+    +  +L+
Sbjct: 320 EALGVFNLMMDSGVRPDRISMLSAISSCSQLRNILWGKSCHGYVLRNGFESWDNICNALI 379

Query: 306 DMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDM---------- 355
           DMY K    D A R+FD M+ K VV+WN++V G+ +NG+   A +    M          
Sbjct: 380 DMYMKCHRQDTAFRIFDRMSNKTVVTWNSIVAGYVENGEVDAAWETFETMPEKNIVSWNT 439

Query: 356 -----LQGS--------FC---------PDEVTLASILSSCGSLSISCETRQVHAYAIKN 393
                +QGS        FC          D VT+ SI S+CG L      + ++ Y  KN
Sbjct: 440 IISGLVQGSLFEEAIEVFCSMQSQEGVNADGVTMMSIASACGHLGALDLAKWIYYYIEKN 499

Query: 394 GVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVF 453
           G+Q  + +   L++ +S+CG    A+  F S+   D+  WT+ IGA A  G ++ +IE+F
Sbjct: 500 GIQLDVRLGTTLVDMFSRCGDPESAMSIFNSLTNRDVSAWTAAIGAMAMAGNAERAIELF 559

Query: 454 EKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR 513
           + M+   ++PD +AF+  L+ACSHGGLV +G   F  M+  + + P+  HY C+ DLLGR
Sbjct: 560 DDMIEQGLKPDGVAFVGALTACSHGGLVQQGKEIFYSMLKLHGVSPEDVHYGCMVDLLGR 619

Query: 514 VGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV 573
            GLL EA  L+  MP+EP      + + AC+V G++ +A +AAEK+  L P +  +Y L+
Sbjct: 620 AGLLEEAVQLIEDMPMEPNDVIWNSLLAACRVQGNVEMAAYAAEKIQVLAPERTGSYVLL 679

Query: 574 SNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAML 633
           SNVYAS   W D+A++R  M++    K PG S I+I G+ H F S D SHP+  ++ AML
Sbjct: 680 SNVYASAGRWNDMAKVRLSMKEKGLRKPPGTSSIQIRGKTHEFTSGDESHPEMPNIEAML 739

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	665
225454363	673	PREDICTED: pentatricopeptide repeat-cont	0.969	0.958	0.597	0.0
147812109	674	hypothetical protein VITISV_010801 [Viti	0.969	0.956	0.584	0.0
224127716	548	predicted protein [Populus trichocarpa]	0.804	0.976	0.669	0.0
297745358	1079	unnamed protein product [Vitis vinifera]	0.914	0.563	0.559	0.0
357504423	655	Pentatricopeptide repeat-containing prot	0.897	0.911	0.576	0.0
356522600	644	PREDICTED: pentatricopeptide repeat-cont	0.939	0.970	0.542	0.0
449522624	616	PREDICTED: pentatricopeptide repeat-cont	0.882	0.952	0.562	0.0
356560343	578	PREDICTED: pentatricopeptide repeat-cont	0.843	0.970	0.547	1e-179
449441630	600	PREDICTED: pentatricopeptide repeat-cont	0.807	0.895	0.569	1e-178
297824663	585	pentatricopeptide repeat-containing prot	0.8	0.909	0.519	1e-159

>gi|225454363|ref|XP_002276073.1| PREDICTED: pentatricopeptide repeat-containing protein At2g46050, mitochondrial [Vitis vinifera]

 Score =  808 bits (2088), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 396/663 (59%), Positives = 499/663 (75%), Gaps = 18/663 (2%)

Query: 1   MLSRCPAPPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHES-- 58
           M+S+C     F  +FK   S  +P      T    NA  HD    S      G +  S  
Sbjct: 1   MISKCRFLSTFIANFKSH-SSASPTPSPTLTGATKNAPSHDPHRQSHSFPYLGGLRASLP 59

Query: 59  ---------THSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYV 109
                    + S HSF S ALK+SAK GFL  GKQLH+H++KLG CN LSLQNQVLHVYV
Sbjct: 60  ETGFTNLVDSCSTHSFSSHALKISAKLGFLHGGKQLHAHVIKLGNCNLLSLQNQVLHVYV 119

Query: 110 KCKAFDDMEKLFDEMRVRNIVTWNTLISGII--NCGGNVTP----YFRRMLLDNVRLDHI 163
           KCK F+D+ K+FDEM ++N+V+WNTLI G++  NC   +      YFR+M+L+ +  + I
Sbjct: 120 KCKEFNDVCKMFDEMPLKNVVSWNTLICGVVEGNCKFALVRLGFHYFRQMVLEMMAPNCI 179

Query: 164 TFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEV 223
           T N LLRA ++ +D+ + R+LH FILK GF  NCFV SALVD Y K G V++A+  FDEV
Sbjct: 180 TLNGLLRASIELNDVGICRQLHCFILKSGFDSNCFVGSALVDSYAKFGLVDEAQSAFDEV 239

Query: 224 LCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGR 283
             RDLVLWNVMVSCYALN +   A  VF LMRLEG+KGD FTF+S++NSCG LGS  LG+
Sbjct: 240 SSRDLVLWNVMVSCYALNGVQGKAFGVFKLMRLEGVKGDNFTFTSMINSCGVLGSCGLGK 299

Query: 284 QIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNG 343
           Q+HGL+I+ SFDLDVLVA++LVDMY+KN NI+DA + FDGM  KN+VSW TM+VG+GQ+G
Sbjct: 300 QVHGLIIRLSFDLDVLVASALVDMYSKNENIEDARKAFDGMIVKNIVSWTTMIVGYGQHG 359

Query: 344 DGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIEN 403
           DG+EA++LL++M++    PDE+ LASILSSCG+LS + E  QVHAY ++NG +AFLSI N
Sbjct: 360 DGKEAMRLLQEMIRVYTYPDELALASILSSCGNLSATSEVVQVHAYVVENGFEAFLSIAN 419

Query: 404 ALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP 463
           AL++AYSKCGSI  A Q F SV EPD+++WTS++GAYAFHGLSKE +EVFEKML   VRP
Sbjct: 420 ALVSAYSKCGSIGSAFQSFSSVAEPDIISWTSLMGAYAFHGLSKEGVEVFEKMLFSNVRP 479

Query: 464 DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL 523
           D +AFL VLSAC+HGG V EGL YFNLMI+ Y I+PDSEHYTC+ DLLGR G L EA +L
Sbjct: 480 DKVAFLGVLSACAHGGFVLEGLHYFNLMINVYQIMPDSEHYTCIIDLLGRAGFLDEAINL 539

Query: 524 LASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCW 583
           L SMP+EPRSDTLGAF+GACKVH ++GLA+WA+EKL  +EP++P NY+L+SN+YAS   W
Sbjct: 540 LTSMPVEPRSDTLGAFLGACKVHRNVGLARWASEKLFVMEPNEPANYSLMSNMYASVGHW 599

Query: 584 FDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEEN 643
           FDVAR+RK+MR+ CD KVPGCSW+EIAGE+HTFVS D++HP+AV +Y ML  +  LMEE+
Sbjct: 600 FDVARVRKLMRERCDFKVPGCSWMEIAGEVHTFVSRDKTHPRAVQVYGMLDLLVRLMEED 659

Query: 644 NVS 646
           +VS
Sbjct: 660 DVS 662

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147812109|emb|CAN61522.1| hypothetical protein VITISV_010801 [Vitis vinifera]

 Score =  785 bits (2028), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 388/664 (58%), Positives = 494/664 (74%), Gaps = 19/664 (2%)

Query: 1   MLSRCPAPPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHES-- 58
           M+S+C     F  +FK   S  +P      T    NA  HD    S      G +  S  
Sbjct: 1   MISKCRFLSTFIANFKSH-SSASPTPSXTLTGATKNAPSHDPHRQSHSFPYLGXLRASLP 59

Query: 59  ---------THSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYV 109
                    + S HSF S ALK+SAK GFL  GKQLH+H++KLG CN LSLQNQVLHVYV
Sbjct: 60  ETGFTXLVDSCSTHSFSSHALKISAKLGFLHGGKQLHAHVIKLGXCNLLSLQNQVLHVYV 119

Query: 110 KCKAFDDMEKLFDEMRVRNIVTWNTLISGII--NCGGNVTPY----FRRMLLDNVRLDHI 163
           KCK F+D+ K+FDEM ++N+V+WNTLI G++  NC   +       FR+M+L+ +  + I
Sbjct: 120 KCKEFNDVCKMFDEMPLKNVVSWNTLICGVVEGNCKFALVRLGFHCFRQMVLEMMAPNCI 179

Query: 164 TFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEV 223
           T N LLRA ++ +D+ + R+LH FILK GF  NCFV SALVD Y K G V++A+  FDEV
Sbjct: 180 TLNGLLRASIELNDVGICRQLHCFILKSGFDSNCFVGSALVDSYAKFGLVDEAQSAFDEV 239

Query: 224 LCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGR 283
             RDLVLWNVMVSCYALN +   A  VF LMRLEG+KGD FTF+S++NSCG LGS  LG+
Sbjct: 240 SSRDLVLWNVMVSCYALNGVQGKAFGVFKLMRLEGVKGDXFTFTSMINSCGVLGSCGLGK 299

Query: 284 QIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNG 343
           Q+HGL+I+ SFDLDVLVA++LVDMY+KN NI+DA + FDGM  KN+VSW TM VG+GQ+G
Sbjct: 300 QVHGLIIRLSFDLDVLVASALVDMYSKNENIEDARKAFDGMJVKNIVSWTTMXVGYGQHG 359

Query: 344 DGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIEN 403
           DG+E ++LL++M++    PDE+ LASILSSCG+LS + E  QVHAY ++NG +AFLSI N
Sbjct: 360 DGKEXMRLLQEMIRVYTYPDELALASILSSCGNLSATSEVVQVHAYVVENGFEAFLSIAN 419

Query: 404 ALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP 463
           AL++AYSKCGSI  A Q F SV EPD+++WTS++GAYAFHGLSK+ ++VFEK+LS  VRP
Sbjct: 420 ALVSAYSKCGSIGSAFQSFSSVAEPDIISWTSLMGAYAFHGLSKQGVDVFEKILSSNVRP 479

Query: 464 DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL 523
           D +AFL VLSAC+HGG V EGL YFNLMI+ Y I+PDSEHYT + DLLGR G L EA +L
Sbjct: 480 DKVAFLGVLSACAHGGFVLEGLHYFNLMINVYQIMPDSEHYTSIIDLLGRAGFLDEAVNL 539

Query: 524 LASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCW 583
           L SMP+EPRSDTLGAF+GACKV+ ++GLA+WA+EKL  +EP++P  Y+L+SN+YAS   W
Sbjct: 540 LTSMPVEPRSDTLGAFLGACKVYRNVGLARWASEKLFVMEPNEPGKYSLMSNMYASVGHW 599

Query: 584 FDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLM-EE 642
           FDVAR+RK+MR+ CD KVPGCSW+E AGE+HTFVS D++HP+AV +Y ML  +  LM EE
Sbjct: 600 FDVARVRKLMRERCDFKVPGCSWMETAGEVHTFVSRDKTHPRAVQVYGMLDLLVRLMKEE 659

Query: 643 NNVS 646
           ++VS
Sbjct: 660 DDVS 663

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127716|ref|XP_002320145.1| predicted protein [Populus trichocarpa] gi|222860918|gb|EEE98460.1| predicted protein [Populus trichocarpa]

 Score =  746 bits (1927), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 364/544 (66%), Positives = 430/544 (79%), Gaps = 9/544 (1%)

Query: 77  GFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLI 136
           GFL++GKQ+HSH++KLG CN LSLQNQ+L+VY+KCK F+   +LFDEM VRN+VTWNT+I
Sbjct: 2   GFLREGKQVHSHVIKLGFCNVLSLQNQILNVYIKCKDFNYAHRLFDEMHVRNVVTWNTVI 61

Query: 137 SGIINCGGNVTP--------YFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFI 188
            G+++C G+           YFR+MLLD V  D IT N LLRAC++ +D+E+GR LH FI
Sbjct: 62  CGLVDCRGSDYESSVYMGFCYFRKMLLDKVGFDAITLNGLLRACLELNDVEIGRELHCFI 121

Query: 189 LKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAI 248
           +K+GF +N FV+SALVDLYGKCG V++ARR FDEV CRDLVLWNVM+SCYA+NCL + A 
Sbjct: 122 VKLGFAVNSFVNSALVDLYGKCGLVKEARRAFDEVYCRDLVLWNVMLSCYAMNCLAEEAS 181

Query: 249 AVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMY 308
             F LM+ E    D FTFSS++NSCGTLGS  LGRQIHGL IK SFDLDVLVA+ LVDMY
Sbjct: 182 GFFKLMQEENFMTDGFTFSSMLNSCGTLGSCNLGRQIHGLSIKLSFDLDVLVASGLVDMY 241

Query: 309 AKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLA 368
           AK+ NIDDA + FDGM A+NVVSWNTMVVG+G+ GDG EA+KLL  M Q    PDE+TLA
Sbjct: 242 AKSENIDDARKAFDGMAARNVVSWNTMVVGYGRLGDGGEAMKLLIGMFQEDLRPDEITLA 301

Query: 369 SILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEP 428
           SI+ SC S   SCE  QV+AY +KNG  AFLSI NALINAYSK GSIA ALQCF +V EP
Sbjct: 302 SIIRSCSSALTSCEIMQVNAYVLKNGFHAFLSIANALINAYSKGGSIAMALQCFNTVLEP 361

Query: 429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYF 488
           DLVTWTS+IGAYAFH L K SI+ FE+ML+  V PD I FLEVLSACSH GLV+EGL YF
Sbjct: 362 DLVTWTSLIGAYAFHSLPKNSIDTFEEMLADGVWPDQIVFLEVLSACSHAGLVNEGLHYF 421

Query: 489 NLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGS 548
           +LM  DYHILP  EHYTCL DLLGR GLL EA+++L SM I   SDTLGAFIGACK+HG 
Sbjct: 422 SLM-KDYHILPGLEHYTCLIDLLGRAGLLDEAFNILNSMSIGYSSDTLGAFIGACKIHGD 480

Query: 549 IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIE 608
           + LAKWAAEKL E+EP+KPVNY L+S+V+ASE  W DVAR+ K+MRD C H VPGCSW+E
Sbjct: 481 VKLAKWAAEKLFEMEPNKPVNYTLMSSVFASEGHWHDVARIHKLMRDRCGHGVPGCSWME 540

Query: 609 IAGE 612
            AG+
Sbjct: 541 YAGD 544

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745358|emb|CBI40438.3| unnamed protein product [Vitis vinifera]

 Score =  734 bits (1896), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 371/663 (55%), Positives = 468/663 (70%), Gaps = 55/663 (8%)

Query: 1   MLSRCPAPPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHES-- 58
           M+S+C     F  +FK   S  +P      T    NA  HD    S      G +  S  
Sbjct: 1   MISKCRFLSTFIANFKSH-SSASPTPSPTLTGATKNAPSHDPHRQSHSFPYLGGLRASLP 59

Query: 59  ---------THSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYV 109
                    + S HSF S ALK+SAK GFL  GKQLH+H++KLG CN LSLQNQVLHVYV
Sbjct: 60  ETGFTNLVDSCSTHSFSSHALKISAKLGFLHGGKQLHAHVIKLGNCNLLSLQNQVLHVYV 119

Query: 110 KCKAFDDMEKLFDEMRVRNIVTWNTLISGII--NCGGNVTP----YFRRMLLDNVRLDHI 163
           KCK F+D+ K+FDEM ++N+V+WNTLI G++  NC   +      YFR+M+L+ +  + I
Sbjct: 120 KCKEFNDVCKMFDEMPLKNVVSWNTLICGVVEGNCKFALVRLGFHYFRQMVLEMMAPNCI 179

Query: 164 TFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEV 223
           T N LLRA ++ +D+ + R+LH FILK GF  NCFV SALVD Y K G V++A+  FDEV
Sbjct: 180 TLNGLLRASIELNDVGICRQLHCFILKSGFDSNCFVGSALVDSYAKFGLVDEAQSAFDEV 239

Query: 224 LCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGR 283
             RDLVLWNVMVSCYALN +   A  VF LMRLEG+KGD FTF+S++NSCG LGS  LG+
Sbjct: 240 SSRDLVLWNVMVSCYALNGVQGKAFGVFKLMRLEGVKGDNFTFTSMINSCGVLGSCGLGK 299

Query: 284 QIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNG 343
           Q+HGL+I+ SFDLDVLVA++L                                     +G
Sbjct: 300 QVHGLIIRLSFDLDVLVASAL-------------------------------------HG 322

Query: 344 DGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIEN 403
           DG+EA++LL++M++    PDE+ LASILSSCG+LS + E  QVHAY ++NG +AFLSI N
Sbjct: 323 DGKEAMRLLQEMIRVYTYPDELALASILSSCGNLSATSEVVQVHAYVVENGFEAFLSIAN 382

Query: 404 ALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP 463
           AL++AYSKCGSI  A Q F SV EPD+++WTS++GAYAFHGLSKE +EVFEKML   VRP
Sbjct: 383 ALVSAYSKCGSIGSAFQSFSSVAEPDIISWTSLMGAYAFHGLSKEGVEVFEKMLFSNVRP 442

Query: 464 DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL 523
           D +AFL VLSAC+HGG V EGL YFNLMI+ Y I+PDSEHYTC+ DLLGR G L EA +L
Sbjct: 443 DKVAFLGVLSACAHGGFVLEGLHYFNLMINVYQIMPDSEHYTCIIDLLGRAGFLDEAINL 502

Query: 524 LASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCW 583
           L SMP+EPRSDTLGAF+GACKVH ++GLA+WA+EKL  +EP++P NY+L+SN+YAS   W
Sbjct: 503 LTSMPVEPRSDTLGAFLGACKVHRNVGLARWASEKLFVMEPNEPANYSLMSNMYASVGHW 562

Query: 584 FDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEEN 643
           FDVAR+RK+MR+ CD KVPGCSW+EIAGE+HTFVS D++HP+AV +Y ML  +  LMEE+
Sbjct: 563 FDVARVRKLMRERCDFKVPGCSWMEIAGEVHTFVSRDKTHPRAVQVYGMLDLLVRLMEED 622

Query: 644 NVS 646
           +VS
Sbjct: 623 DVS 625

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357504423|ref|XP_003622500.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355497515|gb|AES78718.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  720 bits (1858), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/616 (57%), Positives = 457/616 (74%), Gaps = 19/616 (3%)

Query: 46  SSQLRNSGTIHESTH-----SAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSL 100
           SS+LR S  I   TH     + H F S ALK+SAK G+L +GKQLH+H++K G C  LSL
Sbjct: 38  SSRLRASMPIPNQTHFNDPNTVHLFCSNALKISAKKGYLPEGKQLHAHLIKFGFCQVLSL 97

Query: 101 QNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGN----------VTPYF 150
           QNQ+L VY+KC+  +D +KLF+E+ VRN+V+WN +I   +  G N             YF
Sbjct: 98  QNQILSVYLKCQEAEDAKKLFEELPVRNVVSWNIMIRASV--GRNDENESSGMRLCFSYF 155

Query: 151 RRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKC 210
           RRMLL+ +  DHITFN L+  C Q +DIE+G +LH F +KVGF L+CFV  ALV LY KC
Sbjct: 156 RRMLLEMMVPDHITFNGLICLCTQFNDIEMGVQLHCFTVKVGFDLDCFVGCALVGLYAKC 215

Query: 211 GFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLV 270
           GFVE+ARRVF +V CRDLV+WNVMVSCY  N L + A  VFN MRL+ + GD FTFSSL+
Sbjct: 216 GFVENARRVFCDVSCRDLVMWNVMVSCYVFNSLPEEAFRVFNSMRLDVVNGDEFTFSSLL 275

Query: 271 N--SCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKN 328
           +  S   L     G+Q+H LV++QSFD DVLVA++L++MYAK+ NI DA RVFD M+ +N
Sbjct: 276 SVISDDALEYYDFGKQVHSLVLRQSFDSDVLVASALINMYAKSENIIDARRVFDEMSIRN 335

Query: 329 VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHA 388
           VV+WNTM+VGFG +GDG E +KL+++ML+  F PDE+T++SI+SSCG  S   ET QVHA
Sbjct: 336 VVAWNTMIVGFGNHGDGNEVMKLVKEMLREGFLPDELTISSIISSCGYASAITETLQVHA 395

Query: 389 YAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKE 448
           +A+K   Q FLS+ N+LI+AYSKCGSI  A +CF    +PDLVTWTS+I AYAFHGL+++
Sbjct: 396 FAVKLSCQDFLSVANSLISAYSKCGSITSAFKCFELTSQPDLVTWTSLIYAYAFHGLAEK 455

Query: 449 SIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLT 508
           S E+FEKMLS+ ++PD IAFL VLSAC+H GLV++GL YF LM + Y I+PDSEHYTCL 
Sbjct: 456 STEMFEKMLSYGIKPDRIAFLGVLSACAHCGLVTKGLHYFKLMTNAYQIVPDSEHYTCLV 515

Query: 509 DLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV 568
           DLLGR GL+ EA+++L SMPIE  SDTLGAFIG+CK+H ++ LAK AAEKL  +EP K V
Sbjct: 516 DLLGRYGLINEAFEILRSMPIEVDSDTLGAFIGSCKLHSNMELAKLAAEKLFLIEPEKSV 575

Query: 569 NYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVH 628
           NYA++SN++AS++ W+DV R+RK M D  D KVPGCSWIEI  +IH+FVS+D+SHP A+ 
Sbjct: 576 NYAVMSNIFASQKHWYDVERIRKTMEDKRDAKVPGCSWIEIGNQIHSFVSNDKSHPNALE 635

Query: 629 MYAMLCTVFGLMEENN 644
           MY  L  +   M+E N
Sbjct: 636 MYVTLNMLLRPMKEQN 651

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356522600|ref|XP_003529934.1| PREDICTED: pentatricopeptide repeat-containing protein At2g46050, mitochondrial-like [Glycine max]

 Score =  714 bits (1843), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 348/641 (54%), Positives = 459/641 (71%), Gaps = 16/641 (2%)

Query: 14  HFKRPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIH-ESTHSAHSFYSQALKV 72
           HFK+ L +  P +  +  T  T    H  S++ + +      H    H+ H F + ALKV
Sbjct: 6   HFKKQLRF--PPIPYSFVTQCT----HSWSIIRASVPVPDETHFRDPHTVHLFCANALKV 59

Query: 73  SAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTW 132
           SAK   L +GKQLH+H++K G C+ LSLQNQ+L VY+KC   DD EKLF+E+ VRN+V+W
Sbjct: 60  SAKRALLPEGKQLHAHLIKFGFCHVLSLQNQILGVYLKCTEADDAEKLFEELSVRNVVSW 119

Query: 133 NTLISGIINCGG---------NVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRR 183
           N LI GI+ CG              YF+RMLL+ V  D  TFN L   CV+  DI++G +
Sbjct: 120 NILIRGIVGCGDANENDSNQQQCFSYFKRMLLELVVPDSTTFNGLFGVCVKFHDIDMGFQ 179

Query: 184 LHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCL 243
           LH F +K+G  L+CFV S LVDLY +CG VE+ARRVF  V  RDLV+WNVM+SCYALNCL
Sbjct: 180 LHCFAVKLGLDLDCFVGSVLVDLYAQCGLVENARRVFLVVQHRDLVVWNVMISCYALNCL 239

Query: 244 GDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATS 303
            + A  +FNLMR +G  GD FTFS+L++ C +L     G+Q+HG +++ SFD DVLVA++
Sbjct: 240 PEEAFVMFNLMRWDGANGDEFTFSNLLSICDSLEYYDFGKQVHGHILRLSFDSDVLVASA 299

Query: 304 LVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD 363
           L++MYAKN NI DA R+FD M  +NVV+WNT++VG+G   +G E +KLLR+ML+  F PD
Sbjct: 300 LINMYAKNENIVDAHRLFDNMVIRNVVAWNTIIVGYGNRREGNEVMKLLREMLREGFSPD 359

Query: 364 EVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFG 423
           E+T++S +S CG +S   ET Q HA+A+K+  Q FLS+ N+LI+AYSKCGSI  A +CF 
Sbjct: 360 ELTISSTISLCGYVSAITETMQAHAFAVKSSFQEFLSVANSLISAYSKCGSITSACKCFR 419

Query: 424 SVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSE 483
             +EPDLV+WTS+I AYAFHGL+KE+ EVFEKMLS  + PD I+FL VLSACSH GLV++
Sbjct: 420 LTREPDLVSWTSLINAYAFHGLAKEATEVFEKMLSCGIIPDQISFLGVLSACSHCGLVTK 479

Query: 484 GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGAC 543
           GL YFNLM S Y I+PDS HYTCL DLLGR GL+ EA++ L SMP+E  S+TLGAF+ +C
Sbjct: 480 GLHYFNLMTSVYKIVPDSGHYTCLVDLLGRYGLINEAFEFLRSMPMEAESNTLGAFVASC 539

Query: 544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPG 603
            +H +IGLAKWAAEKL  +EP K VNYA++SN+YAS R W DV R+R+MM + CD +VPG
Sbjct: 540 NLHANIGLAKWAAEKLFTIEPEKNVNYAVMSNIYASHRHWSDVERVRRMMGNKCDARVPG 599

Query: 604 CSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENN 644
           CSWIEI  ++H+FVS+D+ HP+A+ M+A L  +   M+E +
Sbjct: 600 CSWIEITNQVHSFVSNDKIHPKALEMHATLKMLLWPMKEKS 640

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449522624|ref|XP_004168326.1| PREDICTED: pentatricopeptide repeat-containing protein At2g46050, mitochondrial-like [Cucumis sativus]

 Score =  670 bits (1728), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/603 (56%), Positives = 428/603 (70%), Gaps = 16/603 (2%)

Query: 55  IHESTHSA-----HSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYV 109
           I  STH       HSF    LK +A    + +   LHS ++KLGL N+LS+QN++L VYV
Sbjct: 3   IWTSTHFGRSRLVHSFSFNVLKAAAPVNSIPRDTLLHSLVVKLGLINELSVQNKLLRVYV 62

Query: 110 KCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCG---------GNVTPYFRRMLLDNVRL 160
           KC+  D    LFDEM  RN+V+WNT+I G+++ G          ++  YF++ML+  V  
Sbjct: 63  KCRDLDSARTLFDEMARRNVVSWNTVICGLVDGGYGGEFKMRQHSIFLYFKKMLMGLVDP 122

Query: 161 DHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVF 220
           D ITFN L R+CV  +D+E GR+LHSF++K+GF L+CFV SA+VD Y KCG  EDAR  F
Sbjct: 123 DGITFNGLFRSCVVLNDVESGRQLHSFVMKIGFDLDCFVGSAVVDFYAKCGLYEDARLAF 182

Query: 221 DEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSK 280
             +L RDLVLWNVM+ C   N L   AI VF LM+LEG KGD FTFSSL++ C   GS +
Sbjct: 183 SCILYRDLVLWNVMLYCCVFNSLSREAIEVFRLMQLEGFKGDDFTFSSLLSLCKYKGSGE 242

Query: 281 LGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFG 340
           LG+Q+H L+IKQSFDLD+LVA+SLV++YAKN N+ DA +VFD M  +N VSW TM+VG+G
Sbjct: 243 LGKQLHCLLIKQSFDLDILVASSLVNVYAKNDNLYDARKVFDEMPTRNSVSWTTMIVGYG 302

Query: 341 QNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLS 400
           Q+  G+EAVKL R ML+  +CPDE+T AS+LSSCG  S + E  QVH+  IK G +AFLS
Sbjct: 303 QHEYGKEAVKLFRRMLRKDYCPDELTFASLLSSCGFTSGASELMQVHSCLIKLGFEAFLS 362

Query: 401 IENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHA 460
           I N LI AYSKCG IA ALQCF  V EPDLVTWTSII   A  GL K+++++F+KMLS+ 
Sbjct: 363 INNGLIYAYSKCGIIAAALQCFRLVAEPDLVTWTSIICGLALCGLEKDAVKLFDKMLSYG 422

Query: 461 VRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEA 520
           +RPD IAFL VLSACSHGG VS GL YFNLM + Y ++PDSEH TCL DLLGR G L +A
Sbjct: 423 IRPDKIAFLGVLSACSHGGFVSMGLHYFNLMTNQYQLVPDSEHLTCLIDLLGRAGSLDQA 482

Query: 521 YDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASE 580
           +DLL SMP E   D L AFI AC+ HG++ LAK A E     EP +PVNY+LVSN+YASE
Sbjct: 483 FDLLKSMPKEAGPDALRAFIRACRTHGNLRLAKRAME--FASEPDEPVNYSLVSNMYASE 540

Query: 581 RCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLM 640
             W DVAR+RK++ D C+ K PG SW+EIAG  H F+S DRSHPQ++ +YAML  +   M
Sbjct: 541 GRWSDVARMRKLINDRCEQKTPGLSWVEIAGYNHLFISGDRSHPQSLDLYAMLGLLLNTM 600

Query: 641 EEN 643
           +++
Sbjct: 601 KKD 603

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560343|ref|XP_003548452.1| PREDICTED: pentatricopeptide repeat-containing protein At2g46050, mitochondrial-like [Glycine max]

 Score =  635 bits (1639), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 317/579 (54%), Positives = 408/579 (70%), Gaps = 18/579 (3%)

Query: 14  HFKRPLSY-LTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIH-ESTHSAHSFYSQALK 71
           HFK+ L + LTP  +  Q T       H  S++ + +      H    H  H F + ALK
Sbjct: 6   HFKKQLLFPLTPCSFVTQCT-------HSWSIIRASVPVPEETHFRDPHIVHLFCANALK 58

Query: 72  VSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVT 131
           VSA+   L +GKQLH+H++K G C+ LSLQNQ+L VY+KC   +D+EKLF E+ +RN+V+
Sbjct: 59  VSARRALLPEGKQLHAHLIKFGFCHVLSLQNQILGVYLKCMEAEDVEKLFKELPLRNVVS 118

Query: 132 WNTLISGIINCGGNVT---------PYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGR 182
           WN LI GI+ CG  +           YF+RMLL+ V  D  TFN L+  CV+  DI +G 
Sbjct: 119 WNILIHGIVGCGNAIENYSNRQLCFSYFKRMLLETVVPDGTTFNGLIGVCVKFHDIAMGF 178

Query: 183 RLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNC 242
           +LH F +K G  L+CFV S LVDLY KCG VE+A+R F  V  RDLV+WNVM+SCYALN 
Sbjct: 179 QLHCFAVKFGLDLDCFVESVLVDLYAKCGLVENAKRAFHVVPRRDLVMWNVMISCYALNW 238

Query: 243 LGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVAT 302
           L + A  +FNLMRL G  GD FTFSSL++ C TL     G+Q+H ++++QSFD DVLVA+
Sbjct: 239 LPEEAFGMFNLMRLGGANGDEFTFSSLLSICDTLEYYDFGKQVHSIILRQSFDSDVLVAS 298

Query: 303 SLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCP 362
           +L++MYAKN NI DAC +FD M  +NVV+WNT++VG G  G+G + +KLLR+ML+  F P
Sbjct: 299 ALINMYAKNENIIDACNLFDRMVIRNVVAWNTIIVGCGNCGEGNDVMKLLREMLREGFFP 358

Query: 363 DEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCF 422
           DE+T+ SI+SSCG  S   ET + H + +K+  Q F S+ N+LI+AYSKCGSI  A +CF
Sbjct: 359 DELTITSIISSCGYASAITETMEAHVFVVKSSFQEFSSVANSLISAYSKCGSITSACKCF 418

Query: 423 GSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVS 482
              +EPDLVTWTS+I AYAFHGL+KE+IEVFEKMLS  V PD I+FL V SACSH GLV+
Sbjct: 419 RLTREPDLVTWTSLINAYAFHGLAKEAIEVFEKMLSCGVIPDRISFLGVFSACSHCGLVT 478

Query: 483 EGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGA 542
           +GL YFNLM S Y I+PDS  YTCL DLLGR GL+ EA++ L SMP+E  S+TLGAFIG+
Sbjct: 479 KGLHYFNLMTSVYKIVPDSGQYTCLVDLLGRRGLINEAFEFLRSMPMEAESNTLGAFIGS 538

Query: 543 CKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER 581
           C +H +IG+AKWAAEKL   EP K VNYA++SN+YAS R
Sbjct: 539 CNLHENIGMAKWAAEKLFIKEPEKNVNYAVMSNIYASHR 577

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441630|ref|XP_004138585.1| PREDICTED: pentatricopeptide repeat-containing protein At2g46050, mitochondrial-like [Cucumis sativus]

 Score =  631 bits (1627), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 316/555 (56%), Positives = 399/555 (71%), Gaps = 18/555 (3%)

Query: 89  IMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTP 148
           ++KLGL N+LS+QN++L VYVKC+  D    LFDEM  RN+++    ++G+         
Sbjct: 51  VVKLGLVNELSVQNKLLRVYVKCRDLDSARNLFDEMARRNVLS----MAGM--------- 97

Query: 149 YFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYG 208
               ML+  V  D ITFN L R+CV  +D+E GR+LHSF++K+GF L+CFV SA+VD Y 
Sbjct: 98  ---EMLMGLVDPDGITFNGLFRSCVVLNDVESGRQLHSFVMKIGFDLDCFVGSAVVDFYA 154

Query: 209 KCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSS 268
           KCG  EDAR  F  +L RDLVLWNVM+ C   N L   AI VF LM+LEG KGD FTFSS
Sbjct: 155 KCGLYEDARLAFSCILYRDLVLWNVMLYCCVFNSLSREAIEVFRLMQLEGFKGDDFTFSS 214

Query: 269 LVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKN 328
           L++SC   GS +LG+Q+H L+IKQSFDLD+LVA+SLV++Y KN N+ DA +VFD M  +N
Sbjct: 215 LLSSCKYKGSGELGKQLHCLLIKQSFDLDILVASSLVNVYTKNDNLYDARKVFDEMPTRN 274

Query: 329 VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHA 388
            VSW TM+VG+GQ+  G+EAVKL R M +  +CPDE+T AS+LSSCG  S + E  QVH+
Sbjct: 275 SVSWTTMIVGYGQHEYGKEAVKLFRRMFRKDYCPDELTFASVLSSCGFTSGASELMQVHS 334

Query: 389 YAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKE 448
             IK G +AFLSI N LI AYSKCG IA ALQCF  + EPDLVTWTSII   A  GL K+
Sbjct: 335 CLIKLGFEAFLSINNGLIYAYSKCGIIAAALQCFRLIAEPDLVTWTSIICGLALCGLEKD 394

Query: 449 SIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLT 508
           ++++F+KMLS+ +RPD IAFL VLSACSHGG VS GL YFNLM + Y ++PDSEH TCL 
Sbjct: 395 AVKLFDKMLSYGIRPDKIAFLGVLSACSHGGFVSMGLHYFNLMTNQYQLVPDSEHLTCLI 454

Query: 509 DLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV 568
           DLLGR G L +A+DLL SMP E   D L AFI AC+ HG++ LAK A E     EP +PV
Sbjct: 455 DLLGRAGSLDQAFDLLKSMPKEAGPDALRAFIRACRTHGNLRLAKRAME--FASEPDEPV 512

Query: 569 NYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVH 628
           NY+LVSN+YASE  W DVAR+RK++ D C+ K PG SW+EIAG  H F+S DRSHPQ++ 
Sbjct: 513 NYSLVSNMYASEGRWSDVARMRKLINDRCEQKTPGLSWVEIAGYNHLFISGDRSHPQSLD 572

Query: 629 MYAMLCTVFGLMEEN 643
           +YAML  +   M+++
Sbjct: 573 LYAMLGLLLNTMKKD 587

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297824663|ref|XP_002880214.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297326053|gb|EFH56473.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  569 bits (1466), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 284/547 (51%), Positives = 368/547 (67%), Gaps = 15/547 (2%)

Query: 71  KVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIV 130
           K+SA    L   KQ H  ++K G  N L  QN++L  Y K + FDD +KLFDEM VRNIV
Sbjct: 44  KLSASLDHLFDVKQKHGFMVKQGTYNSLFFQNKLLQAYTKIREFDDADKLFDEMLVRNIV 103

Query: 131 TWNTLISGIINCGGNVTP-------YFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRR 183
           TWN LI G+I+  G+          Y  R LL  V LDH++F  L+R C  + ++E G +
Sbjct: 104 TWNILIHGVIHRDGDTNHRAHLGFCYLSRSLLSEVILDHVSFIGLIRLCTDSTNVEAGNQ 163

Query: 184 LHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCL 243
           LHS I+K G   NCF+S++LVD YGKCG + +AR+VF+ VL RDLVLWN +VS Y LN +
Sbjct: 164 LHSLIVKQGLESNCFLSTSLVDFYGKCGLIGEARQVFEAVLVRDLVLWNALVSSYVLNGM 223

Query: 244 GDGAIAVFNLMRLE--GMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVA 301
            D A  +  LM  E  G  GD FT SSL+++CG     K G+QIH +V K S+  D+ VA
Sbjct: 224 IDEAFGLLKLMSSEKNGFTGDDFTLSSLLSACGI----KQGKQIHAIVFKLSYLFDIPVA 279

Query: 302 TSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFC 361
           T+LV+MYAK+ ++ DA + F+ M  +N+VSWN M+VGFGQNG+GREA++L   ML+ +  
Sbjct: 280 TALVNMYAKSNHMSDAHKCFESMVVRNIVSWNAMIVGFGQNGEGREAMRLFGQMLRENLQ 339

Query: 362 PDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQC 421
           PDE+T AS+L SC   S   E +QV A   K G   FLS+ N+LI++YS+ G+++ AL C
Sbjct: 340 PDELTFASVLCSCTKFSAIWEIKQVQAMVTKKGSAEFLSVANSLISSYSRTGNLSEALLC 399

Query: 422 FGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLV 481
           F S++EPDLV+WTS+IGA A HG ++ES+ +FE ML   ++PD I FLEVLSACSHGGLV
Sbjct: 400 FHSIREPDLVSWTSVIGALASHGFAEESLRIFESML-QKLQPDKITFLEVLSACSHGGLV 458

Query: 482 SEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIG 541
            EGLR F  M   Y I P+ EHYTCL DLLGR G + EA+D+L SMP EP +  L AF G
Sbjct: 459 QEGLRCFKRMTEVYKIEPEEEHYTCLIDLLGRAGFIDEAFDVLKSMPTEPSTHALAAFTG 518

Query: 542 ACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC-DHK 600
           AC +H  I   KW A+KLLE+EPSKPVNY+++SN YASE  W   A LRK  R NC + K
Sbjct: 519 ACNIHEKIESMKWGAKKLLEIEPSKPVNYSIMSNAYASEGHWNQAALLRKKERRNCYNPK 578

Query: 601 VPGCSWI 607
             GCSW+
Sbjct: 579 TLGCSWL 585

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	665
TAIR|locus:2062939	590	AT2G46050 [Arabidopsis thalian	0.846	0.954	0.464	4.8e-133
TAIR|locus:2141171	857	AT4G21300 [Arabidopsis thalian	0.854	0.662	0.343	3.2e-97
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.864	0.660	0.337	1.6e-95
TAIR|locus:2122551	834	AT4G39530 [Arabidopsis thalian	0.903	0.720	0.332	7e-93
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.852	0.700	0.323	5.7e-91
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.881	0.658	0.328	1.2e-90
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.882	0.676	0.312	2.5e-90
TAIR|locus:2083631	689	AT3G15130 "AT3G15130" [Arabido	0.830	0.801	0.328	5.1e-90
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.846	0.662	0.322	7.5e-89
TAIR|locus:2096414	882	AT3G03580 [Arabidopsis thalian	0.840	0.633	0.326	2.1e-88

TAIR|locus:2062939 AT2G46050 [Arabidopsis thaliana (taxid:3702)]

 Score = 1304 (464.1 bits), Expect = 4.8e-133, P = 4.8e-133
 Identities = 271/584 (46%), Positives = 363/584 (62%)

Query:    34 ITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLG 93
             + N Q H    LSS L+N  TI  S+ S  +  S   K+SA    L   KQ H  ++K G
Sbjct:    13 LANHQNH----LSS-LQNIRTIPSSSSSPVAI-SSVSKLSASLDHLSDVKQEHGFMVKQG 66

Query:    94 LCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTP----- 148
             + N L LQN++L  Y K + FDD +KLFDEM +RNIVTWN LI G+I   G+        
Sbjct:    67 IYNSLFLQNKLLQAYTKIREFDDADKLFDEMPLRNIVTWNILIHGVIQRDGDTNHRAHLG 126

Query:   149 --YFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDL 206
               Y  R+L  +V LDH++F  L+R C  + +++ G +LH  ++K G   +CF S++LV  
Sbjct:   127 FCYLSRILFTDVSLDHVSFMGLIRLCTDSTNMKAGIQLHCLMVKQGLESSCFPSTSLVHF 186

Query:   207 YGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEG--MKGDYF 264
             YGKCG + +ARRVF+ VL RDLVLWN +VS Y LN + D A  +  LM  +    +GDYF
Sbjct:   187 YGKCGLIVEARRVFEAVLDRDLVLWNALVSSYVLNGMIDEAFGLLKLMGSDKNRFRGDYF 246

Query:   265 TFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGM 324
             TFSSL+++C      + G+QIH ++ K S+  D+ VAT+L++MYAK+ ++ DA   F+ M
Sbjct:   247 TFSSLLSACRI----EQGKQIHAILFKVSYQFDIPVATALLNMYAKSNHLSDARECFESM 302

Query:   325 TAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLAXXXXXXXXXXXXXETR 384
               +NVVSWN M+VGF QNG+GREA++L   ML  +  PDE+T A             E +
Sbjct:   303 VVRNVVSWNAMIVGFAQNGEGREAMRLFGQMLLENLQPDELTFASVLSSCAKFSAIWEIK 362

Query:   385 QVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHG 444
             QV A   K G   FLS+ N+LI++YS+ G+++ AL CF S++EPDLV+WTS+IGA A HG
Sbjct:   363 QVQAMVTKKGSADFLSVANSLISSYSRNGNLSEALLCFHSIREPDLVSWTSVIGALASHG 422

Query:   445 LSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHY 504
              ++ES+++FE ML   ++PD I FLEVLSACSHGGLV EGLR F  M   Y I  + EHY
Sbjct:   423 FAEESLQMFESMLQK-LQPDKITFLEVLSACSHGGLVQEGLRCFKRMTEFYKIEAEDEHY 481

Query:   505 TCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGXXXXXXXXXXXXXP 564
             TCL DLLGR G + EA D+L SMP EP +  L AF G C +H                 P
Sbjct:   482 TCLIDLLGRAGFIDEASDVLNSMPTEPSTHALAAFTGGCNIHEKRESMKWGAKKLLEIEP 541

Query:   565 SKPVNYALVSNVYASERCWFDVARLRKMMRDNC-DHKVPGCSWI 607
             +KPVNY+++SN Y SE  W   A LRK  R NC + K PGCSW+
Sbjct:   542 TKPVNYSILSNAYVSEGHWNQAALLRKRERRNCYNPKTPGCSWL 585

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 966 (345.1 bits), Expect = 3.2e-97, P = 3.2e-97
 Identities = 197/573 (34%), Positives = 327/573 (57%)

Query:    70 LKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNI 129
             L V A    +  G QLH  ++  G+  + S++N +L +Y KC  FDD  KLF  M   + 
Sbjct:   246 LSVCASKLLIDLGVQLHGLVVVSGVDFEGSIKNSLLSMYSKCGRFDDASKLFRMMSRADT 305

Query:   130 VTWNTLISGIINCG---GNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHS 186
             VTWN +ISG +  G    ++T +F  M+   V  D ITF+SLL +  + +++E  +++H 
Sbjct:   306 VTWNCMISGYVQSGLMEESLT-FFYEMISSGVLPDAITFSSLLPSVSKFENLEYCKQIHC 364

Query:   187 FILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDG 246
             +I++    L+ F++SAL+D Y KC  V  A+ +F +    D+V++  M+S Y  N L   
Sbjct:   365 YIMRHSISLDIFLTSALIDAYFKCRGVSMAQNIFSQCNSVDVVVFTAMISGYLHNGLYID 424

Query:   247 AIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVD 306
             ++ +F  +    +  +  T  S++   G L + KLGR++HG +IK+ FD    +  +++D
Sbjct:   425 SLEMFRWLVKVKISPNEITLVSILPVIGILLALKLGRELHGFIIKKGFDNRCNIGCAVID 484

Query:   307 MYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVT 366
             MYAK G ++ A  +F+ ++ +++VSWN+M+    Q+ +   A+ + R M     C D V+
Sbjct:   485 MYAKCGRMNLAYEIFERLSKRDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVS 544

Query:   367 LAXXXXXXXXXXXXXETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK 426
             ++               + +H + IK+ + + +  E+ LI+ Y+KCG++  A+  F ++K
Sbjct:   545 ISAALSACANLPSESFGKAIHGFMIKHSLASDVYSESTLIDMYAKCGNLKAAMNVFKTMK 604

Query:   427 EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHA-VRPDSIAFLEVLSACSHGGLVSEGL 485
             E ++V+W SII A   HG  K+S+ +F +M+  + +RPD I FLE++S+C H G V EG+
Sbjct:   605 EKNIVSWNSIIAACGNHGKLKDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGV 664

Query:   486 RYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKV 545
             R+F  M  DY I P  EHY C+ DL GR G L EAY+ + SMP  P +   G  +GAC++
Sbjct:   665 RFFRSMTEDYGIQPQQEHYACVVDLFGRAGRLTEAYETVKSMPFPPDAGVWGTLLGACRL 724

Query:   546 HGSIGXXXXXXXXXXXXXPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCS 605
             H ++              PS    Y L+SN +A+ R W  V ++R +M++    K+PG S
Sbjct:   725 HKNVELAEVASSKLMDLDPSNSGYYVLISNAHANAREWESVTKVRSLMKEREVQKIPGYS 784

Query:   606 WIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFG 638
             WIEI    H FVS D +HP++ H+Y++L ++ G
Sbjct:   785 WIEINKRTHLFVSGDVNHPESSHIYSLLNSLLG 817

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 950 (339.5 bits), Expect = 1.6e-95, P = 1.6e-95
 Identities = 196/581 (33%), Positives = 314/581 (54%)

Query:    72 VSAKFGFLQQ---GKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRN 128
             VS  F  L+    G+QLH  I+K G   + S+ N ++  Y+K +  D   K+FDEM  R+
Sbjct:   201 VSKSFSSLRSVHGGEQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERD 260

Query:   129 IVTWNTLISGIINCG--GNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHS 186
             +++WN++I+G ++ G        F +ML+  + +D  T  S+   C  +  I +GR +HS
Sbjct:   261 VISWNSIINGYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHS 320

Query:   187 FILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDG 246
               +K  F       + L+D+Y KCG ++ A+ VF E+  R +V +  M++ YA   L   
Sbjct:   321 IGVKACFSREDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGE 380

Query:   247 AIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVD 306
             A+ +F  M  EG+  D +T ++++N C        G+++H  + +     D+ V+ +L+D
Sbjct:   381 AVKLFEEMEEEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMD 440

Query:   307 MYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGS-FCPDEV 365
             MYAK G++ +A  VF  M  K+++SWNT++ G+ +N    EA+ L   +L+   F PDE 
Sbjct:   441 MYAKCGSMQEAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDER 500

Query:   366 TLAXXXXXXXXXXXXXETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSV 425
             T+A             + R++H Y ++NG  +   + N+L++ Y+KCG++  A   F  +
Sbjct:   501 TVACVLPACASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDI 560

Query:   426 KEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGL 485
                DLV+WT +I  Y  HG  KE+I +F +M    +  D I+F+ +L ACSH GLV EG 
Sbjct:   561 ASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGW 620

Query:   486 RYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKV 545
             R+FN+M  +  I P  EHY C+ D+L R G L++AY  + +MPI P +   GA +  C++
Sbjct:   621 RFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRI 680

Query:   546 HGSIGXXXXXXXXXXXXXPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCS 605
             H  +              P     Y L++N+YA    W  V RLRK +      K PGCS
Sbjct:   681 HHDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCS 740

Query:   606 WIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEENNVS 646
             WIEI G ++ FV+ D S+P+  ++ A L  V   M E   S
Sbjct:   741 WIEIKGRVNIFVAGDSSNPETENIEAFLRKVRARMIEEGYS 781

GO:0009507 "chloroplast" evidence=ISM

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

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

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

GO:0048366 "leaf development" evidence=IMP

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

 Score = 925 (330.7 bits), Expect = 7.0e-93, P = 7.0e-93
 Identities = 202/608 (33%), Positives = 325/608 (53%)

Query:    31 TTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKFGFLQQGKQLHSHIM 90
             TT I+   K  RS +S QL     + ++        S  L   +   FL+ GKQ+H+HI+
Sbjct:   218 TTMISGCVKMGRSYVSLQLFYQ-LMEDNVVPDGYILSTVLSACSILPFLEGGKQIHAHIL 276

Query:    91 KLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCG--GNVTP 148
             + GL    SL N ++  YVKC       KLF+ M  +NI++W TL+SG            
Sbjct:   277 RYGLEMDASLMNVLIDSYVKCGRVIAAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAME 336

Query:   149 YFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYG 208
              F  M    ++ D    +S+L +C     +  G ++H++ +K   G + +V+++L+D+Y 
Sbjct:   337 LFTSMSKFGLKPDMYACSSILTSCASLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYA 396

Query:   209 KCGFVEDARRVFDEVLCRDLVLWNVMVSCYA-LNCLGD--GAIAVFNLMRLEGMKGDYFT 265
             KC  + DAR+VFD     D+VL+N M+  Y+ L    +   A+ +F  MR   ++    T
Sbjct:   397 KCDCLTDARKVFDIFAAADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLT 456

Query:   266 FSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMT 325
             F SL+ +  +L S  L +QIHGL+ K   +LD+   ++L+D+Y+    + D+  VFD M 
Sbjct:   457 FVSLLRASASLTSLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMK 516

Query:   326 AKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLAXXXXXXXXXXXXXETRQ 385
              K++V WN+M  G+ Q  +  EA+ L  ++      PDE T A               ++
Sbjct:   517 VKDLVIWNSMFAGYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQE 576

Query:   386 VHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGL 445
              H   +K G++    I NAL++ Y+KCGS   A + F S    D+V W S+I +YA HG 
Sbjct:   577 FHCQLLKRGLECNPYITNALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSVISSYANHGE 636

Query:   446 SKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYT 505
              K+++++ EKM+S  + P+ I F+ VLSACSH GLV +GL+ F LM+  + I P++EHY 
Sbjct:   637 GKKALQMLEKMMSEGIEPNYITFVGVLSACSHAGLVEDGLKQFELMLR-FGIEPETEHYV 695

Query:   506 CLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGXXXXXXXXXXXXXPS 565
             C+  LLGR G L +A +L+  MP +P +    + +  C   G++              P 
Sbjct:   696 CMVSLLGRAGRLNKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDPK 755

Query:   566 KPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQ 625
                ++ ++SN+YAS+  W +  ++R+ M+     K PG SWI I  E+H F+S D+SH +
Sbjct:   756 DSGSFTMLSNIYASKGMWTEAKKVRERMKVEGVVKEPGRSWIGINKEVHIFLSKDKSHCK 815

Query:   626 AVHMYAML 633
             A  +Y +L
Sbjct:   816 ANQIYEVL 823

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 907 (324.3 bits), Expect = 5.7e-91, P = 5.7e-91
 Identities = 185/571 (32%), Positives = 302/571 (52%)

Query:    66 YSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMR 125
             ++  LKV      L+ GK++H  ++K G    L     + ++Y KC+  ++  K+FD M 
Sbjct:   138 FTYLLKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMP 197

Query:   126 VRNIVTWNTLISGIINCG--GNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRR 183
              R++V+WNT+++G    G         + M  +N++   IT  S+L A      I VG+ 
Sbjct:   198 ERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVGKE 257

Query:   184 LHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCL 243
             +H + ++ GF     +S+ALVD+Y KCG +E AR++FD +L R++V WN M+  Y  N  
Sbjct:   258 IHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQNEN 317

Query:   244 GDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATS 303
                A+ +F  M  EG+K    +    +++C  LG  + GR IH L ++   D +V V  S
Sbjct:   318 PKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVVNS 377

Query:   304 LVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD 363
             L+ MY K   +D A  +F  + ++ +VSWN M++GF QNG   +A+     M   +  PD
Sbjct:   378 LISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPD 437

Query:   364 EVTLAXXXXXXXXXXXXXETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFG 423
               T                 + +H   +++ +   + +  AL++ Y+KCG+I  A   F 
Sbjct:   438 TFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFD 497

Query:   424 SVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSE 483
              + E  + TW ++I  Y  HG  K ++E+FE+M    ++P+ + FL V+SACSH GLV  
Sbjct:   498 MMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGLVEA 557

Query:   484 GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGAC 543
             GL+ F +M  +Y I    +HY  + DLLGR G L EA+D +  MP++P  +  GA +GAC
Sbjct:   558 GLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLGAC 617

Query:   544 KVHGSIGXXXXXXXXXXXXXPSKPVNYALVSNVYASERCWFDVARLR-KMMRDNCDHKVP 602
             ++H ++              P     + L++N+Y +   W  V ++R  M+R     K P
Sbjct:   618 QIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGL-RKTP 676

Query:   603 GCSWIEIAGEIHTFVSSDRSHPQAVHMYAML 633
             GCS +EI  E+H+F S   +HP +  +YA L
Sbjct:   677 GCSMVEIKNEVHSFFSGSTAHPDSKKIYAFL 707

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

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

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

 Score = 904 (323.3 bits), Expect = 1.2e-90, P = 1.2e-90
 Identities = 199/605 (32%), Positives = 324/605 (53%)

Query:    79 LQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISG 138
             L  GKQ+H++ ++ G  N   + N ++ +Y K       + L      R++VTWNT++S 
Sbjct:   218 LMMGKQVHAYGLRKGELNSFII-NTLVAMYGKLGKLASSKVLLGSFGGRDLVTWNTVLSS 276

Query:   139 IINCGG--NVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVG-FGL 195
             +           Y R M+L+ V  D  T +S+L AC   + +  G+ LH++ LK G    
Sbjct:   277 LCQNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDE 336

Query:   196 NCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVF-NLM 254
             N FV SALVD+Y  C  V   RRVFD +  R + LWN M++ Y+ N     A+ +F  + 
Sbjct:   337 NSFVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGME 396

Query:   255 RLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNI 314
                G+  +  T + +V +C   G+      IHG V+K+  D D  V  +L+DMY++ G I
Sbjct:   397 ESAGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKI 456

Query:   315 DDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLL-------RDMLQG----SFCPD 363
             D A R+F  M  +++V+WNTM+ G+  +    +A+ LL       R + +G    S  P+
Sbjct:   457 DIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPN 516

Query:   364 EVTLAXXXXXXXXXXXXXETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFG 423
              +TL              + +++HAYAIKN +   +++ +AL++ Y+KCG +  + + F 
Sbjct:   517 SITLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFD 576

Query:   424 SVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSE 483
              + + +++TW  II AY  HG  +E+I++   M+   V+P+ + F+ V +ACSH G+V E
Sbjct:   577 QIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDE 636

Query:   484 GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIE-PRSDTLGAFIGA 542
             GLR F +M  DY + P S+HY C+ DLLGR G + EAY L+  MP +  ++    + +GA
Sbjct:   637 GLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGA 696

Query:   543 CKVHGSIGXXXXXXXXXXXXXPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVP 602
              ++H ++              P+   +Y L++N+Y+S   W     +R+ M++    K P
Sbjct:   697 SRIHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEP 756

Query:   603 GCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLM-EENNVSG-HCNVLDKEMDECT 660
             GCSWIE   E+H FV+ D SHPQ+  +   L T++  M +E  V    C + + E DE  
Sbjct:   757 GCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVPDTSCVLHNVEEDEKE 816

Query:   661 LWLPG 665
             + L G
Sbjct:   817 ILLCG 821

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 901 (322.2 bits), Expect = 2.5e-90, P = 2.5e-90
 Identities = 189/604 (31%), Positives = 334/604 (55%)

Query:    36 NAQKHDRSVLSSQLRNSGTIHESTHSAHSF-YSQALKVSAKFGFLQQGKQLHSHIMKLGL 94
             N+   +   L  +++N GT        +SF ++ AL V A+ G   +G Q+H+ ++K GL
Sbjct:   172 NSMNDEVLTLFMRMQNEGT------QPNSFTFAAALGVLAEEGVGGRGLQVHTVVVKNGL 225

Query:    95 CNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPY--FRR 152
                + + N ++++Y+KC        LFD+  V+++VTWN++ISG    G ++     F  
Sbjct:   226 DKTIPVSNSLINLYLKCGNVRKARILFDKTEVKSVVTWNSMISGYAANGLDLEALGMFYS 285

Query:   153 MLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGF 212
             M L+ VRL   +F S+++ C    ++    +LH  ++K GF  +  + +AL+  Y KC  
Sbjct:   286 MRLNYVRLSESSFASVIKLCANLKELRFTEQLHCSVVKYGFLFDQNIRTALMVAYSKCTA 345

Query:   213 VEDARRVFDEVLC-RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVN 271
             + DA R+F E+ C  ++V W  M+S +  N   + A+ +F+ M+ +G++ + FT+S ++ 
Sbjct:   346 MLDALRLFKEIGCVGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILT 405

Query:   272 SCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVS 331
             +   +  S    ++H  V+K +++    V T+L+D Y K G +++A +VF G+  K++V+
Sbjct:   406 ALPVISPS----EVHAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVA 461

Query:   332 WNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLAXXXXX-XXXXXXXXETRQVHAYA 390
             W+ M+ G+ Q G+   A+K+  ++ +G   P+E T +              + +Q H +A
Sbjct:   462 WSAMLAGYAQTGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFA 521

Query:   391 IKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESI 450
             IK+ + + L + +AL+  Y+K G+I  A + F   +E DLV+W S+I  YA HG + +++
Sbjct:   522 IKSRLDSSLCVSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKAL 581

Query:   451 EVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDL 510
             +VF++M    V+ D + F+ V +AC+H GLV EG +YF++M+ D  I P  EH +C+ DL
Sbjct:   582 DVFKEMKKRKVKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDL 641

Query:   511 LGRVGLLVEAYDLLASMPIEPRSDTLG-AFIGACKVHGSIGXXXXXXXXXXXXXPSKPVN 569
               R G L +A  ++ +MP  P   T+    + AC+VH                 P     
Sbjct:   642 YSRAGQLEKAMKVIENMP-NPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAA 700

Query:   570 YALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHM 629
             Y L+SN+YA    W + A++RK+M +    K PG SWIE+  + ++F++ DRSHP    +
Sbjct:   701 YVLLSNMYAESGDWQERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQI 760

Query:   630 YAML 633
             Y  L
Sbjct:   761 YMKL 764

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2083631 AT3G15130 "AT3G15130" [Arabidopsis thaliana (taxid:3702)]

 Score = 898 (321.2 bits), Expect = 5.1e-90, P = 5.1e-90
 Identities = 185/564 (32%), Positives = 308/564 (54%)

Query:    70 LKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNI 129
             L+V  + G   QG Q+H +++K G    L   N ++ +Y KC+      K+FD M  RN+
Sbjct:    13 LRVCTRKGLSDQGGQVHCYLLKSGSGLNLITSNYLIDMYCKCREPLMAYKVFDSMPERNV 72

Query:   130 VTWNTLISG-IIN--CGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHS 186
             V+W+ L+SG ++N    G+++  F  M    +  +  TF++ L+AC   + +E G ++H 
Sbjct:    73 VSWSALMSGHVLNGDLKGSLS-LFSEMGRQGIYPNEFTFSTNLKACGLLNALEKGLQIHG 131

Query:   187 FILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDG 246
             F LK+GF +   V ++LVD+Y KCG + +A +VF  ++ R L+ WN M++ +     G  
Sbjct:   132 FCLKIGFEMMVEVGNSLVDMYSKCGRINEAEKVFRRIVDRSLISWNAMIAGFVHAGYGSK 191

Query:   247 AIAVFNLMRLEGMKG--DYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDL--DVLVAT 302
             A+  F +M+   +K   D FT +SL+ +C + G    G+QIHG +++  F       +  
Sbjct:   192 ALDTFGMMQEANIKERPDEFTLTSLLKACSSTGMIYAGKQIHGFLVRSGFHCPSSATITG 251

Query:   303 SLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCP 362
             SLVD+Y K G +  A + FD +  K ++SW+++++G+ Q G+  EA+ L + + + +   
Sbjct:   252 SLVDLYVKCGYLFSARKAFDQIKEKTMISWSSLILGYAQEGEFVEAMGLFKRLQELNSQI 311

Query:   363 DEVTLAXXXXXXXXXXXXXETRQVHAYAIK--NGVQAFLSIENALINAYSKCGSIAGALQ 420
             D   L+             + +Q+ A A+K  +G++   S+ N++++ Y KCG +  A +
Sbjct:   312 DSFALSSIIGVFADFALLRQGKQMQALAVKLPSGLET--SVLNSVVDMYLKCGLVDEAEK 369

Query:   421 CFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGL 480
             CF  ++  D+++WT +I  Y  HGL K+S+ +F +ML H + PD + +L VLSACSH G+
Sbjct:   370 CFAEMQLKDVISWTVVITGYGKHGLGKKSVRIFYEMLRHNIEPDEVCYLAVLSACSHSGM 429

Query:   481 VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFI 540
             + EG   F+ ++  + I P  EHY C+ DLLGR G L EA  L+ +MPI+P        +
Sbjct:   430 IKEGEELFSKLLETHGIKPRVEHYACVVDLLGRAGRLKEAKHLIDTMPIKPNVGIWQTLL 489

Query:   541 GACKVHGSIGXXXXXXXXXXXXXPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHK 600
               C+VHG I                 P NY ++SN+Y     W +    R++       K
Sbjct:   490 SLCRVHGDIELGKEVGKILLRIDAKNPANYVMMSNLYGQAGYWNEQGNARELGNIKGLKK 549

Query:   601 VPGCSWIEIAGEIHTFVSSDRSHP 624
               G SW+EI  E+H F S + SHP
Sbjct:   550 EAGMSWVEIEREVHFFRSGEDSHP 573

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 887 (317.3 bits), Expect = 7.5e-89, P = 7.5e-89
 Identities = 185/574 (32%), Positives = 316/574 (55%)

Query:    66 YSQALKVSAKFGFLQQGKQLHSHIMKLG-LCNKLSLQNQVLHVYVKCK-AFDDMEKLFDE 123
             Y+  ++  +   F+  G+     +MK G   + + +   ++ ++VK + +F++  K+FD+
Sbjct:   169 YTAVIRACSNSDFVGVGRVTLGFLMKTGHFESDVCVGCSLIDMFVKGENSFENAYKVFDK 228

Query:   124 MRVRNIVTWNTLISGIINCG--GNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVG 181
             M   N+VTW  +I+  +  G       +F  M+L     D  T +S+  AC + +++ +G
Sbjct:   229 MSELNVVTWTLMITRCMQMGFPREAIRFFLDMVLSGFESDKFTLSSVFSACAELENLSLG 288

Query:   182 RRLHSFILKVGFGLNCFVSSALVDLYGKC---GFVEDARRVFDEVLCRDLVLWNVMVSCY 238
             ++LHS+ ++ G  L   V  +LVD+Y KC   G V+D R+VFD +    ++ W  +++ Y
Sbjct:   289 KQLHSWAIRSG--LVDDVECSLVDMYAKCSADGSVDDCRKVFDRMEDHSVMSWTALITGY 346

Query:   239 ALNC-LGDGAIAVFNLMRLEG-MKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDL 296
               NC L   AI +F+ M  +G ++ ++FTFSS   +CG L   ++G+Q+ G   K+    
Sbjct:   347 MKNCNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGNLSDPRVGKQVLGQAFKRGLAS 406

Query:   297 DVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDML 356
             +  VA S++ M+ K+  ++DA R F+ ++ KN+VS+NT + G  +N +  +A KLL ++ 
Sbjct:   407 NSSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNFEQAFKLLSEIT 466

Query:   357 QGSFCPDEVTLAXXXXXXXXXXXXXETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIA 416
             +        T A             +  Q+H+  +K G+     + NALI+ YSKCGSI 
Sbjct:   467 ERELGVSAFTFASLLSGVANVGSIRKGEQIHSQVVKLGLSCNQPVCNALISMYSKCGSID 526

Query:   417 GALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS 476
              A + F  ++  ++++WTS+I  +A HG +   +E F +M+   V+P+ + ++ +LSACS
Sbjct:   527 TASRVFNFMENRNVISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNEVTYVAILSACS 586

Query:   477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTL 536
             H GLVSEG R+FN M  D+ I P  EHY C+ DLL R GLL +A++ + +MP +      
Sbjct:   587 HVGLVSEGWRHFNSMYEDHKIKPKMEHYACMVDLLCRAGLLTDAFEFINTMPFQADVLVW 646

Query:   537 GAFIGACKVHGSIGXXXXXXXXXXXXXPSKPVNYALVSNVYASERCWFDVARLRKMMRDN 596
               F+GAC+VH +               P++P  Y  +SN+YA    W +   +R+ M++ 
Sbjct:   647 RTFLGACRVHSNTELGKLAARKILELDPNEPAAYIQLSNIYACAGKWEESTEMRRKMKER 706

Query:   597 CDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMY 630
                K  GCSWIE+  +IH F   D +HP A  +Y
Sbjct:   707 NLVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQIY 740

GO:0009507 "chloroplast" evidence=ISM

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

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

 Score = 861 (308.1 bits), Expect = 2.1e-88, Sum P(2) = 2.1e-88
 Identities = 185/566 (32%), Positives = 303/566 (53%)

Query:    79 LQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISG 138
             ++QG+ LH   +K G+ + + + N ++ +Y+K +   D  ++FDEM VR+ V++NT+I G
Sbjct:   223 VKQGQGLHGFALKSGVNSVVVVNNGLVAMYLKFRRPTDARRVFDEMDVRDSVSYNTMICG 282

Query:   139 IINCGGNVTPYFRRML--LDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLN 196
              +     V    R  L  LD  + D +T +S+LRAC    D+ + + +++++LK GF L 
Sbjct:   283 YLKLE-MVEESVRMFLENLDQFKPDLLTVSSVLRACGHLRDLSLAKYIYNYMLKAGFVLE 341

Query:   197 CFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGD--GAIAVFNLM 254
               V + L+D+Y KCG +  AR VF+ + C+D V WN ++S Y  +  GD   A+ +F +M
Sbjct:   342 STVRNILIDVYAKCGDMITARDVFNSMECKDTVSWNSIISGYIQS--GDLMEAMKLFKMM 399

Query:   255 RLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNI 314
              +   + D+ T+  L++    L   K G+ +H   IK    +D+ V+ +L+DMYAK G +
Sbjct:   400 MIMEEQADHITYLMLISVSTRLADLKFGKGLHSNGIKSGICIDLSVSNALIDMYAKCGEV 459

Query:   315 DDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLAXXXXXX 374
              D+ ++F  M   + V+WNT++    + GD    +++   M +    PD  T        
Sbjct:   460 GDSLKIFSSMGTGDTVTWNTVISACVRFGDFATGLQVTTQMRKSEVVPDMATFLVTLPMC 519

Query:   375 XXXXXXXETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWT 434
                      +++H   ++ G ++ L I NALI  YSKCG +  + + F  +   D+VTWT
Sbjct:   520 ASLAAKRLGKEIHCCLLRFGYESELQIGNALIEMYSKCGCLENSSRVFERMSRRDVVTWT 579

Query:   435 SIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISD 494
              +I AY  +G  ++++E F  M    + PDS+ F+ ++ ACSH GLV EGL  F  M + 
Sbjct:   580 GMIYAYGMYGEGEKALETFADMEKSGIVPDSVVFIAIIYACSHSGLVDEGLACFEKMKTH 639

Query:   495 YHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGXXXX 554
             Y I P  EHY C+ DLL R   + +A + + +MPI+P +    + + AC+  G +     
Sbjct:   640 YKIDPMIEHYACVVDLLSRSQKISKAEEFIQAMPIKPDASIWASVLRACRTSGDMETAER 699

Query:   555 XXXXXXXXXPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIH 614
                      P  P    L SN YA+ R W  V+ +RK ++D    K PG SWIE+   +H
Sbjct:   700 VSRRIIELNPDDPGYSILASNAYAALRKWDKVSLIRKSLKDKHITKNPGYSWIEVGKNVH 759

Query:   615 TFVSSDRSHPQAVHMYAMLCTVFGLM 640
              F S D S PQ+  +Y  L  ++ LM
Sbjct:   760 VFSSGDDSAPQSEAIYKSLEILYSLM 785

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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	665
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-136
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-103
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-80
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-66
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-59
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-32
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-12
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	4e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-04
pfam01535	31	pfam01535, PPR, PPR repeat	8e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.004

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

 Score =  420 bits (1082), Expect = e-136
 Identities = 195/583 (33%), Positives = 324/583 (55%), Gaps = 9/583 (1%)

Query: 79  LQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISG 138
           L +G+++H+H+++ G    + + N ++ +YVKC        +FD M  R+ ++WN +ISG
Sbjct: 203 LARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISG 262

Query: 139 IIN---CGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGL 195
                 C   +  +F  M   +V  D +T  S++ AC    D  +GR +H +++K GF +
Sbjct: 263 YFENGECLEGLELFFT-MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAV 321

Query: 196 NCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMR 255
           +  V ++L+ +Y   G   +A +VF  +  +D V W  M+S Y  N L D A+  + LM 
Sbjct: 322 DVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALME 381

Query: 256 LEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNID 315
            + +  D  T +S++++C  LG   +G ++H L  ++     V+VA +L++MY+K   ID
Sbjct: 382 QDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCID 441

Query: 316 DACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCG 375
            A  VF  +  K+V+SW +++ G   N    EA+   R ML  +  P+ VTL + LS+C 
Sbjct: 442 KALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACA 500

Query: 376 SLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTS 435
            +      +++HA+ ++ G+     + NAL++ Y +CG +  A   F +  E D+V+W  
Sbjct: 501 RIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-NSHEKDVVSWNI 559

Query: 436 IIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDY 495
           ++  Y  HG    ++E+F +M+   V PD + F+ +L ACS  G+V++GL YF+ M   Y
Sbjct: 560 LLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKY 619

Query: 496 HILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWA 555
            I P+ +HY C+ DLLGR G L EAY+ +  MPI P     GA + AC++H  + L + A
Sbjct: 620 SITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELA 679

Query: 556 AEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHT 615
           A+ + EL+P+    Y L+ N+YA    W +VAR+RK MR+N     PGCSW+E+ G++H 
Sbjct: 680 AQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHA 739

Query: 616 FVSSDRSHPQAVHMYAMLCTVFGLMEENNVSGHCNVLDKEMDE 658
           F++ D SHPQ   +  +L   +  M+    SG        MDE
Sbjct: 740 FLTDDESHPQIKEINTVLEGFYEKMKA---SGLAGSESSSMDE 779

Length = 857

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

 Score =  328 bits (842), Expect = e-103
 Identities = 158/485 (32%), Positives = 267/485 (55%), Gaps = 7/485 (1%)

Query: 160 LDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRV 219
           L   T+++L+ AC+    I   + ++  +   GF  + ++ + ++ ++ KCG + DARR+
Sbjct: 121 LPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRL 180

Query: 220 FDEVLCRDLVLWNVMVSCYALNCLGD--GAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLG 277
           FDE+  R+L  W  ++    L   G+   A A+F  M  +G   +  TF  ++ +   LG
Sbjct: 181 FDEMPERNLASWGTIIG--GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLG 238

Query: 278 SSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVV 337
           S++ G+Q+H  V+K     D  V+ +L+DMY+K G+I+DA  VFDGM  K  V+WN+M+ 
Sbjct: 239 SARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLA 298

Query: 338 GFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQA 397
           G+  +G   EA+ L  +M       D+ T + ++     L++    +Q HA  I+ G   
Sbjct: 299 GYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPL 358

Query: 398 FLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKML 457
            +    AL++ YSK G +  A   F  +   +L++W ++I  Y  HG   +++E+FE+M+
Sbjct: 359 DIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMI 418

Query: 458 SHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLL 517
           +  V P+ + FL VLSAC + GL  +G   F  M  ++ I P + HY C+ +LLGR GLL
Sbjct: 419 AEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLL 478

Query: 518 VEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVY 577
            EAY ++   P +P  +   A + AC++H ++ L + AAEKL  + P K  NY ++ N+Y
Sbjct: 479 DEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLY 538

Query: 578 ASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVF 637
            S     + A++ + ++       P C+WIE+  + H+F S DR HPQ+  +Y  L    
Sbjct: 539 NSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDE-- 596

Query: 638 GLMEE 642
            LM+E
Sbjct: 597 -LMKE 600

Length = 697

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

 Score =  271 bits (695), Expect = 3e-80
 Identities = 155/507 (30%), Positives = 250/507 (49%), Gaps = 31/507 (6%)

Query: 8   PPIFTVHFKRPLSYLTPALYQNQTTTITNAQKHDRSV-LSSQLRNSGTIHESTHSAHSFY 66
           PP F ++  +P  +   +          N     RS  LS    +S + H+S     +  
Sbjct: 3   PPHFYLNPGKPNLFQLASHKAPNVLPYWNFHGRKRSRGLSVAASSSSSTHDSNSQLRALC 62

Query: 67  S-----QALKVSAKFGFLQ----------------------QGKQLHSHIMKLGLCNKLS 99
           S     QALK+      L+                      +G ++ S  +       + 
Sbjct: 63  SHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVR 122

Query: 100 LQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCG--GNVTPYFRRMLLDN 157
           L N +L ++V+         +F +M  R++ +WN L+ G    G        + RML   
Sbjct: 123 LGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG 182

Query: 158 VRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDAR 217
           VR D  TF  +LR C    D+  GR +H+ +++ GF L+  V +AL+ +Y KCG V  AR
Sbjct: 183 VRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSAR 242

Query: 218 RVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLG 277
            VFD +  RD + WN M+S Y  N      + +F  MR   +  D  T +S++++C  LG
Sbjct: 243 LVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG 302

Query: 278 SSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVV 337
             +LGR++HG V+K  F +DV V  SL+ MY   G+  +A +VF  M  K+ VSW  M+ 
Sbjct: 303 DERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMIS 362

Query: 338 GFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQA 397
           G+ +NG   +A++    M Q +  PDE+T+AS+LS+C  L       ++H  A + G+ +
Sbjct: 363 GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLIS 422

Query: 398 FLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKML 457
           ++ + NALI  YSKC  I  AL+ F ++ E D+++WTSII     +    E++  F +ML
Sbjct: 423 YVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML 482

Query: 458 SHAVRPDSIAFLEVLSACSHGGLVSEG 484
              ++P+S+  +  LSAC+  G +  G
Sbjct: 483 LT-LKPNSVTLIAALSACARIGALMCG 508

Length = 857

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

 Score =  230 bits (587), Expect = 5e-66
 Identities = 108/294 (36%), Positives = 169/294 (57%), Gaps = 2/294 (0%)

Query: 83  KQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINC 142
           K ++ H+   G      + N+VL ++VKC    D  +LFDEM  RN+ +W T+I G+++ 
Sbjct: 143 KAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDA 202

Query: 143 GGNVTPY--FRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVS 200
           G     +  FR M  D    +  TF  +LRA         G++LH  +LK G   + FVS
Sbjct: 203 GNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVS 262

Query: 201 SALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMK 260
            AL+D+Y KCG +EDAR VFD +  +  V WN M++ YAL+   + A+ ++  MR  G+ 
Sbjct: 263 CALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVS 322

Query: 261 GDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRV 320
            D FTFS ++     L   +  +Q H  +I+  F LD++  T+LVD+Y+K G ++DA  V
Sbjct: 323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNV 382

Query: 321 FDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSC 374
           FD M  KN++SWN ++ G+G +G G +AV++   M+     P+ VT  ++LS+C
Sbjct: 383 FDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC 436

Length = 697

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

 Score =  212 bits (542), Expect = 5e-59
 Identities = 108/341 (31%), Positives = 180/341 (52%)

Query: 158 VRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDAR 217
           V +D   + +L R C     +E G R+ S  L     L   + +A++ ++ + G +  A 
Sbjct: 82  VPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAW 141

Query: 218 RVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLG 277
            VF ++  RDL  WNV+V  YA     D A+ +++ M   G++ D +TF  ++ +CG + 
Sbjct: 142 YVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIP 201

Query: 278 SSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVV 337
               GR++H  V++  F+LDV V  +L+ MY K G++  A  VFD M  ++ +SWN M+ 
Sbjct: 202 DLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMIS 261

Query: 338 GFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQA 397
           G+ +NG+  E ++L   M + S  PD +T+ S++S+C  L      R++H Y +K G   
Sbjct: 262 GYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAV 321

Query: 398 FLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKML 457
            +S+ N+LI  Y   GS   A + F  ++  D V+WT++I  Y  +GL  +++E +  M 
Sbjct: 322 DVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALME 381

Query: 458 SHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHIL 498
              V PD I    VLSAC+  G +  G++   L      I 
Sbjct: 382 QDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLIS 422

Length = 857

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

 Score =  133 bits (336), Expect = 2e-32
 Identities = 64/219 (29%), Positives = 118/219 (53%), Gaps = 2/219 (0%)

Query: 69  ALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRN 128
            L+ SA  G  + G+QLH  ++K G+     +   ++ +Y KC   +D   +FD M  + 
Sbjct: 230 MLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKT 289

Query: 129 IVTWNTLISGII--NCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHS 186
            V WN++++G             +  M    V +D  TF+ ++R   +   +E  ++ H+
Sbjct: 290 TVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHA 349

Query: 187 FILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDG 246
            +++ GF L+   ++ALVDLY K G +EDAR VFD +  ++L+ WN +++ Y  +  G  
Sbjct: 350 GLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTK 409

Query: 247 AIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQI 285
           A+ +F  M  EG+  ++ TF +++++C   G S+ G +I
Sbjct: 410 AVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448

Length = 697

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

 Score = 69.9 bits (171), Expect = 3e-12
 Identities = 46/151 (30%), Positives = 76/151 (50%), Gaps = 4/151 (2%)

Query: 69  ALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRN 128
           AL   A+ G L  GK++H+H+++ G+     L N +L +YV+C   +     F+    ++
Sbjct: 495 ALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE-KD 553

Query: 129 IVTWNTLISGII--NCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRL-H 185
           +V+WN L++G +    G      F RM+   V  D +TF SLL AC ++  +  G    H
Sbjct: 554 VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFH 613

Query: 186 SFILKVGFGLNCFVSSALVDLYGKCGFVEDA 216
           S   K     N    + +VDL G+ G + +A
Sbjct: 614 SMEEKYSITPNLKHYACVVDLLGRAGKLTEA 644

Length = 857

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

 Score = 67.6 bits (165), Expect = 1e-11
 Identities = 32/121 (26%), Positives = 62/121 (51%), Gaps = 2/121 (1%)

Query: 66  YSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMR 125
           +S  +++ ++   L+  KQ H+ +++ G    +     ++ +Y K    +D   +FD M 
Sbjct: 328 FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP 387

Query: 126 VRNIVTWNTLISGIINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRR 183
            +N+++WN LI+G  N G        F RM+ + V  +H+TF ++L AC  +   E G  
Sbjct: 388 RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWE 447

Query: 184 L 184
           +
Sbjct: 448 I 448

Length = 697

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

 Score = 63.4 bits (154), Expect = 3e-10
 Identities = 61/222 (27%), Positives = 100/222 (45%), Gaps = 17/222 (7%)

Query: 344 DGR--EAVKLLRDMLQ-GSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLS 400
           DGR  + + LL DM + G    D++  A    +C     + +     A  I+N     LS
Sbjct: 383 DGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQR-AVKEAFRFAKLIRNPT---LS 438

Query: 401 IENALINAYSKCGSIAGALQCFGSVKE----PDLVTWTSIIGAYAFHGLSKESIEVFEKM 456
             N L++  +    I GAL+    V+E     D   +T++I   A  G      EVF +M
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 457 LSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL 516
           ++  V  +   F  ++  C+  G V++    + +M S  ++ PD   +  L    G+ G 
Sbjct: 499 VNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK-NVKPDRVVFNALISACGQSGA 557

Query: 517 LVEAYDLLASM-----PIEPRSDTLGAFIGACKVHGSIGLAK 553
           +  A+D+LA M     PI+P   T+GA + AC   G +  AK
Sbjct: 558 VDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK 599

Length = 1060

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

 Score = 59.9 bits (145), Expect = 3e-09
 Identities = 83/377 (22%), Positives = 153/377 (40%), Gaps = 47/377 (12%)

Query: 164 TFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEV 223
           TFN L+  C  + DI+   R+   + + G   +C + + L+    K G V+    VF E 
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHE- 497

Query: 224 LCRDLVLWNVMVSCYALNCLGDG---------AIAVFNLMRLEGMKGDYFTFSSLVNSCG 274
               +V   V  + +    L DG         A   + +MR + +K D   F++L+++CG
Sbjct: 498 ----MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG 553

Query: 275 TLGSSKLGRQIHGLVIKQSFDL-------------DVLVATSLVDMYAKNGNIDDACRVF 321
             G+           + ++FD+             D +   +L+   A  G +D A  V+
Sbjct: 554 QSGA-----------VDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY 602

Query: 322 DGMTAKNV---VSWNTMVVGF-GQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSL 377
             +   N+       T+ V    Q GD   A+ +  DM +    PDEV  ++++   G  
Sbjct: 603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHA 662

Query: 378 SISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK----EPDLVTW 433
               +  ++   A K G++      ++L+ A S   +   AL+ +  +K     P + T 
Sbjct: 663 GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTM 722

Query: 434 TSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMIS 493
            ++I A        +++EV  +M    + P++I +  +L A         GL   +    
Sbjct: 723 NALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE 782

Query: 494 DYHILPDSEHYTCLTDL 510
           D  I P+     C+T L
Sbjct: 783 D-GIKPNLVMCRCITGL 798

Length = 1060

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

 Score = 57.2 bits (138), Expect = 2e-08
 Identities = 41/193 (21%), Positives = 84/193 (43%), Gaps = 5/193 (2%)

Query: 337 VGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSL-SISCETRQVHAYAIKNGV 395
           V  G++ +  E  ++L       F     T  +++ +C +L SI C    V+ +   +G 
Sbjct: 98  VACGRHREALELFEILE--AGCPFTLPASTYDALVEACIALKSIRCVKA-VYWHVESSGF 154

Query: 396 QAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEK 455
           +    + N ++  + KCG +  A + F  + E +L +W +IIG     G  +E+  +F +
Sbjct: 155 EPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFRE 214

Query: 456 MLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVG 515
           M       +   F+ +L A +  G    G +  +  +    ++ D+     L D+  + G
Sbjct: 215 MWEDGSDAEPRTFVVMLRASAGLGSARAG-QQLHCCVLKTGVVGDTFVSCALIDMYSKCG 273

Query: 516 LLVEAYDLLASMP 528
            + +A  +   MP
Sbjct: 274 DIEDARCVFDGMP 286

Length = 697

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

 Score = 48.6 bits (117), Expect = 9e-08
 Identities = 13/48 (27%), Positives = 27/48 (56%)

Query: 327 KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSC 374
            +VV++NT++ G+ + G   EA+KL  +M +    P+  T + ++   
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 44.7 bits (107), Expect = 2e-06
 Identities = 11/50 (22%), Positives = 27/50 (54%)

Query: 428 PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSH 477
           PD+VT+ ++I  Y   G  +E++++F +M    ++P+   +  ++     
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 = 48.3 bits (115), Expect = 1e-05
 Identities = 64/311 (20%), Positives = 121/311 (38%), Gaps = 56/311 (18%)

Query: 265 TFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGM 324
           TF+ L++ C +        ++  LV +     D  + T+L+   AK+G +D    VF  M
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 325 TAK----NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSIS 380
                  NV ++  ++ G  + G   +A      M   +  PD V               
Sbjct: 499 VNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRV--------------- 543

Query: 381 CETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK------EPDLVTWT 434
                               + NALI+A  + G++  A      +K      +PD +T  
Sbjct: 544 --------------------VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVG 583

Query: 435 SIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISD 494
           +++ A A  G    + EV++ +  + ++     +   +++CS  G     L  ++ M   
Sbjct: 584 ALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK 643

Query: 495 YHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMP---IEPRSDTLGAFIGACKVHGSIGL 551
             + PD   ++ L D+ G  G L +A+++L       I+  + +  + +GAC        
Sbjct: 644 -GVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACS-----NA 697

Query: 552 AKWAAEKLLEL 562
             W  +K LEL
Sbjct: 698 KNW--KKALEL 706

Length = 1060

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

 Score = 39.0 bits (92), Expect = 2e-04
 Identities = 11/35 (31%), Positives = 21/35 (60%)

Query: 330 VSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDE 364
           V++NT++ G  + G   EA++L ++M +    PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 38.5 bits (91), Expect = 3e-04
 Identities = 13/47 (27%), Positives = 27/47 (57%)

Query: 227 DLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSC 273
           D+V +N ++  Y      + A+ +FN M+  G+K + +T+S L++  
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 37.8 bits (89), Expect = 4e-04
 Identities = 8/28 (28%), Positives = 20/28 (71%)

Query: 330 VSWNTMVVGFGQNGDGREAVKLLRDMLQ 357
           V++N+++ G+ + G   EA++L ++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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 42.6 bits (100), Expect = 6e-04
 Identities = 58/273 (21%), Positives = 113/273 (41%), Gaps = 28/273 (10%)

Query: 124 MRVRNI----VTWNTLISGIINCG--GNVTPYFRRMLLD------NVRLDHITFNSLLRA 171
           MR +N+    V +N LIS    CG  G V   F  +L +       +  DHIT  +L++A
Sbjct: 533 MRSKNVKPDRVVFNALISA---CGQSGAVDRAFD-VLAEMKAETHPIDPDHITVGALMKA 588

Query: 172 CVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR----D 227
           C  A  ++  + ++  I +        V +  V+   + G  + A  ++D++  +    D
Sbjct: 589 CANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPD 648

Query: 228 LVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHG 287
            V ++ +V         D A  +    R +G+K    ++SSL+ +C    + K   +++ 
Sbjct: 649 EVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE 708

Query: 288 LVIKQSFDLDVLVAT--SLVDMYAKNGNIDDACRVFDGMT----AKNVVSWNTMVVGFGQ 341
            +  +S  L   V+T  +L+    +   +  A  V   M       N ++++ ++V   +
Sbjct: 709 DI--KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER 766

Query: 342 NGDGREAVKLLRDMLQGSFCPDEVTLASILSSC 374
             D    + LL    +    P+ V    I   C
Sbjct: 767 KDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC 799

Length = 1060

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

 Score = 37.8 bits (89), Expect = 6e-04
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 4/41 (9%)

Query: 102 NQVLHVYVKCKAFDDMEKLFDEMRVR----NIVTWNTLISG 138
           N ++  Y K    ++  KLF+EM+ R    N+ T++ LI G
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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

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

 Score = 37.0 bits (87), Expect = 8e-04
 Identities = 10/29 (34%), Positives = 18/29 (62%)

Query: 431 VTWTSIIGAYAFHGLSKESIEVFEKMLSH 459
           VT+ S+I  Y   G  +E++E+F++M   
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEK 29

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

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

 Score = 37.0 bits (87), Expect = 0.001
 Identities = 12/47 (25%), Positives = 21/47 (44%), Gaps = 2/47 (4%)

Query: 128 NIVTWNTLISGIINCG--GNVTPYFRRMLLDNVRLDHITFNSLLRAC 172
           ++VT+NTLI G    G        F  M    ++ +  T++ L+   
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 36.6 bits (86), Expect = 0.001
 Identities = 12/28 (42%), Positives = 20/28 (71%)

Query: 328 NVVSWNTMVVGFGQNGDGREAVKLLRDM 355
           +VV++NT++ G  + G   EAV+LL +M
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 36.2 bits (85), Expect = 0.002
 Identities = 13/47 (27%), Positives = 28/47 (59%), Gaps = 4/47 (8%)

Query: 297 DVLVATSLVDMYAKNGNIDDACRVFDGMTAK----NVVSWNTMVVGF 339
           DV+   +L+D Y K G +++A ++F+ M  +    NV +++ ++ G 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 35.0 bits (82), Expect = 0.004
 Identities = 9/30 (30%), Positives = 19/30 (63%)

Query: 427 EPDLVTWTSIIGAYAFHGLSKESIEVFEKM 456
           +PD+VT+ ++I      G   E++E+ ++M
Sbjct: 4   KPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	665
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.93
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.93
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.9
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.89
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.76
PRK14574	822	hmsH outer membrane protein; Provisional	99.75
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.73
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.72
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.72
KOG2003	840	consensus TPR repeat-containing protein [General f	99.68
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.67
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.64
KOG2076	895	consensus RNA polymerase III transcription factor	99.6
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.6
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.58
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.5
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.5
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.5
KOG2076	895	consensus RNA polymerase III transcription factor	99.49
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.49
KOG1126	638	consensus DNA-binding cell division cycle control	99.48
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.48
KOG1126	638	consensus DNA-binding cell division cycle control	99.47
KOG2003	840	consensus TPR repeat-containing protein [General f	99.46
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.45
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.42
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.41
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.41
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.4
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.4
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.37
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.36
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.35
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.31
PF13041	50	PPR_2: PPR repeat family	99.29
PF13041	50	PPR_2: PPR repeat family	99.29
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.26
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.24
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.23
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.22
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.22
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.2
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.2
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.17
PRK11189	296	lipoprotein NlpI; Provisional	99.16
PRK12370	553	invasion protein regulator; Provisional	99.15
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.13
KOG1129	478	consensus TPR repeat-containing protein [General f	99.13
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.12
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.12
PRK12370	553	invasion protein regulator; Provisional	99.09
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.07
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.05
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.01
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.01
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.0
PRK11189	296	lipoprotein NlpI; Provisional	99.0
KOG1129	478	consensus TPR repeat-containing protein [General f	98.95
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.95
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.92
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.9
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.9
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.89
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.87
PRK04841	903	transcriptional regulator MalT; Provisional	98.87
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.86
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.83
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.82
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.82
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.82
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.81
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.79
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.77
KOG1125	579	consensus TPR repeat-containing protein [General f	98.74
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.73
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.73
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.72
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.68
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.66
PRK15359	144	type III secretion system chaperone protein SscB;	98.65
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.65
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.64
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.64
PF12854	34	PPR_1: PPR repeat	98.63
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.62
PRK15359	144	type III secretion system chaperone protein SscB;	98.62
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.6
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.59
PF12854	34	PPR_1: PPR repeat	98.58
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.57
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.54
PLN02789	320	farnesyltranstransferase	98.53
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.52
KOG1125	579	consensus TPR repeat-containing protein [General f	98.47
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.47
PRK04841	903	transcriptional regulator MalT; Provisional	98.44
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.44
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.43
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.41
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.38
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.35
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.35
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.32
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.31
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.31
PLN02789	320	farnesyltranstransferase	98.3
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.28
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.26
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.23
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.23
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.17
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.17
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.15
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.12
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.09
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.08
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.05
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.05
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.04
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.02
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.0
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.98
KOG0553	304	consensus TPR repeat-containing protein [General f	97.96
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.96
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.95
KOG0553	304	consensus TPR repeat-containing protein [General f	97.94
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.93
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.89
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.87
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.84
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.83
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.83
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.83
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.81
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.8
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.8
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.8
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.77
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.76
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	97.74
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.72
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.71
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.66
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.65
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.65
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.65
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.61
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.59
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.59
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.56
PRK15331	165	chaperone protein SicA; Provisional	97.56
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.55
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.52
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.52
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.51
PF13371	73	TPR_9: Tetratricopeptide repeat	97.51
PF13431	34	TPR_17: Tetratricopeptide repeat	97.5
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.48
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.46
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.44
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.37
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.37
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.33
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.29
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.29
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.26
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.25
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.24
PF12688	120	TPR_5: Tetratrico peptide repeat	97.22
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.2
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.18
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.15
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.15
PRK10803	263	tol-pal system protein YbgF; Provisional	97.14
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.13
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.12
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.11
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.09
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.07
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.03
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.01
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.96
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.95
PF13371	73	TPR_9: Tetratricopeptide repeat	96.95
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.94
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.93
PF13428	44	TPR_14: Tetratricopeptide repeat	96.93
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.89
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.89
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.88
PF12688	120	TPR_5: Tetratrico peptide repeat	96.87
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.81
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.8
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.77
PRK10803	263	tol-pal system protein YbgF; Provisional	96.62
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.49
KOG4555	175	consensus TPR repeat-containing protein [Function	96.48
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.42
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.37
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.37
PRK11906	458	transcriptional regulator; Provisional	96.35
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.2
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.19
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.18
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.17
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.1
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.08
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.83
PRK11906	458	transcriptional regulator; Provisional	95.78
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.75
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.75
PF13512	142	TPR_18: Tetratricopeptide repeat	95.69
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.67
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.67
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.64
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.53
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.43
KOG4234	271	consensus TPR repeat-containing protein [General f	95.39
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.37
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.24
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.21
KOG3941	406	consensus Intermediate in Toll signal transduction	95.16
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.12
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.04
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.89
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.85
PRK15331	165	chaperone protein SicA; Provisional	94.78
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.69
KOG3941	406	consensus Intermediate in Toll signal transduction	94.65
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.64
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.61
KOG4555	175	consensus TPR repeat-containing protein [Function	94.58
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.53
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.37
PF13512	142	TPR_18: Tetratricopeptide repeat	94.32
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.29
KOG1585	308	consensus Protein required for fusion of vesicles	94.29
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.24
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.16
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.9
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.55
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.51
KOG1258	577	consensus mRNA processing protein [RNA processing	93.48
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	93.48
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.31
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	93.21
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.18
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	93.01
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.73
PRK09687	280	putative lyase; Provisional	92.69
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.69
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.68
PRK11619	644	lytic murein transglycosylase; Provisional	92.68
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.63
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.41
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	92.41
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.4
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.03
KOG1258	577	consensus mRNA processing protein [RNA processing	92.01
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.96
PF13428	44	TPR_14: Tetratricopeptide repeat	91.56
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.54
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.49
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.44
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.39
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.25
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.13
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.11
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.02
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.75
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.52
KOG1941	518	consensus Acetylcholine receptor-associated protei	90.49
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.48
PRK09687	280	putative lyase; Provisional	90.47
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.02
KOG1586	288	consensus Protein required for fusion of vesicles	89.96
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	89.51
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.44
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.39
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.33
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.16
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.8
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	87.88
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	87.84
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	87.58
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	87.47
COG3629	280	DnrI DNA-binding transcriptional activator of the	87.35
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	87.31
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	87.28
KOG1586	288	consensus Protein required for fusion of vesicles	87.14
PRK10941	269	hypothetical protein; Provisional	87.05
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	86.63
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.49
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	85.71
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	85.32
KOG1585	308	consensus Protein required for fusion of vesicles	85.23
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	84.85
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	84.75
KOG4570	418	consensus Uncharacterized conserved protein [Funct	84.74
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	84.36
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	84.3
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.29
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	84.19
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.13
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	84.1
KOG4234	271	consensus TPR repeat-containing protein [General f	83.97
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	83.95
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	83.78
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	83.77
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	83.4
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	83.3
PF13431	34	TPR_17: Tetratricopeptide repeat	83.15
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.6
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	82.24
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	82.07
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.03
PRK12798	421	chemotaxis protein; Reviewed	81.54
KOG1498	439	consensus 26S proteasome regulatory complex, subun	81.4
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	81.25
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	81.21
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	81.0
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	80.94
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	80.88
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	80.82
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	80.74
KOG1550	552	consensus Extracellular protein SEL-1 and related	80.44

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.4e-107  Score=919.25  Aligned_cols=624  Identities=31%  Similarity=0.590  Sum_probs=609.3

Q ss_pred             CCchhhhhhHHhhc-----------cc-cc--ccCCChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHH
Q 044628           40 HDRSVLSSQLRNSG-----------TI-HE--STHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVL  105 (665)
Q Consensus        40 ~~~~~~~~~~~~~~-----------~~-~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  105 (665)
                      .+...|++++....           +. |.  |+.||.+||+.++++|+..+++..+.++|..+.+.|+.|++.++|+||
T Consensus       150 ~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li  229 (857)
T PLN03077        150 RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALI  229 (857)
T ss_pred             CCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHH
Confidence            34456888887432           11 43  999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHH
Q 044628          106 HVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRR  183 (665)
Q Consensus       106 ~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  183 (665)
                      .+|+++|++++|+++|++|+.||.++||+||.+|++.|+..  +++|.+|.+.|+.||..||+++|.+|++.|+++.|.+
T Consensus       230 ~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~  309 (857)
T PLN03077        230 TMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGRE  309 (857)
T ss_pred             HHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHH
Confidence            99999999999999999999999999999999999999988  9999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCH
Q 044628          184 LHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDY  263 (665)
Q Consensus       184 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  263 (665)
                      +|..|.+.|+.||..+||+||++|+++|++++|.++|++|..+|+++||+||.+|++.|++++|+++|++|.+.|+.||.
T Consensus       310 l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~  389 (857)
T PLN03077        310 MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE  389 (857)
T ss_pred             HHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCC
Q 044628          264 FTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNG  343 (665)
Q Consensus       264 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  343 (665)
                      .||+.++.+|++.|+++.|.++|+.+.+.|+.++..++|+||++|+++|++++|.++|++|.++|+++||+||.+|+++|
T Consensus       390 ~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g  469 (857)
T PLN03077        390 ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNN  469 (857)
T ss_pred             eeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHh
Q 044628          344 DGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFG  423 (665)
Q Consensus       344 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  423 (665)
                      +.++|+.+|++|.. +++||..||+++|.+|++.|.++.+.++|..+.+.|+.++..++|+||++|+|+|++++|.++|+
T Consensus       470 ~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~  548 (857)
T PLN03077        470 RCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN  548 (857)
T ss_pred             CHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999986 69999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhh
Q 044628          424 SVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEH  503 (665)
Q Consensus       424 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  503 (665)
                      .+ .+|+++||+||.+|+++|+.++|+++|++|.+.|+.||.+||+.++.+|++.|++++|.++|+.|.+++|+.|+..+
T Consensus       549 ~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~  627 (857)
T PLN03077        549 SH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH  627 (857)
T ss_pred             hc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHH
Confidence            99 89999999999999999999999999999999999999999999999999999999999999999977899999999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCH
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCW  583 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~  583 (665)
                      |++|+++|+|+|++++|.+++++|+++||..+|++|+.+|+.+|+.+.|+.+.+++++++|+++..|+.|+++|+..|+|
T Consensus       628 y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~  707 (857)
T PLN03077        628 YACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKW  707 (857)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCCh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhCCCccCCceeEEEECCEEEEEEeCCCCCcchHHHHHHHHHHHHHHHhh-ccCCc-ccc-cCccchhcc
Q 044628          584 FDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEEN-NVSGH-CNV-LDKEMDECT  660 (665)
Q Consensus       584 ~~A~~~~~~m~~~~~~~~~~~s~i~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~-~~~~~-~~~-~~~~~~~~~  660 (665)
                      ++|.++++.|+++|++|.||+||||+++++|.|++||.+||+.++||.+|+++..+|++. |+||+ .++ ++||+||..
T Consensus       708 ~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~~~~~~~k~~~  787 (857)
T PLN03077        708 DEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVSKDDI  787 (857)
T ss_pred             HHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhccccHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999 99999 888 888999999


Q ss_pred             cCCCC
Q 044628          661 LWLPG  665 (665)
Q Consensus       661 ~~~hs  665 (665)
                      |++||
T Consensus       788 ~~~hs  792 (857)
T PLN03077        788 FCGHS  792 (857)
T ss_pred             HHhcc
Confidence            99998

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

Probab=100.00  E-value=1.8e-93  Score=789.52  Aligned_cols=540  Identities=30%  Similarity=0.539  Sum_probs=527.7

Q ss_pred             CCCcccHHHHHHHHHhCCCCc--hHHHHHhhhCC-CCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHH
Q 044628          126 VRNIVTWNTLISGIINCGGNV--TPYFRRMLLDN-VRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSA  202 (665)
Q Consensus       126 ~~~~~~~~~li~~~~~~~~~~--~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  202 (665)
                      .++..+|+.+|.++++.|+..  +++|+.|...+ +.||..||+.++.+|++.++++.|.++|..|++.|+.||..+||.
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            456677888888888888776  78888887764 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHH
Q 044628          203 LVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLG  282 (665)
Q Consensus       203 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  282 (665)
                      |+++|+++|++++|.++|++|+.||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|+.+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCC
Q 044628          283 RQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCP  362 (665)
Q Consensus       283 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  362 (665)
                      .++|..+.+.|+.+|..++|+||++|+++|++++|.++|++|.++|+++||+||.+|++.|++++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHh
Q 044628          363 DEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAF  442 (665)
Q Consensus       363 ~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  442 (665)
                      |..||++++.+|++.|.++.|.++|..|.+.|+.++..++++||++|+|+|++++|.++|++|.++|+.+||+||.+|++
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~  403 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN  403 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHH
Q 044628          443 HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYD  522 (665)
Q Consensus       443 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  522 (665)
                      +|+.++|+++|++|.+.|+.||..||++++.+|++.|++++|.++|+.|.+++|+.|+..+|++|+++|+++|++++|.+
T Consensus       404 ~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999888999999999999999999999999999


Q ss_pred             HHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCC
Q 044628          523 LLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVP  602 (665)
Q Consensus       523 ~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~  602 (665)
                      ++++|++.|+..+|++|+.+|..+|+++.|+.+++++++++|++...|..|+++|++.|+|++|.++++.|+++|++|.|
T Consensus       484 ~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~  563 (697)
T PLN03081        484 MIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHP  563 (697)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeEEEECCEEEEEEeCCCCCcchHHHHHHHHHHHHHHHhh-ccCCc-ccc--cCccchhcccCCCC
Q 044628          603 GCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEEN-NVSGH-CNV--LDKEMDECTLWLPG  665 (665)
Q Consensus       603 ~~s~i~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~-~~~~~-~~~--~~~~~~~~~~~~hs  665 (665)
                      |+|||++++.+|.|++||..||+..+||.+++++..+|++. |+||+ +++  +++++||..|++||
T Consensus       564 g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~hs  630 (697)
T PLN03081        564 ACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHS  630 (697)
T ss_pred             CeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999999999 99999 888  99999999999998

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.9e-83  Score=725.13  Aligned_cols=534  Identities=29%  Similarity=0.475  Sum_probs=496.6

Q ss_pred             ccCCChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHH
Q 044628           58 STHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLIS  137 (665)
Q Consensus        58 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~  137 (665)
                      |+.|+..+|..++++|.+.+.+..|.++|+.+.+.|..+++.++|+||.+|+++|+++.|+++|++|++||+++||++|.
T Consensus        81 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~  160 (857)
T PLN03077         81 RVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVG  160 (857)
T ss_pred             CCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHH
Q 044628          138 GIINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVED  215 (665)
Q Consensus       138 ~~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  215 (665)
                      +|++.|+.+  +++|++|...|+.||.+||+++|++|+..++++.+.++|..+++.|+.||..++|+||++|+++|++++
T Consensus       161 ~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~  240 (857)
T PLN03077        161 GYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVS  240 (857)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHH
Confidence            999999988  999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCC
Q 044628          216 ARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFD  295 (665)
Q Consensus       216 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  295 (665)
                      |.++|++|+.+|+++||+||.+|++.|++++|+++|++|...|+.||..||+.++.+|++.|+++.|.++|..+.+.|+.
T Consensus       241 A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~  320 (857)
T PLN03077        241 ARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFA  320 (857)
T ss_pred             HHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhC
Q 044628          296 LDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCG  375 (665)
Q Consensus       296 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  375 (665)
                      ||..+||+||++|+++|++++|.++|++|.++|+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+
T Consensus       321 ~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~  400 (857)
T PLN03077        321 VDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACA  400 (857)
T ss_pred             cchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 044628          376 SLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEK  455 (665)
Q Consensus       376 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  455 (665)
                      +.|+++.|.++|+.+.+.|+.++..++|+|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+++|++
T Consensus       401 ~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~  480 (857)
T PLN03077        401 CLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQ  480 (857)
T ss_pred             ccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC------------------------------CChhhHH
Q 044628          456 MLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHIL------------------------------PDSEHYT  505 (665)
Q Consensus       456 m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~------------------------------p~~~~~~  505 (665)
                      |.. ++.||..||+.++.+|++.|.++.+.+++..+.+ .|+.                              ||..+|+
T Consensus       481 m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~-~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n  558 (857)
T PLN03077        481 MLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLR-TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWN  558 (857)
T ss_pred             HHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHH-hCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHH
Confidence            986 5999999999999999999998888888888876 4664                              4555666


Q ss_pred             HHHHHHHhcCChHHHHHHHHhC---CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh---cCCCCCchHHHHHHHHHh
Q 044628          506 CLTDLLGRVGLLVEAYDLLASM---PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLE---LEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       506 ~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~p~~~~~~~~l~~~y~~  579 (665)
                      +|+.+|++.|+.++|+++|++|   ++.||..||++++.+|.+.|++++|.++|+.+.+   +.|+ ..+|..++++|.+
T Consensus       559 ~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~-~~~y~~lv~~l~r  637 (857)
T PLN03077        559 ILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPN-LKHYACVVDLLGR  637 (857)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCc-hHHHHHHHHHHHh
Confidence            6666666667777777777776   5677777777777777777777777777777763   3343 5677777777777


Q ss_pred             cCCHHHHHHHHHHHh
Q 044628          580 ERCWFDVARLRKMMR  594 (665)
Q Consensus       580 ~g~~~~A~~~~~~m~  594 (665)
                      +|++++|.+++++|.
T Consensus       638 ~G~~~eA~~~~~~m~  652 (857)
T PLN03077        638 AGKLTEAYNFINKMP  652 (857)
T ss_pred             CCCHHHHHHHHHHCC
Confidence            777777777777773

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

Probab=100.00  E-value=4.7e-70  Score=602.93  Aligned_cols=439  Identities=28%  Similarity=0.479  Sum_probs=427.5

Q ss_pred             ccCCChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHH
Q 044628           58 STHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLIS  137 (665)
Q Consensus        58 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~  137 (665)
                      ++.||..+|+.++.+|++.++++.+.++|..|.+.|+.||+.++|.|+.+|+++|++++|+++|++|++||.++||++|.
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~  197 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIG  197 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHH
Q 044628          138 GIINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVED  215 (665)
Q Consensus       138 ~~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  215 (665)
                      +|++.|+.+  +++|++|.+.|+.||..||+.++.+|++.|+.+.+.++|..+.+.|+.+|..+||+||++|+++|++++
T Consensus       198 ~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~  277 (697)
T PLN03081        198 GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED  277 (697)
T ss_pred             HHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHH
Confidence            999999988  999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCC
Q 044628          216 ARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFD  295 (665)
Q Consensus       216 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  295 (665)
                      |.++|++|..+|+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|+.|.+.|+.
T Consensus       278 A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~  357 (697)
T PLN03081        278 ARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFP  357 (697)
T ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhC
Q 044628          296 LDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCG  375 (665)
Q Consensus       296 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  375 (665)
                      +|..++++||++|+++|++++|.++|++|.++|+++||+||.+|++.|+.++|+++|++|.+.|+.||..||+.+|.+|+
T Consensus       358 ~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~  437 (697)
T PLN03081        358 LDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACR  437 (697)
T ss_pred             CCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchHhHHHHHHHHHH-hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC-CCChhHHHHHHHHHHhcCChHHHHHHH
Q 044628          376 SLSISCETRQVHAYAIK-NGVQAFLSIENALINAYSKCGSIAGALQCFGSVK-EPDLVTWTSIIGAYAFHGLSKESIEVF  453 (665)
Q Consensus       376 ~~~~~~~a~~i~~~~~~-~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~  453 (665)
                      +.|.+++|.++|+.|.+ .|+.|+..+|++++++|++.|++++|.++|++|. +|+..+|++|+.+|..+|+.+.|..++
T Consensus       438 ~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~  517 (697)
T PLN03081        438 YSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAA  517 (697)
T ss_pred             cCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHH
Confidence            99999999999999976 6999999999999999999999999999999997 699999999999999999999999999


Q ss_pred             HHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 044628          454 EKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP  499 (665)
Q Consensus       454 ~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  499 (665)
                      +++.+  +.|+ ..+|..+++.|++.|++++|.++++.|.+ .|+..
T Consensus       518 ~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~-~g~~k  561 (697)
T PLN03081        518 EKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR-KGLSM  561 (697)
T ss_pred             HHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHH-cCCcc
Confidence            99975  4665 56999999999999999999999999988 57653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.3e-69  Score=596.09  Aligned_cols=500  Identities=18%  Similarity=0.235  Sum_probs=435.8

Q ss_pred             CCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccH-----HHHHHHHHhCCCCc--hHHHHHhhhCCCCCCcchHHH
Q 044628           95 CNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTW-----NTLISGIINCGGNV--TPYFRRMLLDNVRLDHITFNS  167 (665)
Q Consensus        95 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~-----~~li~~~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~  167 (665)
                      .++...|..++..++++|++++|+++|++|+.++...|     +.++.+|.+.|...  +.+|+.|..    ||..||+.
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            35566777777777778888888888888876655443     44555677777655  677777764    88888888


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccC----CCCchhHHHHHHHHHhcCC
Q 044628          168 LLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL----CRDLVLWNVMVSCYALNCL  243 (665)
Q Consensus       168 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~  243 (665)
                      +|.+|++.|+++.|.++|+.|.+.|+.||..+|++||++|+++|++++|.++|++|.    .||..+||+||.+|++.|+
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            888999999999999999999999999999999999999999999999999999996    5788999999999999999


Q ss_pred             chHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHH--hCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          244 GDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIK--QSFDLDVLVATSLVDMYAKNGNIDDACRVF  321 (665)
Q Consensus       244 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  321 (665)
                      +++|+++|++|...|+.||..||+.+|.+|++.|++++|.++|++|.+  .|+.||..+|++||.+|+++|++++|.++|
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  678999999999999999999999999999


Q ss_pred             hccCC----CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCC
Q 044628          322 DGMTA----KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQA  397 (665)
Q Consensus       322 ~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~  397 (665)
                      +.|.+    ++..+||.+|.+|++.|++++|+++|++|...|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|
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            99975    56689999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVK----EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLS  473 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  473 (665)
                      +..+|++||.+|+++|++++|.++|++|.    .||..+||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.
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            99999999999999999999999999985    58999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH----hcC-------------------ChHHHHHHHHhC---
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLG----RVG-------------------LLVEAYDLLASM---  527 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~----~~g-------------------~~~~A~~~~~~~---  527 (665)
                      +|++.|++++|.++|+.|.+ .|+.||..+|+++++++.    +++                   ..++|..+|++|   
T Consensus       763 a~~k~G~le~A~~l~~~M~k-~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~  841 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKE-DGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA  841 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC
Confidence            99999999999999999988 699999999999987643    222                   346899999999   


Q ss_pred             CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH-hcCCCCCchHHHHHHHHHhcCCH-HHHHHHHHHHhhCCCccCC
Q 044628          528 PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLL-ELEPSKPVNYALVSNVYASERCW-FDVARLRKMMRDNCDHKVP  602 (665)
Q Consensus       528 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-~~~p~~~~~~~~l~~~y~~~g~~-~~A~~~~~~m~~~~~~~~~  602 (665)
                      ++.||..+|..++.++...+..+.+...++.+. .-.+.+..+|..|++.+   |++ ++|..+++.|...|+.+..
T Consensus       842 Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~---~~~~~~A~~l~~em~~~Gi~p~~  915 (1060)
T PLN03218        842 GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF---GEYDPRAFSLLEEAASLGVVPSV  915 (1060)
T ss_pred             CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhh---ccChHHHHHHHHHHHHcCCCCCc
Confidence            899999999999977778888888888887654 23344577899999877   433 6899999999999986553

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.5e-67  Score=584.43  Aligned_cols=503  Identities=17%  Similarity=0.207  Sum_probs=475.0

Q ss_pred             ccCCChHHHHHHHHHhhccCChHHHHHHHHHHHHhCC-CCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHH
Q 044628           58 STHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGL-CNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLI  136 (665)
Q Consensus        58 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li  136 (665)
                      +-.++...|..++..|.+.|++..|.++|+.|.+.|+ +++..+++.++..|.+.|.+++|.++|+.|+.||..+||.+|
T Consensus       365 ~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL  444 (1060)
T PLN03218        365 SGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLM  444 (1060)
T ss_pred             CCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            4555677899999999999999999999999999985 577888899999999999999999999999999999999999


Q ss_pred             HHHHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChH
Q 044628          137 SGIINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVE  214 (665)
Q Consensus       137 ~~~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  214 (665)
                      .+|++.|+.+  .++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|++||++|++.|+++
T Consensus       445 ~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~e  524 (1060)
T PLN03218        445 SVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVA  524 (1060)
T ss_pred             HHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHH
Confidence            9999999988  99999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccC----CCCchhHHHHHHHHHhcCCchHHHHHHHHHHH--CCCCCCHhhHHHHHHHHhccCCcHHHHHHHHH
Q 044628          215 DARRVFDEVL----CRDLVLWNVMVSCYALNCLGDGAIAVFNLMRL--EGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGL  288 (665)
Q Consensus       215 ~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  288 (665)
                      +|.++|++|.    .||.++||+||.+|++.|++++|.++|++|..  .|+.||..||+.++.+|++.|++++|.++|+.
T Consensus       525 eAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~  604 (1060)
T PLN03218        525 KAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM  604 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999994    57999999999999999999999999999986  68999999999999999999999999999999


Q ss_pred             HHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC----CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCH
Q 044628          289 VIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA----KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDE  364 (665)
Q Consensus       289 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  364 (665)
                      |.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+    ||..+|+++|.+|++.|++++|+++|++|.+.|+.||.
T Consensus       605 M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~  684 (1060)
T PLN03218        605 IHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGT  684 (1060)
T ss_pred             HHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999999999999999999999999974    79999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHH
Q 044628          365 VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK----EPDLVTWTSIIGAY  440 (665)
Q Consensus       365 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~  440 (665)
                      .+|+++|.+|++.|++++|.++|+.|.+.|+.|+..+||+||.+|++.|++++|.++|++|.    .||..+|+++|.+|
T Consensus       685 ~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~  764 (1060)
T PLN03218        685 VSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS  764 (1060)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999996    49999999999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-----------------------CCcHHHHHHHHHHHHHhcCC
Q 044628          441 AFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSH-----------------------GGLVSEGLRYFNLMISDYHI  497 (665)
Q Consensus       441 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~-----------------------~g~~~~a~~~~~~~~~~~~~  497 (665)
                      ++.|+.++|.++|++|.+.|+.||..+|+.++..|.+                       .+..++|..+|++|.+ .|+
T Consensus       765 ~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~-~Gi  843 (1060)
T PLN03218        765 ERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETIS-AGT  843 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHH-CCC
Confidence            9999999999999999999999999999999876542                       1234689999999998 699


Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHhC---CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044628          498 LPDSEHYTCLTDLLGRVGLLVEAYDLLASM---PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELE  563 (665)
Q Consensus       498 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  563 (665)
                      .||..+|+.++.++.+.+..+.+..+++.|   +..|+..+|++|+.+|...  .++|..+++.+.+.+
T Consensus       844 ~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~G  910 (1060)
T PLN03218        844 LPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLG  910 (1060)
T ss_pred             CCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcC
Confidence            999999999999999999999999999998   5667789999999998432  468999999998754

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

Probab=100.00  E-value=5.7e-31  Score=305.04  Aligned_cols=522  Identities=10%  Similarity=0.022  Sum_probs=251.4

Q ss_pred             ChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCC---CCcccHHHHHHH
Q 044628           62 AHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRV---RNIVTWNTLISG  138 (665)
Q Consensus        62 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~  138 (665)
                      +...+..+...+...|+++.|.+.+..+.+.. +.+...++.+...|.+.|++++|.+.|+++..   .+...|..+...
T Consensus       328 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  406 (899)
T TIGR02917       328 SHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLGIS  406 (899)
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34445555556666677777777666666543 34455666666666677777777777665532   233445555555


Q ss_pred             HHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHH
Q 044628          139 IINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDA  216 (665)
Q Consensus       139 ~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  216 (665)
                      +...|+..  ++.|.+..+.... +......++..+.+.|++++|..+++.+.+.. +.+..++..+...|...|++++|
T Consensus       407 ~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  484 (899)
T TIGR02917       407 KLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKA  484 (899)
T ss_pred             HHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHH
Confidence            55555554  5555554433211 11223333444445555555555555544431 23344445555555555555555


Q ss_pred             HHHHhccCC---CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhC
Q 044628          217 RRVFDEVLC---RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQS  293 (665)
Q Consensus       217 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  293 (665)
                      .+.|+++..   .+...+..+...+...|++++|.+.|+++...+ +.+..++..+...+...|+.++|...+..+.+.+
T Consensus       485 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  563 (899)
T TIGR02917       485 REAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN  563 (899)
T ss_pred             HHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            555544321   123344444444455555555555555544432 1233344444444444444444544444444432


Q ss_pred             ---------------------------------CCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHH
Q 044628          294 ---------------------------------FDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVV  337 (665)
Q Consensus       294 ---------------------------------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~  337 (665)
                                                       .+.+..++..+..+|.+.|++++|...|+.+.+   .+...|..+..
T Consensus       564 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  643 (899)
T TIGR02917       564 PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLAD  643 (899)
T ss_pred             ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence                                             133344444444444444555555444444422   23334444444


Q ss_pred             HHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044628          338 GFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAG  417 (665)
Q Consensus       338 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  417 (665)
                      .|.+.|++++|+..|+++.... +.+..++..+...+...|+++.|..++..+.+.+ +.+...+..+...|.+.|++++
T Consensus       644 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~  721 (899)
T TIGR02917       644 AYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPA  721 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHH
Confidence            4444555555555554444321 1223344444444444455555555554444433 2233344444445555555555


Q ss_pred             HHHHHhcCC--CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Q 044628          418 ALQCFGSVK--EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDY  495 (665)
Q Consensus       418 A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  495 (665)
                      |.+.|+++.  .|+..++..++..+...|+.++|.+.++++.+.. +.+...+..+...|...|++++|.++|+.+.+  
T Consensus       722 A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~--  798 (899)
T TIGR02917       722 AIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVK--  798 (899)
T ss_pred             HHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH--
Confidence            555555443  1333444444455555555555555555554431 22333444444455555555555555555544  


Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          496 HILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       496 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      ..+++...+..+..++.+.|+ .+|++.++++ ...| +..++..+...+...|++++|...++++++.+|.++.++..+
T Consensus       799 ~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l  877 (899)
T TIGR02917       799 KAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHL  877 (899)
T ss_pred             hCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHH
Confidence            122344445555555555555 4455555544 2223 233444444455555555555555555555555555555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHH
Q 044628          574 SNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       574 ~~~y~~~g~~~~A~~~~~~m  593 (665)
                      +.+|.+.|++++|.+++++|
T Consensus       878 ~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       878 ALALLATGRKAEARKELDKL  897 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            55555555555555555554

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=3.8e-30  Score=298.21  Aligned_cols=522  Identities=12%  Similarity=0.023  Sum_probs=373.9

Q ss_pred             HHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCC---CCcccHHHHHHHHHhC
Q 044628           66 YSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRV---RNIVTWNTLISGIINC  142 (665)
Q Consensus        66 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~  142 (665)
                      +..+-..+...|+++.|.+.+..+.+.. +.+...+..+...+.+.|++++|...++.+..   .+...|+.+...+.+.
T Consensus       298 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  376 (899)
T TIGR02917       298 LLLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLAL  376 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHC
Confidence            3344455678899999999999998865 45667788899999999999999999988753   4566788999999999


Q ss_pred             CCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 044628          143 GGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVF  220 (665)
Q Consensus       143 ~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  220 (665)
                      |+..  ..+|+++.+.. +.+...+..+...+...|+.++|...+..+.+.... .......++..|.+.|++++|.+++
T Consensus       377 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~  454 (899)
T TIGR02917       377 GDFEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALAAA  454 (899)
T ss_pred             CCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHHHH
Confidence            9988  88898887653 224556777778888999999999999999987532 3456677888999999999999999


Q ss_pred             hccCC---CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCc
Q 044628          221 DEVLC---RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLD  297 (665)
Q Consensus       221 ~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~  297 (665)
                      +.+..   .+...|+.+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++.+.+.+ +.+
T Consensus       455 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~  532 (899)
T TIGR02917       455 KKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKN  532 (899)
T ss_pred             HHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCc
Confidence            98853   367789999999999999999999999998753 2345667778888999999999999999999875 567


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHh
Q 044628          298 VLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSC  374 (665)
Q Consensus       298 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  374 (665)
                      ..++..+...|.+.|+.++|...|+++.+   .+...+..++..|.+.|++++|+.+++++.... +.+...+..+...+
T Consensus       533 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  611 (899)
T TIGR02917       533 LRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQ  611 (899)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            78888899999999999999999988743   344566677777777788888888777776542 34556677777777


Q ss_pred             CCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHH
Q 044628          375 GSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIE  451 (665)
Q Consensus       375 ~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  451 (665)
                      ...|+++.|...+..+.+.. +.+...+..+...|.+.|++++|..+|+++.+   .+..+|..++..+...|++++|.+
T Consensus       612 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  690 (899)
T TIGR02917       612 LAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKK  690 (899)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            77777777777777776554 33445566667777777777777777766542   334455555555555555555555


Q ss_pred             HHHHHHHcC--------------------------------CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 044628          452 VFEKMLSHA--------------------------------VRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP  499 (665)
Q Consensus       452 ~~~~m~~~g--------------------------------~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  499 (665)
                      +++.+.+.+                                ..|+..++..+..++.+.|++++|.+.++.+.+  ..+.
T Consensus       691 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~~~  768 (899)
T TIGR02917       691 IAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLK--THPN  768 (899)
T ss_pred             HHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCC
Confidence            555554432                                123333444444445555555555555555544  2233


Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVY  577 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  577 (665)
                      +...+..+...|.+.|+.++|.+.|+++ ...| +..++..+...+...|+ .+|+..+++++++.|+++..+..++.+|
T Consensus       769 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~  847 (899)
T TIGR02917       769 DAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLL  847 (899)
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHH
Confidence            4555566666666666666666666665 2223 45556666666666666 5566666666666666666666777777


Q ss_pred             HhcCCHHHHHHHHHHHhhCC
Q 044628          578 ASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       578 ~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ...|++++|.+.++++.+.+
T Consensus       848 ~~~g~~~~A~~~~~~a~~~~  867 (899)
T TIGR02917       848 VEKGEADRALPLLRKAVNIA  867 (899)
T ss_pred             HHcCCHHHHHHHHHHHHhhC
Confidence            77777777777777776554

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.93  E-value=5.4e-21  Score=222.58  Aligned_cols=411  Identities=12%  Similarity=0.025  Sum_probs=311.2

Q ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCC--CCc---hhHHHH-----------
Q 044628          171 ACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLC--RDL---VLWNVM-----------  234 (665)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~l-----------  234 (665)
                      .+...|++++|...++..++.. +.+..++..|...|.+.|+.++|+..|++...  |+.   ..|..+           
T Consensus       278 ~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~  356 (1157)
T PRK11447        278 AAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQ  356 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHH
Confidence            4556788888888888888764 33677788888888888888888888887643  211   123222           


Q ss_pred             -HHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 044628          235 -VSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGN  313 (665)
Q Consensus       235 -i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  313 (665)
                       ...+.+.|++++|...|++..... +.+...+..+...+...|++++|.+.++.+++.. +.+...+..+...|. .++
T Consensus       357 ~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~  433 (1157)
T PRK11447        357 QGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQS  433 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcC
Confidence             335667888888888888887753 2245566667777888888888888888888764 445566667777764 457


Q ss_pred             HHHHHHHHhccCCCC------------chhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCC-HHHHHHHHHHhCCCCch
Q 044628          314 IDDACRVFDGMTAKN------------VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD-EVTLASILSSCGSLSIS  380 (665)
Q Consensus       314 ~~~A~~~~~~~~~~~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~  380 (665)
                      .++|..+++.+....            ...+..+...+...|++++|++.|++..+.  .|+ ...+..+...+.+.|+.
T Consensus       434 ~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~~  511 (1157)
T PRK11447        434 PEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQR  511 (1157)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            788888887765321            123455667788899999999999999875  354 44566777788999999


Q ss_pred             HhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC----Ch---------hHHHHHHHHHHhcCChH
Q 044628          381 CETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEP----DL---------VTWTSIIGAYAFHGLSK  447 (665)
Q Consensus       381 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~---------~~~~~li~~~~~~g~~~  447 (665)
                      ++|...++.+.+... .+...+..+...+.+.|+.++|...++.+...    +.         ..+..+...+...|+.+
T Consensus       512 ~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~  590 (1157)
T PRK11447        512 SQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEA  590 (1157)
T ss_pred             HHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHH
Confidence            999999999887542 34444445555677889999999999988631    11         11234566788999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          448 ESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      +|.++++.     ..++...+..+...+.+.|+.++|++.|+.+.+.  -+.+...+..++.+|...|++++|++.++..
T Consensus       591 eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        591 EAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999872     2345556777888899999999999999999872  3346788999999999999999999999988


Q ss_pred             -CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc------hHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          528 -PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV------NYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       528 -~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                       ...|+ ...+..+..++...|+.++|.+.++++++..|+++.      .+..++.++...|++++|...+++...
T Consensus       664 l~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        664 PATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             hccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence             45554 556777778888999999999999999998776543      556679999999999999999988753

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.93  E-value=4.9e-21  Score=222.94  Aligned_cols=526  Identities=11%  Similarity=0.000  Sum_probs=308.7

Q ss_pred             ChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHH----------------HHHHHHhhcCCChHHHHHHHcccC
Q 044628           62 AHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQ----------------NQVLHVYVKCKAFDDMEKLFDEMR  125 (665)
Q Consensus        62 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~----------------~~li~~~~~~g~~~~A~~~f~~~~  125 (665)
                      ++..+..+...+.+.|+.+.|.+.++.+.+.. +.+....                ..+...+.+.|++++|.+.|+...
T Consensus        61 ~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~-P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l  139 (1157)
T PRK11447         61 NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA-PDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKLF  139 (1157)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHc
Confidence            44556666666677777777777777777655 1222211                223335666777777777777665


Q ss_pred             CCCcccHH--H-HHHHH-HhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCC----
Q 044628          126 VRNIVTWN--T-LISGI-INCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGL----  195 (665)
Q Consensus       126 ~~~~~~~~--~-li~~~-~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~----  195 (665)
                      ..+.....  . ..... ...|+..  ++.|+++.+.. +-+......+...+...|+.++|.+.++++.+.....    
T Consensus       140 ~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa  218 (1157)
T PRK11447        140 NGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAA  218 (1157)
T ss_pred             cCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHH
Confidence            32211111  1 11111 1123333  66666665542 1233445555566666777777777777765432100    


Q ss_pred             ------------c---hHHHHHHHHHHHhCCChHHHHHHHhccCCC--Cch-hHHHHHHHHHhcCCchHHHHHHHHHHHC
Q 044628          196 ------------N---CFVSSALVDLYGKCGFVEDARRVFDEVLCR--DLV-LWNVMVSCYALNCLGDGAIAVFNLMRLE  257 (665)
Q Consensus       196 ------------~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~  257 (665)
                                  +   ...+...+..+-....++.|...+.+....  |.. ........+...|++++|+..|++..+.
T Consensus       219 ~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~  298 (1157)
T PRK11447        219 QLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQAVRA  298 (1157)
T ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence                        0   001111111122222233444444332111  111 1123345667788888888888888775


Q ss_pred             CCCC-CHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCC-chhHH------------HHHHHHHHhcCCHHHHHHHHhc
Q 044628          258 GMKG-DYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDL-DVLVA------------TSLVDMYAKNGNIDDACRVFDG  323 (665)
Q Consensus       258 g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~------------~~li~~~~~~g~~~~A~~~~~~  323 (665)
                        .| +...+..+...+.+.|+.++|...++.+++..-.. ....+            ..+...+.+.|++++|...|++
T Consensus       299 --~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~  376 (1157)
T PRK11447        299 --NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQ  376 (1157)
T ss_pred             --CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              34 56677777888888888888888888888764221 11111            1234566788888888888888


Q ss_pred             cCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCC-HHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCC---
Q 044628          324 MTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD-EVTLASILSSCGSLSISCETRQVHAYAIKNGVQ---  396 (665)
Q Consensus       324 ~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~---  396 (665)
                      ..+   .+...+..+...+...|++++|++.|++..+..  |+ ...+..+...+. .++.++|..+++.+......   
T Consensus       377 Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~  453 (1157)
T PRK11447        377 ARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSID  453 (1157)
T ss_pred             HHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHH
Confidence            764   345567778888888888888888888887643  33 334444444443 45677887777654322100   


Q ss_pred             -----CchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHH
Q 044628          397 -----AFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIA  467 (665)
Q Consensus       397 -----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t  467 (665)
                           .....+..+...+...|++++|.+.|++..+   .+...+..+...|.+.|++++|...++++.+.  .|+ ...
T Consensus       454 ~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~--~P~~~~~  531 (1157)
T PRK11447        454 DIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQ--KPNDPEQ  531 (1157)
T ss_pred             HHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHH
Confidence                 0122345567778889999999999998763   35567778888899999999999999998874  453 334


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhc--------------------------------------CCCCChhhHHHHHH
Q 044628          468 FLEVLSACSHGGLVSEGLRYFNLMISDY--------------------------------------HILPDSEHYTCLTD  509 (665)
Q Consensus       468 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~--------------------------------------~~~p~~~~~~~l~~  509 (665)
                      +..+...+...|+.++|+..++.+....                                      ..+++...+..+.+
T Consensus       532 ~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~  611 (1157)
T PRK11447        532 VYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLAD  611 (1157)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHH
Confidence            4444455677899999999988753210                                      01122333444555


Q ss_pred             HHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHH
Q 044628          510 LLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVA  587 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~  587 (665)
                      .+.+.|++++|++.|++. ...| +...+..+...+...|+.++|++.++++++..|+++..+..++.++.+.|++++|.
T Consensus       612 ~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~  691 (1157)
T PRK11447        612 WAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQ  691 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHH
Confidence            555555555555555555 3333 24455555555555566666666666555555555555555566666666666666


Q ss_pred             HHHHHHhhC
Q 044628          588 RLRKMMRDN  596 (665)
Q Consensus       588 ~~~~~m~~~  596 (665)
                      ++++++...
T Consensus       692 ~~~~~al~~  700 (1157)
T PRK11447        692 RTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHhhh
Confidence            666555543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.90  E-value=1.5e-18  Score=193.14  Aligned_cols=517  Identities=9%  Similarity=-0.033  Sum_probs=339.0

Q ss_pred             hHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccC--CCCc-ccHHHHHHH-
Q 044628           63 HSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMR--VRNI-VTWNTLISG-  138 (665)
Q Consensus        63 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~--~~~~-~~~~~li~~-  138 (665)
                      ..++..+.+.+...|+++.|....+...+..  |+-..+..++..+   ++.++|..+++++.  .|+- ..+..+... 
T Consensus        78 ~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld--P~n~~~~~~La~i---~~~~kA~~~ye~l~~~~P~n~~~~~~la~~~  152 (987)
T PRK09782         78 IPLTLYLAEAYRHFGHDDRARLLLEDQLKRH--PGDARLERSLAAI---PVEVKSVTTVEELLAQQKACDAVPTLRCRSE  152 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHHHHHHHHHh---ccChhHHHHHHHHHHhCCCChhHHHHHHHHh
Confidence            3445555566666666666666666665543  3222222222222   55566666666654  2221 222222222 


Q ss_pred             -------HHhCCCCchHHHHHhhhCCCCCCcchHHHH-HHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh-
Q 044628          139 -------IINCGGNVTPYFRRMLLDNVRLDHITFNSL-LRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGK-  209 (665)
Q Consensus       139 -------~~~~~~~~~~~~~~m~~~g~~p~~~t~~~l-l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~-  209 (665)
                             |.+.+.. .+.++ .......|+..+.... .+.|...+++++|..++..+.+.+.. +......|-.+|.. 
T Consensus       153 ~~~~~l~y~q~eqA-l~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~  229 (987)
T PRK09782        153 VGQNALRLAQLPVA-RAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAG  229 (987)
T ss_pred             hccchhhhhhHHHH-HHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHh
Confidence                   3333211 33333 2222333445545555 88899999999999999999998743 45557777778888 


Q ss_pred             CCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCC-CCHhhHHHH-------------------
Q 044628          210 CGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMK-GDYFTFSSL-------------------  269 (665)
Q Consensus       210 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~l-------------------  269 (665)
                      .++ +++..+++...+.|...+..+...|.+.|+.++|.++++++...-.. |+..++..+                   
T Consensus       230 l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~  308 (987)
T PRK09782        230 QLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQF  308 (987)
T ss_pred             hCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhh
Confidence            477 88888887765668889999999999999999999999998654222 333333322                   


Q ss_pred             -----------HHHHhccCCcHHHHHHHH-----------------------------HHHHhCCCCchhHHHHHHHHHH
Q 044628          270 -----------VNSCGTLGSSKLGRQIHG-----------------------------LVIKQSFDLDVLVATSLVDMYA  309 (665)
Q Consensus       270 -----------l~~~~~~~~~~~a~~~~~-----------------------------~~~~~g~~~~~~~~~~li~~~~  309 (665)
                                 +..+.+.++++.++++..                             .+.+. .+.+.....-+.-...
T Consensus       309 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~-~~~~~~~l~q~~~~~~  387 (987)
T PRK09782        309 ADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQ-EPANLTRLDQLTWQLM  387 (987)
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhc-CCCCHHHHHHHHHHHH
Confidence                       222333333333333321                             11111 0112233333333445


Q ss_pred             hcCCHHHHHHHHhccCC--C----CchhHHHHHHHHHcCCC---hHHHHHH------------H----------HHHhh-
Q 044628          310 KNGNIDDACRVFDGMTA--K----NVVSWNTMVVGFGQNGD---GREAVKL------------L----------RDMLQ-  357 (665)
Q Consensus       310 ~~g~~~~A~~~~~~~~~--~----~~~~~~~li~~~~~~g~---~~~A~~~------------~----------~~m~~-  357 (665)
                      +.|+.++|.++|+..-.  +    +...-+-++..|.+.+.   ..+++.+            .          ..... 
T Consensus       388 ~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  467 (987)
T PRK09782        388 QNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRL  467 (987)
T ss_pred             HcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHh
Confidence            67888888888887754  1    12234456677777665   3333333            1          11111 


Q ss_pred             CCCCC---CHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhH
Q 044628          358 GSFCP---DEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE--PDLVT  432 (665)
Q Consensus       358 ~g~~p---~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~  432 (665)
                      .+..|   +...+..+-.++.. ++.++|...+.......  |+......+...+...|++++|...|+++..  ++...
T Consensus       468 l~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a  544 (987)
T PRK09782        468 LGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNED  544 (987)
T ss_pred             cccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHH
Confidence            11223   33444444444444 78888888777666554  4433333445555789999999999997763  55566


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 044628          433 WTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLL  511 (665)
Q Consensus       433 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  511 (665)
                      +..+...+.+.|+.++|...+++.++..  |+.. .+..+...+...|++++|...+++..+   +.|+...|..+..++
T Consensus       545 ~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l  619 (987)
T PRK09782        545 LLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIY  619 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHH
Confidence            7777888899999999999999998863  5443 344444556677999999999999987   567888999999999


Q ss_pred             HhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHH
Q 044628          512 GRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARL  589 (665)
Q Consensus       512 ~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~  589 (665)
                      .+.|++++|++.+++. ...|+ ...+..+..++...|+.++|+..++++++++|+++.++..++.+|...|++++|+..
T Consensus       620 ~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~  699 (987)
T PRK09782        620 RQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHY  699 (987)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999998 66775 556777777899999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhCC
Q 044628          590 RKMMRDNC  597 (665)
Q Consensus       590 ~~~m~~~~  597 (665)
                      +++..+..
T Consensus       700 l~~Al~l~  707 (987)
T PRK09782        700 ARLVIDDI  707 (987)
T ss_pred             HHHHHhcC
Confidence            99987654

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

Probab=99.90  E-value=3e-20  Score=183.27  Aligned_cols=379  Identities=15%  Similarity=0.150  Sum_probs=317.5

Q ss_pred             chHHHHHHHHHHHhCCChHHHHHHHhccCCC---CchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHH-HH
Q 044628          196 NCFVSSALVDLYGKCGFVEDARRVFDEVLCR---DLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSL-VN  271 (665)
Q Consensus       196 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~  271 (665)
                      -..+|+.+.+.+-..|++++|+.+++.+.+.   .+..|..+..++...|+.+.|.+.|.+..+  +.|+.+...+- -.
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgn  192 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhH
Confidence            4567888888899999999999999887543   567899999999999999999999988876  45765544332 33


Q ss_pred             HHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc---hhHHHHHHHHHcCCChHHH
Q 044628          272 SCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNV---VSWNTMVVGFGQNGDGREA  348 (665)
Q Consensus       272 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A  348 (665)
                      .....|++++|..-+.++++.. +.=..+|+.|...+-..|+...|+.-|++..+-|+   ..|-.|...|...+.+++|
T Consensus       193 Llka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHH
Confidence            3445788999999888888764 33456788888889999999999999998876333   5788888999999999999


Q ss_pred             HHHHHHHhhCCCCCCH-HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 044628          349 VKLLRDMLQGSFCPDE-VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE  427 (665)
Q Consensus       349 ~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  427 (665)
                      +..+.+...  ..|+. +.+..+...|...|.+|.|...++..++.. +.-...|+.|..++-..|++.+|.+.+++...
T Consensus       272 vs~Y~rAl~--lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  272 VSCYLRALN--LRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHh--cCCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            999988766  35664 456666667889999999999999888754 23356789999999999999999999998763


Q ss_pred             ---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hh
Q 044628          428 ---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-SE  502 (665)
Q Consensus       428 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~  502 (665)
                         ....+.+.|...|...|.+++|..+|....+  +.|.. ..++.|...|-+.|++++|+..|++..+   |.|+ ..
T Consensus       349 l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAd  423 (966)
T KOG4626|consen  349 LCPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFAD  423 (966)
T ss_pred             hCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHH
Confidence               4567889999999999999999999999987  57776 4799999999999999999999999986   7887 67


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASE  580 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  580 (665)
                      .|+.|...|-..|+.++|++.+.++ .+.|. ....+.|.+.+...|++.+|+..++.++++.|+.+.+|..+..++---
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~v  503 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIV  503 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHH
Confidence            8999999999999999999999998 77886 678899999999999999999999999999999999999888877666


Q ss_pred             CCHHH
Q 044628          581 RCWFD  585 (665)
Q Consensus       581 g~~~~  585 (665)
                      .+|.+
T Consensus       504 cdw~D  508 (966)
T KOG4626|consen  504 CDWTD  508 (966)
T ss_pred             hcccc
Confidence            66666

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

Probab=99.89  E-value=1.9e-20  Score=184.54  Aligned_cols=419  Identities=13%  Similarity=0.139  Sum_probs=336.1

Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC---CchhHHHHHHHHHhcCCc
Q 044628          168 LLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR---DLVLWNVMVSCYALNCLG  244 (665)
Q Consensus       168 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~  244 (665)
                      +..-.-+.|++++|++.-..+-+.. +.+....-.+-..|.+..+.+....--......   -..+|..+...+-..|++
T Consensus        54 lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~~  132 (966)
T KOG4626|consen   54 LAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQL  132 (966)
T ss_pred             HHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhchH
Confidence            3344556788888887655544432 112222222335566666666554433333222   345899999999999999


Q ss_pred             hHHHHHHHHHHHCCCCC-CHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchh-HHHHHHHHHHhcCCHHHHHHHHh
Q 044628          245 DGAIAVFNLMRLEGMKG-DYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVL-VATSLVDMYAKNGNIDDACRVFD  322 (665)
Q Consensus       245 ~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~~~  322 (665)
                      ++|+.+|+.|.+.  +| ....|..+..++...|+.+.|.+.+.+.++.  .|+.. +.+.+.......|++.+|...|.
T Consensus       133 ~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cYl  208 (966)
T KOG4626|consen  133 QDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACYL  208 (966)
T ss_pred             HHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHHH
Confidence            9999999999985  55 4678999999999999999999999999886  45544 34445556667899999999988


Q ss_pred             ccCC--C-CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCH-HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCc
Q 044628          323 GMTA--K-NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDE-VTLASILSSCGSLSISCETRQVHAYAIKNGVQAF  398 (665)
Q Consensus       323 ~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~  398 (665)
                      +..+  | =.+.|+.|...+-.+|+...|+..|++..+  +.|+- ..|..+-..+...+.++.|...+....... +..
T Consensus       209 kAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~  285 (966)
T KOG4626|consen  209 KAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNH  285 (966)
T ss_pred             HHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-Ccc
Confidence            7765  3 346899999999999999999999999987  45653 456667777777788888887777665533 233


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CC-hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHH
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVKE--PD-LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-IAFLEVLSA  474 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a  474 (665)
                      ..++..|...|...|.++-|...+++..+  |+ ...|+.|..++-..|+..+|...|.+.+..  .|+. ...+.|...
T Consensus       286 A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni  363 (966)
T KOG4626|consen  286 AVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNI  363 (966)
T ss_pred             hhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHH
Confidence            55666777889999999999999999874  43 468999999999999999999999999984  6766 578899999


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~  551 (665)
                      +...|.+++|..+|.....   +.|. ....+.|...|-.+|++++|+..+++. .++|. ...++.+...+...|+.+.
T Consensus       364 ~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~  440 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSA  440 (966)
T ss_pred             HHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHH
Confidence            9999999999999999986   4565 667899999999999999999999998 88997 6689999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 044628          552 AKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDH  599 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~  599 (665)
                      |.+.+.+++..+|.-+.++..|+.+|..+|+..+|+.-++...+....
T Consensus       441 A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD  488 (966)
T KOG4626|consen  441 AIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD  488 (966)
T ss_pred             HHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC
Confidence            999999999999999999999999999999999999999988765543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.88  E-value=1.1e-17  Score=186.30  Aligned_cols=507  Identities=13%  Similarity=0.029  Sum_probs=355.4

Q ss_pred             ccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCC--CCcccHHHHHHHHHhCCCCc--hHHH
Q 044628           75 KFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRV--RNIVTWNTLISGIINCGGNV--TPYF  150 (665)
Q Consensus        75 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~~~~~--~~~~  150 (665)
                      ..|+++.|...++..++.. +-+..++..|...|.+.|+.++|+..+++...  |+-..|..++..+   ++..  ..++
T Consensus        56 ~~Gd~~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~y  131 (987)
T PRK09782         56 KNNDEATAIREFEYIHQQV-PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTV  131 (987)
T ss_pred             hCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHH
Confidence            3499999999999999876 34588899999999999999999999998764  3333444444333   4333  8999


Q ss_pred             HHhhhCCCCCCc-chHHHHHHHH-----hcCCChHHHHHHHHHHHHhCCCCchHHHHHH-HHHHHhCCChHHHHHHHhcc
Q 044628          151 RRMLLDNVRLDH-ITFNSLLRAC-----VQADDIEVGRRLHSFILKVGFGLNCFVSSAL-VDLYGKCGFVEDARRVFDEV  223 (665)
Q Consensus       151 ~~m~~~g~~p~~-~t~~~ll~~~-----~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~~  223 (665)
                      +++....  |+. ..+..+....     .+..+.++|.+.++ .......|+..+.... ...|.+.|++++|++++.++
T Consensus       132 e~l~~~~--P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L  208 (987)
T PRK09782        132 EELLAQQ--KACDAVPTLRCRSEVGQNALRLAQLPVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEA  208 (987)
T ss_pred             HHHHHhC--CCChhHHHHHHHHhhccchhhhhhHHHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHH
Confidence            9998753  443 3333333330     22334477777776 4444444455555555 89999999999999999998


Q ss_pred             CCC---CchhHHHHHHHHHh-cCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCC-Cch
Q 044628          224 LCR---DLVLWNVMVSCYAL-NCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFD-LDV  298 (665)
Q Consensus       224 ~~~---~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~~  298 (665)
                      .+.   +...+..|-..|.+ .++ +++..+++.    .++-|......+...+.+.|+.++|.+++..+...-.. |+.
T Consensus       209 ~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~  283 (987)
T PRK09782        209 RQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQE  283 (987)
T ss_pred             HhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCcc
Confidence            654   33446667778888 377 788887553    33457788889999999999999999988876543111 111


Q ss_pred             h------------------------------HHHHHHHHHHhcCCHHHHHHHHhccCCC---------------------
Q 044628          299 L------------------------------VATSLVDMYAKNGNIDDACRVFDGMTAK---------------------  327 (665)
Q Consensus       299 ~------------------------------~~~~li~~~~~~g~~~~A~~~~~~~~~~---------------------  327 (665)
                      .                              ..-.+++.+.+.++++.+.++.+.-+..                     
T Consensus       284 ~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~  363 (987)
T PRK09782        284 KSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALR  363 (987)
T ss_pred             HHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHH
Confidence            1                              1223367778888888777774422210                     


Q ss_pred             -----------CchhHHHHHHHHHcCCChHHHHHHHHHHhhC-C-CCCCHHHHHHHHHHhCCCCchH---hHHHH-----
Q 044628          328 -----------NVVSWNTMVVGFGQNGDGREAVKLLRDMLQG-S-FCPDEVTLASILSSCGSLSISC---ETRQV-----  386 (665)
Q Consensus       328 -----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g-~~p~~~t~~~ll~~~~~~~~~~---~a~~i-----  386 (665)
                                 +......+---..+.|+.++|..+|+..... + ..++......++..+.+.+.+.   .+..+     
T Consensus       364 ~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~  443 (987)
T PRK09782        364 LARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLP  443 (987)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccc
Confidence                       1111112222345788999999999988662 1 2344444546677766665522   22111     


Q ss_pred             -----------------HHHHHHh-CC-CC--chhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhc
Q 044628          387 -----------------HAYAIKN-GV-QA--FLSIENALINAYSKCGSIAGALQCFGSVKE--PDLVTWTSIIGAYAFH  443 (665)
Q Consensus       387 -----------------~~~~~~~-g~-~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~  443 (665)
                                       ....... +. ++  +...+..+..++.. |+.++|...|.+...  |+......+...+...
T Consensus       444 ~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~  522 (987)
T PRK09782        444 LAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQV  522 (987)
T ss_pred             cchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence                             1112111 12 23  56677788888877 899999998877653  5433322334444689


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHH
Q 044628          444 GLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL  523 (665)
Q Consensus       444 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  523 (665)
                      |++++|...|+++...  .|+...+..+..++.+.|+.++|.++++...+.  -+++...+..+...+.+.|++++|+..
T Consensus       523 Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l--~P~~~~l~~~La~~l~~~Gr~~eAl~~  598 (987)
T PRK09782        523 EDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR--GLGDNALYWWLHAQRYIPGQPELALND  598 (987)
T ss_pred             CCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHhCCCHHHHHHH
Confidence            9999999999998664  555556667778889999999999999999872  223333444444455567999999999


Q ss_pred             HHhC-CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          524 LASM-PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       524 ~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      +++. ...|+...|..+..++.+.|+.++|+..++++++++|+++.++..++.++...|++++|+..+++..+..+
T Consensus       599 ~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P  674 (987)
T PRK09782        599 LTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP  674 (987)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            9998 67788889999999999999999999999999999999999999999999999999999999998876543

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

Probab=99.87  E-value=5.1e-18  Score=185.74  Aligned_cols=418  Identities=11%  Similarity=-0.008  Sum_probs=295.6

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC---CchhHHHHHHHHHhc
Q 044628          165 FNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR---DLVLWNVMVSCYALN  241 (665)
Q Consensus       165 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~  241 (665)
                      +...-..+.+.|++++|...|...++.  .|+...|..+..+|.+.|++++|++.++.....   +...|..+..+|...
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHc
Confidence            334456677889999999999999874  577888999999999999999999999887432   556888899999999


Q ss_pred             CCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          242 CLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVF  321 (665)
Q Consensus       242 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  321 (665)
                      |++++|+.-|......+- .+......++..+..    ..+........+.. +.+...+..+.. |........+..-+
T Consensus       208 g~~~eA~~~~~~~~~~~~-~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~  280 (615)
T TIGR00990       208 GKYADALLDLTASCIIDG-FRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGL  280 (615)
T ss_pred             CCHHHHHHHHHHHHHhCC-CccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhh
Confidence            999999998877654421 111111122211111    12222222232222 222222322222 22221111111112


Q ss_pred             hccCCCCc---hhHHHHHHH---HHcCCChHHHHHHHHHHhhCC-CCCCH-HHHHHHHHHhCCCCchHhHHHHHHHHHHh
Q 044628          322 DGMTAKNV---VSWNTMVVG---FGQNGDGREAVKLLRDMLQGS-FCPDE-VTLASILSSCGSLSISCETRQVHAYAIKN  393 (665)
Q Consensus       322 ~~~~~~~~---~~~~~li~~---~~~~g~~~~A~~~~~~m~~~g-~~p~~-~t~~~ll~~~~~~~~~~~a~~i~~~~~~~  393 (665)
                      +...+-+.   ..+..+...   ....+++++|++.|++....+ ..|+. ..+..+-..+...|+++.|...+...++.
T Consensus       281 ~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l  360 (615)
T TIGR00990       281 EDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL  360 (615)
T ss_pred             hcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            21111111   111111111   123478999999999998764 33443 45555666677899999999999998876


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHH
Q 044628          394 GVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFL  469 (665)
Q Consensus       394 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~  469 (665)
                      . +.....+..+...+...|++++|...|++..+   .+...|..+...+...|++++|+..|++.++.  .|+ ...+.
T Consensus       361 ~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~  437 (615)
T TIGR00990       361 D-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHI  437 (615)
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHH
Confidence            4 23355777888899999999999999998753   56788999999999999999999999999985  554 45677


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCCh-hH-------HHHHH
Q 044628          470 EVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRS-DT-------LGAFI  540 (665)
Q Consensus       470 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~-------~~~ll  540 (665)
                      .+..++.+.|++++|+..|+...+  ..+.+...|..+..++...|++++|++.|++. .+.|+. ..       ++..+
T Consensus       438 ~la~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~  515 (615)
T TIGR00990       438 QLGVTQYKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKAL  515 (615)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHH
Confidence            788889999999999999999987  23445788999999999999999999999997 444431 11       11122


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          541 GACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       541 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ..+...|++++|+..++++++++|++..++..++.+|.+.|++++|.+.+++..+.
T Consensus       516 ~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       516 ALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            23344699999999999999999999889999999999999999999999988654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=5.3e-19  Score=183.69  Aligned_cols=292  Identities=16%  Similarity=0.087  Sum_probs=193.4

Q ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCC-------chhHHHHHHHHHhcCC
Q 044628          171 ACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRD-------LVLWNVMVSCYALNCL  243 (665)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~  243 (665)
                      .+...|++++|...+..+++.+ +.+..++..+...|.+.|++++|..+++.+....       ...|..+...|.+.|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            3456677888888888888764 2345677778888888888888888887764421       1356777788888888


Q ss_pred             chHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHH
Q 044628          244 GDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLD----VLVATSLVDMYAKNGNIDDACR  319 (665)
Q Consensus       244 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~  319 (665)
                      +++|..+|+++.+.. ..+..++..+...+...|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|..
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            888888888887642 24566777777888888888888888888777653221    1234566677778888888888


Q ss_pred             HHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCC
Q 044628          320 VFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQ  396 (665)
Q Consensus       320 ~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~  396 (665)
                      .|+++.+   .+...+..+...|.+.|++++|+++|+++...+......++..+..++...|++++|...+..+.+..  
T Consensus       202 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--  279 (389)
T PRK11788        202 LLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--  279 (389)
T ss_pred             HHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--
Confidence            8877653   23456677777888888888888888887764322223445556666666666666666666665543  


Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCChhHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCCHH
Q 044628          397 AFLSIENALINAYSKCGSIAGALQCFGSVK--EPDLVTWTSIIGAYAF---HGLSKESIEVFEKMLSHAVRPDSI  466 (665)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~  466 (665)
                      |+...+..++..+.+.|++++|..+|+++.  .|+...++.++..+..   +|+.++++.++++|.+.++.|++.
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            333344566666666666666666666554  2566666666655543   346666666666666655555554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=6.8e-19  Score=182.86  Aligned_cols=288  Identities=13%  Similarity=0.109  Sum_probs=196.1

Q ss_pred             HhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCC-------chhHHHHHHHHHcCCCh
Q 044628          273 CGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKN-------VVSWNTMVVGFGQNGDG  345 (665)
Q Consensus       273 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~  345 (665)
                      +...|+++.|...+..+++.+ +.+..++..+...|.+.|++++|..+++.+....       ...|..+...|.+.|++
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            344455666666666665543 3344455555555555666666655555544311       12345555555555555


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcC
Q 044628          346 REAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSV  425 (665)
Q Consensus       346 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  425 (665)
                      ++|+.+|+++.+..                                    +.+..+++.++..|.+.|++++|.+.|+.+
T Consensus       124 ~~A~~~~~~~l~~~------------------------------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  167 (389)
T PRK11788        124 DRAEELFLQLVDEG------------------------------------DFAEGALQQLLEIYQQEKDWQKAIDVAERL  167 (389)
T ss_pred             HHHHHHHHHHHcCC------------------------------------cchHHHHHHHHHHHHHhchHHHHHHHHHHH
Confidence            55555555554431                                    223344455666666666666666666665


Q ss_pred             CC--CC------hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 044628          426 KE--PD------LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYH  496 (665)
Q Consensus       426 ~~--~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  496 (665)
                      .+  ++      ...|..+...+...|+.++|.+.|+++.+.  .|+ ...+..+...+.+.|++++|.++|+++...  
T Consensus       168 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--  243 (389)
T PRK11788        168 EKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQ--  243 (389)
T ss_pred             HHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--
Confidence            42  11      123556777788889999999999988875  344 456777778888899999999999988762  


Q ss_pred             CCCC--hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          497 ILPD--SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       497 ~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                       .|+  ...+..++.+|.+.|++++|.+.++++ ...|+...+..+...+...|++++|...++++++..|++. .+..+
T Consensus       244 -~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l  321 (389)
T PRK11788        244 -DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRL  321 (389)
T ss_pred             -ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHH
Confidence             343  456788889999999999999999988 5667777777888889999999999999999999999865 44444


Q ss_pred             HHHHHh---cCCHHHHHHHHHHHhhCCCccCCc
Q 044628          574 SNVYAS---ERCWFDVARLRKMMRDNCDHKVPG  603 (665)
Q Consensus       574 ~~~y~~---~g~~~~A~~~~~~m~~~~~~~~~~  603 (665)
                      ...+..   .|+.+++..++++|.+++++..|.
T Consensus       322 ~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        322 LDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            444442   568999999999999888888876

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.83  E-value=2.6e-16  Score=175.43  Aligned_cols=400  Identities=10%  Similarity=-0.024  Sum_probs=233.2

Q ss_pred             CcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhcc---CCCCchhHHHHHHH
Q 044628          161 DHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEV---LCRDLVLWNVMVSC  237 (665)
Q Consensus       161 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~  237 (665)
                      +..-..-.+......|+.++|.+++....... +.+...+..+...+.+.|++++|.++|++.   ...+...+..+...
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~   92 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILT   92 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            33344455566677788888888887777632 344556777777888888888888888774   23345567777777


Q ss_pred             HHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044628          238 YALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDA  317 (665)
Q Consensus       238 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  317 (665)
                      +...|++++|+..+++..+.  .|+...+..+..++...|+.++|...++.+++.. +.+...+..+..++.+.|..++|
T Consensus        93 l~~~g~~~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~A  169 (765)
T PRK10049         93 LADAGQYDEALVKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPA  169 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHH
Confidence            88888888888888887765  3332226666666777788888888888877764 44555566677777777777777


Q ss_pred             HHHHhccCCCCch--------hHHHHHHHHH-----cCCCh---HHHHHHHHHHhhC-CCCCCHH-HHHHHHHHhCCCCc
Q 044628          318 CRVFDGMTAKNVV--------SWNTMVVGFG-----QNGDG---REAVKLLRDMLQG-SFCPDEV-TLASILSSCGSLSI  379 (665)
Q Consensus       318 ~~~~~~~~~~~~~--------~~~~li~~~~-----~~g~~---~~A~~~~~~m~~~-g~~p~~~-t~~~ll~~~~~~~~  379 (665)
                      .+.++.... ++.        ....++....     ..+++   ++|++.++.+.+. ...|+.. .+..          
T Consensus       170 l~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~----------  238 (765)
T PRK10049        170 LGAIDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQR----------  238 (765)
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHH----------
Confidence            777776654 211        1111111111     11122   4455555555432 1122211 0000          


Q ss_pred             hHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hh-HHHHHHHHHHhcCChHHHHHHHHH
Q 044628          380 SCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPD---LV-TWTSIIGAYAFHGLSKESIEVFEK  455 (665)
Q Consensus       380 ~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~-~~~~li~~~~~~g~~~~A~~~~~~  455 (665)
                                           .....+.++...|+.++|...|+++.+.+   +. .-..+...|...|++++|+..|++
T Consensus       239 ---------------------a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~  297 (765)
T PRK10049        239 ---------------------ARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTE  297 (765)
T ss_pred             ---------------------HHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHH
Confidence                                 00000112234456666666666655311   11 111134456666666666666666


Q ss_pred             HHHcCCCC---CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC----------CCCC---hhhHHHHHHHHHhcCChHH
Q 044628          456 MLSHAVRP---DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYH----------ILPD---SEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       456 m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~  519 (665)
                      +.+.....   .......+..++...|++++|.++++.+.....          -.|+   ...+..+..++...|++++
T Consensus       298 ~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~e  377 (765)
T PRK10049        298 LFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQ  377 (765)
T ss_pred             HhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHH
Confidence            55432110   012344444455666666666666666654210          1123   2244556666777777777


Q ss_pred             HHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          520 AYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       520 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      |++.++++ ...| +...+..+...+...|+.++|++.++++++++|+++..+..++..+.+.|+|++|..+++.+.+.
T Consensus       378 A~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        378 AEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            77777776 3344 35566666677777777777777777777777777777777777777777777777777766543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=4.1e-17  Score=177.88  Aligned_cols=351  Identities=13%  Similarity=-0.009  Sum_probs=269.0

Q ss_pred             HhCCChHHHHHHHhccCCC------CchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHH
Q 044628          208 GKCGFVEDARRVFDEVLCR------DLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKL  281 (665)
Q Consensus       208 ~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~  281 (665)
                      .+..+++.-.-+|...+++      +..-...++..+.+.|++++|+.+++........+ ...+..++.++...|+++.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHH
Confidence            3455666655566555432      22334556778888899999999998888764333 3344445566667899999


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhC
Q 044628          282 GRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQG  358 (665)
Q Consensus       282 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  358 (665)
                      |...++.+++.. +.+...+..+...+.+.|++++|...|++..+   .+...|..+...+...|++++|...++.+...
T Consensus        95 A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         95 VLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            999999998875 55677788888899999999999999988764   35567888889999999999999999888765


Q ss_pred             CCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHH
Q 044628          359 SFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTS  435 (665)
Q Consensus       359 g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~  435 (665)
                      ...+.. .+.. +..+...|++++|...+..+.+....++......+...+.+.|++++|...|++...   .+...+..
T Consensus       174 ~P~~~~-a~~~-~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~  251 (656)
T PRK15174        174 VPPRGD-MIAT-CLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRS  251 (656)
T ss_pred             CCCCHH-HHHH-HHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            322222 2222 334677899999999988887765434444555667788899999999999998763   46678888


Q ss_pred             HHHHHHhcCChHH----HHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHH
Q 044628          436 IIGAYAFHGLSKE----SIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTD  509 (665)
Q Consensus       436 li~~~~~~g~~~~----A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~  509 (665)
                      +...|...|++++    |+..|++..+.  .|+. ..+..+...+...|++++|+..++....   ..| +...+..+..
T Consensus       252 Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~---l~P~~~~a~~~La~  326 (656)
T PRK15174        252 LGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLA---THPDLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHH
Confidence            9999999999986    89999999985  5654 5788888999999999999999999987   344 4566778889


Q ss_pred             HHHhcCChHHHHHHHHhC-CCCCChhHHH-HHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          510 LLGRVGLLVEAYDLLASM-PIEPRSDTLG-AFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~-~~~p~~~~~~-~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      +|.+.|++++|++.++++ ...|+...+. .+..++...|+.++|+..++++++..|++.
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            999999999999999988 5567654443 345678899999999999999999999864

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.83  E-value=1.3e-16  Score=177.72  Aligned_cols=374  Identities=12%  Similarity=0.018  Sum_probs=267.2

Q ss_pred             CCchHHHHHHHHHHHhCCChHHHHHHHhccCC---CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCC-CHhhHHHH
Q 044628          194 GLNCFVSSALVDLYGKCGFVEDARRVFDEVLC---RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKG-DYFTFSSL  269 (665)
Q Consensus       194 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~l  269 (665)
                      ..+.....-.+......|+.++|++++.+...   .+...+..+...+...|++++|.++|++....  .| +......+
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   89 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGL   89 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            33555555666778888999999999988754   23445889999999999999999999998775  34 35556677


Q ss_pred             HHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC--C-CchhHHHHHHHHHcCCChH
Q 044628          270 VNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA--K-NVVSWNTMVVGFGQNGDGR  346 (665)
Q Consensus       270 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~  346 (665)
                      ...+...|+.++|...++.+++.. +.+.. +..+..++...|+.++|...++++.+  | +...+..+...+...|..+
T Consensus        90 a~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049         90 ILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChH
Confidence            777889999999999999998874 55566 88888899999999999999988865  3 4456677788888889999


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH---HHHHHHHh
Q 044628          347 EAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSI---AGALQCFG  423 (665)
Q Consensus       347 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~  423 (665)
                      +|+..++....   .|+....   +.       ...+    ....+.          .+.......+++   ++|.+.++
T Consensus       168 ~Al~~l~~~~~---~p~~~~~---l~-------~~~~----~~~~r~----------~~~~~~~~~~r~~~ad~Al~~~~  220 (765)
T PRK10049        168 PALGAIDDANL---TPAEKRD---LE-------ADAA----AELVRL----------SFMPTRSEKERYAIADRALAQYD  220 (765)
T ss_pred             HHHHHHHhCCC---CHHHHHH---HH-------HHHH----HHHHHh----------hcccccChhHHHHHHHHHHHHHH
Confidence            99998876654   3441100   00       0000    000000          001111122223   55666666


Q ss_pred             cCCC-----CChh-HH----HHHHHHHHhcCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 044628          424 SVKE-----PDLV-TW----TSIIGAYAFHGLSKESIEVFEKMLSHAVR-PDSIAFLEVLSACSHGGLVSEGLRYFNLMI  492 (665)
Q Consensus       424 ~~~~-----~~~~-~~----~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  492 (665)
                      .+.+     |+.. .+    ...+..+...|++++|+..|+++.+.+.. |+.. -..+..++...|++++|+++|+.+.
T Consensus       221 ~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a-~~~la~~yl~~g~~e~A~~~l~~~l  299 (765)
T PRK10049        221 ALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWA-QRWVASAYLKLHQPEKAQSILTELF  299 (765)
T ss_pred             HHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHH-HHHHHHHHHhcCCcHHHHHHHHHHh
Confidence            5541     2211 11    11134556779999999999999987532 4332 2224678999999999999999987


Q ss_pred             HhcCCCC--ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-------------C---hhHHHHHHHHHHhcCCHHHHH
Q 044628          493 SDYHILP--DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-------------R---SDTLGAFIGACKVHGSIGLAK  553 (665)
Q Consensus       493 ~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-------------~---~~~~~~ll~~~~~~g~~~~a~  553 (665)
                      +.....+  ....+..+..++...|++++|.+.++++ ...|             +   ...+..+...+...|+.++|+
T Consensus       300 ~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~  379 (765)
T PRK10049        300 YHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAE  379 (765)
T ss_pred             hcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHH
Confidence            6311111  1345777788899999999999999988 3333             2   123445667788999999999


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 044628          554 WAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDH  599 (665)
Q Consensus       554 ~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~  599 (665)
                      ..++++++..|+++..+..++.++...|++++|++.+++.....+.
T Consensus       380 ~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd  425 (765)
T PRK10049        380 MRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPR  425 (765)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC
Confidence            9999999999999999999999999999999999999998876543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=1.3e-16  Score=174.10  Aligned_cols=351  Identities=10%  Similarity=-0.036  Sum_probs=276.3

Q ss_pred             HhcCCchHHHHHHHHHHHC--CCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044628          239 ALNCLGDGAIAVFNLMRLE--GMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDD  316 (665)
Q Consensus       239 ~~~g~~~~A~~~~~~m~~~--g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  316 (665)
                      .+..+|+.-.-+|..-.+.  .-.-+..-...++..+.+.|+.+.|..+++..+... +-+......++..+...|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHH
Confidence            3455555544444433221  011233345566778889999999999999999876 4445555566677778999999


Q ss_pred             HHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCC-HHHHHHHHHHhCCCCchHhHHHHHHHHHH
Q 044628          317 ACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD-EVTLASILSSCGSLSISCETRQVHAYAIK  392 (665)
Q Consensus       317 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~i~~~~~~  392 (665)
                      |...|+++.+   .+...|..+...+.+.|++++|+..|++....  .|+ ...+..+...+...|+.+.|...+..+..
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~  172 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQ  172 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            9999999865   35567888999999999999999999999874  454 45667778889999999999999998877


Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC----ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHH
Q 044628          393 NGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEP----DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIA  467 (665)
Q Consensus       393 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t  467 (665)
                      ....+.. .+..+. .+.+.|++++|...++.+.+.    +...+..+...+...|++++|+..|+++.+.  .|+ ...
T Consensus       173 ~~P~~~~-a~~~~~-~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~--~p~~~~~  248 (656)
T PRK15174        173 EVPPRGD-MIATCL-SFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALAR--GLDGAAL  248 (656)
T ss_pred             hCCCCHH-HHHHHH-HHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHH
Confidence            6544333 333333 478899999999999987642    3344455677889999999999999999986  454 467


Q ss_pred             HHHHHHHHhcCCcHHH----HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHH
Q 044628          468 FLEVLSACSHGGLVSE----GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIG  541 (665)
Q Consensus       468 ~~~ll~a~~~~g~~~~----a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~  541 (665)
                      +..+...+...|++++    |...|+.+.+.  -+.+...+..+..++.+.|++++|+..+++. ...|+ ...+..+..
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~  326 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            7788889999999986    89999999872  2335778899999999999999999999998 55665 556777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          542 ACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       542 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      ++...|++++|+..++++++.+|+++..+..++.+|...|++++|...+++..+...
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            899999999999999999999999877777789999999999999999999876544

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

Probab=99.77  E-value=1.2e-14  Score=151.70  Aligned_cols=522  Identities=12%  Similarity=0.043  Sum_probs=374.0

Q ss_pred             HHHHHHhh--ccCChHHHHHHHHHHHHh--CCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHHHHH--
Q 044628           67 SQALKVSA--KFGFLQQGKQLHSHIMKL--GLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGII--  140 (665)
Q Consensus        67 ~~ll~~~~--~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~--  140 (665)
                      ..+.++|.  ..+++..+..+|...+..  ...+|+.+.  +-..+.++|+.+.|+..|.+..+-|+..-++++....  
T Consensus       166 ~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIg--ig~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~  243 (1018)
T KOG2002|consen  166 ALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIG--IGHCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVD  243 (1018)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccch--hhhHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHH
Confidence            34445554  457899999999997764  456676553  3366779999999999999888766655555543321  


Q ss_pred             -hCCCCc-----hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCc--hHHHHHHHHHHHhCCC
Q 044628          141 -NCGGNV-----TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLN--CFVSSALVDLYGKCGF  212 (665)
Q Consensus       141 -~~~~~~-----~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~  212 (665)
                       ...+.+     +.++...-.. -.-|+...+.|-..+.-.|+++.+..+...++.......  ...|--+.++|-..|+
T Consensus       244 l~~~d~~s~~~~~~ll~~ay~~-n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd  322 (1018)
T KOG2002|consen  244 LNFNDSDSYKKGVQLLQRAYKE-NNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGD  322 (1018)
T ss_pred             HHccchHHHHHHHHHHHHHHhh-cCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhcc
Confidence             122222     2222222111 234677888888899999999999999999988752211  3346678899999999


Q ss_pred             hHHHHHHHhccCCC--C--chhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccC----CcHHHHH
Q 044628          213 VEDARRVFDEVLCR--D--LVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLG----SSKLGRQ  284 (665)
Q Consensus       213 ~~~A~~~~~~~~~~--~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~----~~~~a~~  284 (665)
                      +++|...|.+....  |  +..+--+...|.+.|+.+.+...|+...+.. +-+..|...+...|+..+    ..+.|..
T Consensus       323 ~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~  401 (1018)
T KOG2002|consen  323 FEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASN  401 (1018)
T ss_pred             HHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHH
Confidence            99999999877443  2  3456678889999999999999999998752 234566666666676664    4566777


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcc--------CCCCchhHHHHHHHHHcCCChHHHHHHHHHHh
Q 044628          285 IHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGM--------TAKNVVSWNTMVVGFGQNGDGREAVKLLRDML  356 (665)
Q Consensus       285 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  356 (665)
                      +.....+.- +.|...|-.+..+|....-+.. +.+|...        ....+...|.+...+...|++++|...|....
T Consensus       402 ~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~  479 (1018)
T KOG2002|consen  402 VLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSAL  479 (1018)
T ss_pred             HHHHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHh
Confidence            777766654 6677788888887766544332 4444333        23466778999999999999999999999886


Q ss_pred             hC---CCCCCH-----HHHH-HHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC-
Q 044628          357 QG---SFCPDE-----VTLA-SILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK-  426 (665)
Q Consensus       357 ~~---g~~p~~-----~t~~-~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-  426 (665)
                      ..   ...+|.     .|.. .+....-..++.+.|.++|..+.+... .-+..|-.|..+.-..+...+|...++... 
T Consensus       480 ~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp-~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~  558 (1018)
T KOG2002|consen  480 GKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHP-GYIDAYLRLGCMARDKNNLYEASLLLKDALN  558 (1018)
T ss_pred             hhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCc-hhHHHHHHhhHHHHhccCcHHHHHHHHHHHh
Confidence            54   223333     2222 233344567799999999999988642 112222233323333467778888888776 


Q ss_pred             --CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhc------------CCcHHHHHHHHHHH
Q 044628          427 --EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHA-VRPDSIAFLEVLSACSH------------GGLVSEGLRYFNLM  491 (665)
Q Consensus       427 --~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~------------~g~~~~a~~~~~~~  491 (665)
                        +.|+..|.-+...|....++..|.+-|+...+.- ..+|.....+|.+.|.+            .+..++|+++|.++
T Consensus       559 ~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kv  638 (1018)
T KOG2002|consen  559 IDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKV  638 (1018)
T ss_pred             cccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHH
Confidence              3677888888889999999999998777766532 23677777777775543            24577899999988


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCC
Q 044628          492 ISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELE--PSKP  567 (665)
Q Consensus       492 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~~~  567 (665)
                      .+  .-+.|...-+.+.-.++..|++.+|.++|.+.  ...-...+|..+...|...|++..|++.|+..++..  .+++
T Consensus       639 L~--~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~  716 (1018)
T KOG2002|consen  639 LR--NDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRS  716 (1018)
T ss_pred             Hh--cCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCH
Confidence            87  34557778888889999999999999999988  233356789999999999999999999999998643  4467


Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          568 VNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .+...|+.++.+.|+|.+|.+.........
T Consensus       717 ~vl~~Lara~y~~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  717 EVLHYLARAWYEAGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            888899999999999999999988776544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=1.5e-14  Score=158.19  Aligned_cols=186  Identities=11%  Similarity=0.061  Sum_probs=88.8

Q ss_pred             HHHhcCCHHHHHHHHhcCCCC--C--hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----CCCHHHHHHHHHHHhcC
Q 044628          408 AYSKCGSIAGALQCFGSVKEP--D--LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV-----RPDSIAFLEVLSACSHG  478 (665)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~~--~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----~p~~~t~~~ll~a~~~~  478 (665)
                      ++.+.|+..++.+.|+.+...  .  ...-..+..+|...+++++|+.+|+++....-     .++......|.-++...
T Consensus       301 aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~  380 (822)
T PRK14574        301 ALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNES  380 (822)
T ss_pred             HHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhc
Confidence            344455555555555555421  1  11233345555555555555555555544210     11112234445555555


Q ss_pred             CcHHHHHHHHHHHHHhcC----------CCCC---hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHH
Q 044628          479 GLVSEGLRYFNLMISDYH----------ILPD---SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGAC  543 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~  543 (665)
                      +++++|..+++.+.+...          -.|+   ...+..++..+...|++.+|++.++++ ...| |...+..+...+
T Consensus       381 e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~  460 (822)
T PRK14574        381 EQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIY  460 (822)
T ss_pred             ccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            555555555555544100          0011   112233344455555555555555555 2233 344455555555


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      ...|...+|++.++.+..++|++..+...++..+...|+|++|..+.+.+
T Consensus       461 ~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l  510 (822)
T PRK14574        461 LARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDV  510 (822)
T ss_pred             HhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            55555555555555555555555555555555555555555555555444

>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=99.76  E-value=7.5e-15  Score=160.85  Aligned_cols=388  Identities=11%  Similarity=-0.049  Sum_probs=273.2

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHhccC--CCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCC-CHhhHHHHHHHHhc
Q 044628          199 VSSALVDLYGKCGFVEDARRVFDEVL--CRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKG-DYFTFSSLVNSCGT  275 (665)
Q Consensus       199 ~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~  275 (665)
                      .+..+...|.+.|++++|++.|++..  .|+...|..+..+|.+.|++++|++.+++..+.  .| +...+..+..++..
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALEL--DPDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHH
Confidence            45566778888999999999998873  356778888889999999999999999998875  34 45577778888899


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHH
Q 044628          276 LGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDM  355 (665)
Q Consensus       276 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  355 (665)
                      .|++++|...+..+...+-..+.. ...++..+.+......+...++.-+ .+..++..+.. |......+.+..-+.+-
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~a~~~~~~~l~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  283 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLKKFAESKAKEILETKP-ENLPSVTFVGN-YLQSFRPKPRPAGLEDS  283 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHH-HHHHccCCcchhhhhcc
Confidence            999999988887666553222222 2222222222222334444443322 23334443332 32222222222222211


Q ss_pred             hhCCCCCCH-HHHHHHH---HHhCCCCchHhHHHHHHHHHHhC-C-CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--
Q 044628          356 LQGSFCPDE-VTLASIL---SSCGSLSISCETRQVHAYAIKNG-V-QAFLSIENALINAYSKCGSIAGALQCFGSVKE--  427 (665)
Q Consensus       356 ~~~g~~p~~-~t~~~ll---~~~~~~~~~~~a~~i~~~~~~~g-~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--  427 (665)
                      ..  ..|+. ..+..+-   .-....+.+++|...+....+.+ . +.....++.+...+...|++++|...|++..+  
T Consensus       284 ~~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~  361 (615)
T TIGR00990       284 NE--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD  361 (615)
T ss_pred             cc--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            11  11111 0011100   11134567899999999988865 2 33456788888999999999999999998764  


Q ss_pred             C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH
Q 044628          428 P-DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYT  505 (665)
Q Consensus       428 ~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  505 (665)
                      | +...|..+...+...|++++|+..|++..+.  .| +...+..+...+...|++++|+..|+...+  ..+.+...+.
T Consensus       362 P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~--l~P~~~~~~~  437 (615)
T TIGR00990       362 PRVTQSYIKRASMNLELGDPDKAEEDFDKALKL--NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSID--LDPDFIFSHI  437 (615)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCccCHHHHH
Confidence            3 3568888999999999999999999999885  45 456888888999999999999999999987  2333577788


Q ss_pred             HHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHH-------HHHH
Q 044628          506 CLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYAL-------VSNV  576 (665)
Q Consensus       506 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~-------l~~~  576 (665)
                      .+..++.+.|++++|+..|++. ...|+ ...|..+...+...|++++|+..++++++++|++...+..       ....
T Consensus       438 ~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~  517 (615)
T TIGR00990       438 QLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALAL  517 (615)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHH
Confidence            8999999999999999999988 55564 6788888899999999999999999999999975443321       1223


Q ss_pred             HHhcCCHHHHHHHHHHHhhCC
Q 044628          577 YASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       577 y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      |...|++++|.+++++.....
T Consensus       518 ~~~~~~~~eA~~~~~kAl~l~  538 (615)
T TIGR00990       518 FQWKQDFIEAENLCEKALIID  538 (615)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC
Confidence            445799999999999887654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.75  E-value=4.6e-14  Score=154.41  Aligned_cols=427  Identities=9%  Similarity=-0.007  Sum_probs=265.5

Q ss_pred             HhhcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCchHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHH
Q 044628          107 VYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHS  186 (665)
Q Consensus       107 ~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  186 (665)
                      ...+.|+++.|+..|++..+.+...                              ......++..+...|+.++|..+++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~------------------------------~~av~dll~l~~~~G~~~~A~~~~e   92 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQ------------------------------SGQVDDWLQIAGWAGRDQEVIDVYE   92 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccc------------------------------hhhHHHHHHHHHHcCCcHHHHHHHH
Confidence            4568899999999988876433221                              0011133344444455555555555


Q ss_pred             HHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC---CchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCH
Q 044628          187 FILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR---DLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDY  263 (665)
Q Consensus       187 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  263 (665)
                      ..+.. -.........+...|...|++++|.++|+++...   |...+..++..+.+.++.++|++.++++...  .|+.
T Consensus        93 ka~~p-~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~  169 (822)
T PRK14574         93 RYQSS-MNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTV  169 (822)
T ss_pred             HhccC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--Ccch
Confidence            55410 0111222222234555555666666555555322   2334445555555556666666655555443  3343


Q ss_pred             hhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhH------HH
Q 044628          264 FTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSW------NT  334 (665)
Q Consensus       264 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~------~~  334 (665)
                      ..+..++..+...++..+|.+.++++++.. +.+...+..++....+.|-...|.++..+-++   +...-|      ..
T Consensus       170 ~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~  248 (822)
T PRK14574        170 QNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAE  248 (822)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHH
Confidence            333222222222333434555566555553 44455555555666666666666655554432   000000      00


Q ss_pred             HHH-HH----HcCCC---hHHHHHHHHHHhhC-CCCCCHH-----HHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchh
Q 044628          335 MVV-GF----GQNGD---GREAVKLLRDMLQG-SFCPDEV-----TLASILSSCGSLSISCETRQVHAYAIKNGVQAFLS  400 (665)
Q Consensus       335 li~-~~----~~~g~---~~~A~~~~~~m~~~-g~~p~~~-----t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~  400 (665)
                      +|+ +.    ...++   .+.|+.-++.+... +-.|...     ...--+-++...++..++...++.+...+.+....
T Consensus       249 ~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y  328 (822)
T PRK14574        249 QVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDY  328 (822)
T ss_pred             HHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHH
Confidence            010 00    01112   34455555555441 2223221     22234556778888999999999999888777777


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCCC---------ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----------
Q 044628          401 IENALINAYSKCGSIAGALQCFGSVKEP---------DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV----------  461 (665)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----------  461 (665)
                      +-.++.++|...+++++|..+|..+...         +......|.-+|...+++++|..+++++.+.-.          
T Consensus       329 ~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~  408 (822)
T PRK14574        329 ARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPG  408 (822)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCC
Confidence            8889999999999999999999987431         233356788899999999999999999988311          


Q ss_pred             -CCCH--H-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhH
Q 044628          462 -RPDS--I-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDT  535 (665)
Q Consensus       462 -~p~~--~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~  535 (665)
                       .||.  . .+..+...+...|++.+|++.++.+..  .-+-|......+.+++...|++.+|++.++.. ...|+ ..+
T Consensus       409 ~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~  486 (822)
T PRK14574        409 KEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLIL  486 (822)
T ss_pred             CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHH
Confidence             2332  2 344556778899999999999999987  34557889999999999999999999999887 66775 455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  569 (665)
                      ......+....+++.+|..+.+.+++..|+++.+
T Consensus       487 ~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~  520 (822)
T PRK14574        487 ERAQAETAMALQEWHQMELLTDDVISRSPEDIPS  520 (822)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhH
Confidence            6667788888999999999999999999998754

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.73  E-value=1.3e-13  Score=131.26  Aligned_cols=420  Identities=17%  Similarity=0.156  Sum_probs=288.5

Q ss_pred             cccHHHHHHHHHhCCCCc-hHHHHHhhhCCCCCCcchHHHHHHHHh--cCCChHHH-HHHHHHHHHhCCCCchHHHHHHH
Q 044628          129 IVTWNTLISGIINCGGNV-TPYFRRMLLDNVRLDHITFNSLLRACV--QADDIEVG-RRLHSFILKVGFGLNCFVSSALV  204 (665)
Q Consensus       129 ~~~~~~li~~~~~~~~~~-~~~~~~m~~~g~~p~~~t~~~ll~~~~--~~~~~~~a-~~~~~~~~~~g~~~~~~~~~~li  204 (665)
                      +++=|.|+....+..-.+ .-+++.|...|+..+...-..|++..+  ...++.-+ .+.|-.|.+.|-. +..+     
T Consensus       116 V~~E~nL~kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~-S~~s-----  189 (625)
T KOG4422|consen  116 VETENNLLKMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGED-STSS-----  189 (625)
T ss_pred             hcchhHHHHHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccc-cccc-----
Confidence            345566665443333223 777888888887777666666655433  23333322 1233334333322 1222     


Q ss_pred             HHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHH
Q 044628          205 DLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQ  284 (665)
Q Consensus       205 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  284 (665)
                         .+.|++.+   ++-+...+...+|..||.|+|+--..+.|.++|++-.....+.+..+||.+|.+..-    ..+++
T Consensus       190 ---WK~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~  259 (625)
T KOG4422|consen  190 ---WKSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKK  259 (625)
T ss_pred             ---cccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHH
Confidence               23455544   555556667789999999999999999999999999998889999999999987543    34489


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHH----hccC----CCCchhHHHHHHHHHcCCChHH-HHHHHHHH
Q 044628          285 IHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVF----DGMT----AKNVVSWNTMVVGFGQNGDGRE-AVKLLRDM  355 (665)
Q Consensus       285 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~~~----~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m  355 (665)
                      +..+|+...+.||..++|+++.+..+.|+++.|++.+    .+|+    +|...+|..+|..+++.++..+ |..++.++
T Consensus       260 Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI  339 (625)
T KOG4422|consen  260 LVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDI  339 (625)
T ss_pred             HHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHH
Confidence            9999999999999999999999999999988776554    4454    5888999999999999988754 55555555


Q ss_pred             hhC--C--CC---C-CHHHHHHHHHHhCCCCchHhHHHHHHHHHHhC----CCCc---hhHHHHHHHHHHhcCCHHHHHH
Q 044628          356 LQG--S--FC---P-DEVTLASILSSCGSLSISCETRQVHAYAIKNG----VQAF---LSIENALINAYSKCGSIAGALQ  420 (665)
Q Consensus       356 ~~~--g--~~---p-~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g----~~~~---~~~~~~li~~~~~~g~~~~A~~  420 (665)
                      ...  |  ++   | |..-|.+.++.|.+..+.+.|.+++..+....    +.++   ..-|..+..+.+....++.-..
T Consensus       340 ~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~  419 (625)
T KOG4422|consen  340 QNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLK  419 (625)
T ss_pred             HHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            432  2  22   3 45678899999999999999999998775321    2222   3446677788888889999999


Q ss_pred             HHhcCCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC-c---HH----------
Q 044628          421 CFGSVKE----PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGG-L---VS----------  482 (665)
Q Consensus       421 ~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-~---~~----------  482 (665)
                      .|+.|..    |+..+...++++.-..|.++-.-+++.+|+..|..-+...-.-++.-+++.. .   .+          
T Consensus       420 ~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak  499 (625)
T KOG4422|consen  420 WYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAK  499 (625)
T ss_pred             HHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHH
Confidence            9999874    7777888888888889999999999999888775555544444444444332 0   00          


Q ss_pred             HHHHHHHHHH----HhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-------CCCCChhHHHHHHHHHHhcCCHHH
Q 044628          483 EGLRYFNLMI----SDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-------PIEPRSDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       483 ~a~~~~~~~~----~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~ll~~~~~~g~~~~  551 (665)
                      -|..+++...    +.....-.....++..-++.|.|+.++|.+++.-.       +..|......-|+.+....++..+
T Consensus       500 ~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsq  579 (625)
T KOG4422|consen  500 CAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQ  579 (625)
T ss_pred             HHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHH
Confidence            0111111110    00112334556778888889999999998887544       344444444456677777788888


Q ss_pred             HHHHHHHHHhcCC
Q 044628          552 AKWAAEKLLELEP  564 (665)
Q Consensus       552 a~~~~~~~~~~~p  564 (665)
                      |..+++.+.+.+-
T Consensus       580 A~~~lQ~a~~~n~  592 (625)
T KOG4422|consen  580 AIEVLQLASAFNL  592 (625)
T ss_pred             HHHHHHHHHHcCc
Confidence            8888887766543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.72  E-value=2.1e-13  Score=129.82  Aligned_cols=432  Identities=12%  Similarity=0.077  Sum_probs=257.8

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhc--CCCh-HHHHHHHcccC---CCCcccHHHHHH
Q 044628           64 SFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVK--CKAF-DDMEKLFDEMR---VRNIVTWNTLIS  137 (665)
Q Consensus        64 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~--~g~~-~~A~~~f~~~~---~~~~~~~~~li~  137 (665)
                      .+=+.|++. ...|.+..+--++..|...|.+.++.+.-.|+..-+-  ...+ -.-++.|-.|.   +.+..+|.    
T Consensus       117 ~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK----  191 (625)
T KOG4422|consen  117 ETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWK----  191 (625)
T ss_pred             cchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccc----
Confidence            455666654 4567888999999999999999888887776654332  2222 22234455554   33444442    


Q ss_pred             HHHhCCCCchHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHH
Q 044628          138 GIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDAR  217 (665)
Q Consensus       138 ~~~~~~~~~~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  217 (665)
                          .|...--+|+.     .+-+..||.++|.++|+--..+.|.+++.+......+.+..++|.+|.+-.-.-+    .
T Consensus       192 ----~G~vAdL~~E~-----~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K  258 (625)
T KOG4422|consen  192 ----SGAVADLLFET-----LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----K  258 (625)
T ss_pred             ----cccHHHHHHhh-----cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----H
Confidence                12111111221     2335667777777777777777777777777666666677777777754432222    4


Q ss_pred             HHHhcc----CCCCchhHHHHHHHHHhcCCchH----HHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHH-HHHHHHH
Q 044628          218 RVFDEV----LCRDLVLWNVMVSCYALNCLGDG----AIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKL-GRQIHGL  288 (665)
Q Consensus       218 ~~~~~~----~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~-a~~~~~~  288 (665)
                      ++..+|    ..||..++|+++++..+.|+++.    |++++.+|++.|+.|...+|..+|..+++.++..+ +..+..+
T Consensus       259 ~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~d  338 (625)
T KOG4422|consen  259 KLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIND  338 (625)
T ss_pred             HHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHH
Confidence            444444    34677777777777777776654    56677788888888888888888887777776533 3333333


Q ss_pred             HHH----hCC----CCchhHHHHHHHHHHhcCCHHHHHHHHhccCCC-----------CchhHHHHHHHHHcCCChHHHH
Q 044628          289 VIK----QSF----DLDVLVATSLVDMYAKNGNIDDACRVFDGMTAK-----------NVVSWNTMVVGFGQNGDGREAV  349 (665)
Q Consensus       289 ~~~----~g~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~  349 (665)
                      +..    ..+    +.|...+...++.|.+..+.+-|..+-.-....           ...-|..+....|+....+.-+
T Consensus       339 I~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~  418 (625)
T KOG4422|consen  339 IQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTL  418 (625)
T ss_pred             HHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            322    222    224455666677777777777777765544321           1233566777888888899999


Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC
Q 044628          350 KLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPD  429 (665)
Q Consensus       350 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  429 (665)
                      .+|+.|.-.-+-|+..+...++++....+.++....++..++..|.........-+...+++..            ..|+
T Consensus       419 ~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k------------~hp~  486 (625)
T KOG4422|consen  419 KWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK------------LHPL  486 (625)
T ss_pred             HHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC------------CCCC
Confidence            9999999888889999999999999999999999999999988875544433333333333221            0122


Q ss_pred             hhHHHHHHHHHHhc-CChHH-HHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH--
Q 044628          430 LVTWTSIIGAYAFH-GLSKE-SIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYT--  505 (665)
Q Consensus       430 ~~~~~~li~~~~~~-g~~~~-A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~--  505 (665)
                      ...-..+-...++. -++.+ ....-.+|++..+.|..  .+.++-.+.+.|..++|.++|....+..+--|.....+  
T Consensus       487 tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~--l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm  564 (625)
T KOG4422|consen  487 TPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATS--LNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAM  564 (625)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhH--HHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhH
Confidence            11111111111110 01111 11222344444333333  33334445677777777777777755433334333344  


Q ss_pred             -HHHHHHHhcCChHHHHHHHHhC
Q 044628          506 -CLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       506 -~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                       -+++.-.+......|...++-|
T Consensus       565 ~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  565 AELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHH
Confidence             4445555666777777776666

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

Probab=99.72  E-value=2.8e-13  Score=141.79  Aligned_cols=519  Identities=15%  Similarity=0.094  Sum_probs=362.9

Q ss_pred             HhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCC---ChHHHHHHHccc---CCCCcccHHHHHHHHHhCCCC
Q 044628           72 VSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCK---AFDDMEKLFDEM---RVRNIVTWNTLISGIINCGGN  145 (665)
Q Consensus        72 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~~f~~~---~~~~~~~~~~li~~~~~~~~~  145 (665)
                      .+.+.++.+.|...|.+.++... .++..+-.|--+-....   .+..+..++...   ...|++.-|.|-+-|.-.|+.
T Consensus       208 Cf~kl~~~~~a~~a~~ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy  286 (1018)
T KOG2002|consen  208 CFWKLGMSEKALLAFERALQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDY  286 (1018)
T ss_pred             HHHhccchhhHHHHHHHHHhcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccH
Confidence            44677888889999988888541 12222222221112222   334444444433   245677788888888888887


Q ss_pred             c--hHHHHHhhhCCC-C-CCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHh
Q 044628          146 V--TPYFRRMLLDNV-R-LDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFD  221 (665)
Q Consensus       146 ~--~~~~~~m~~~g~-~-p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  221 (665)
                      .  ..+...+...-. . .-..+|-.+-+++-..|++++|.+.|-+..+..-..-+..+-.|..+|.+.|+++.+...|+
T Consensus       287 ~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fE  366 (1018)
T KOG2002|consen  287 ERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFE  366 (1018)
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHH
Confidence            7  566655554321 1 11345778889999999999999999988876432224455678899999999999999999


Q ss_pred             ccCCC---CchhHHHHHHHHHhcC----CchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHH----HH
Q 044628          222 EVLCR---DLVLWNVMVSCYALNC----LGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGL----VI  290 (665)
Q Consensus       222 ~~~~~---~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~----~~  290 (665)
                      .+...   +..+...|...|+..+    ..+.|..++.+..+.- ..|...|..+-..+... +.......+..    +.
T Consensus       367 kv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~  444 (1018)
T KOG2002|consen  367 KVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQT-DPWASLDAYGNALDILE  444 (1018)
T ss_pred             HHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHH
Confidence            98443   4455666666666665    4566777766665542 33566676666655544 33333555544    44


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC-------CCc------hhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 044628          291 KQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA-------KNV------VSWNTMVVGFGQNGDGREAVKLLRDMLQ  357 (665)
Q Consensus       291 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~  357 (665)
                      ..+-.+.+.+.|.+...+...|+++.|...|++...       +|.      .+--.+...+-..++.+.|.+.|....+
T Consensus       445 ~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilk  524 (1018)
T KOG2002|consen  445 SKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILK  524 (1018)
T ss_pred             HcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            556678889999999999999999999999987653       222      1222355666677899999999999987


Q ss_pred             CCCCCCHHH-HHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CChh
Q 044628          358 GSFCPDEVT-LASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----PDLV  431 (665)
Q Consensus       358 ~g~~p~~~t-~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~  431 (665)
                      .  .|.-++ |..+.......+...++...+..+.... ..++.+++.+...|.+..++..|.+-|..+.+     +|..
T Consensus       525 e--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Y  601 (1018)
T KOG2002|consen  525 E--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAY  601 (1018)
T ss_pred             H--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchh
Confidence            5  466554 3333323334567788888888776643 44556666777789998888888886655542     4555


Q ss_pred             HHHHHHHHHH------------hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 044628          432 TWTSIIGAYA------------FHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP  499 (665)
Q Consensus       432 ~~~~li~~~~------------~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  499 (665)
                      +.-+|.+.|.            ..+..++|+++|.+.++.. +-|...-+.+.-.++..|.+.+|..+|.++.+.  ..-
T Consensus       602 sliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~  678 (1018)
T KOG2002|consen  602 SLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREA--TSD  678 (1018)
T ss_pred             HHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHH--Hhh
Confidence            5555555443            2345788999999998863 336677788888899999999999999999883  334


Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSN  575 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  575 (665)
                      ...+|-.+..+|..+|++..|+++|+..    .-..+..+...|..++...|.+.+|.+.+..+..+.|.++..-..++-
T Consensus       679 ~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  679 FEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             CCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            5678899999999999999999999987    333467788899999999999999999999999999999877665554


Q ss_pred             HHH-------------------hcCCHHHHHHHHHHHhhCCCc
Q 044628          576 VYA-------------------SERCWFDVARLRKMMRDNCDH  599 (665)
Q Consensus       576 ~y~-------------------~~g~~~~A~~~~~~m~~~~~~  599 (665)
                      +..                   ..+..++|.++|..+...+-+
T Consensus       759 v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  759 VLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            433                   344578888888888876543

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.68  E-value=3.1e-14  Score=136.13  Aligned_cols=203  Identities=13%  Similarity=0.097  Sum_probs=170.0

Q ss_pred             CCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHH
Q 044628          376 SLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEV  452 (665)
Q Consensus       376 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~  452 (665)
                      ..|++++|...+.+.....-......|| +.-.+-+.|++++|++.|-++.   ..++...-.+.+.|-...+..+|+++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            4578999999999988776554444554 3345778899999999998875   46777788888999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC
Q 044628          453 FEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP  531 (665)
Q Consensus       453 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  531 (665)
                      +-+.... ++.|+..+.-|...|-+.|+-.+|.+++-.--+  -++.+.++..-|...|....-+++|+..|++. -++|
T Consensus       581 ~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp  657 (840)
T KOG2003|consen  581 LMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQP  657 (840)
T ss_pred             HHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCc
Confidence            9777653 444667888889999999999999998876544  46668888888999999999999999999999 7899


Q ss_pred             ChhHHHHHHHHH-HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          532 RSDTLGAFIGAC-KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       532 ~~~~~~~ll~~~-~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      +.+-|..++.+| ++.|++..|...++.....-|.+......|..+....|.
T Consensus       658 ~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  658 NQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             cHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            999999999766 678999999999999999999999999999998887774

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

Probab=99.67  E-value=2.1e-11  Score=122.31  Aligned_cols=489  Identities=12%  Similarity=0.085  Sum_probs=331.1

Q ss_pred             HHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccC---CCCcccHHHHHHHHHhCCCCc-
Q 044628           71 KVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMR---VRNIVTWNTLISGIINCGGNV-  146 (665)
Q Consensus        71 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~~~~~-  146 (665)
                      .+.......+.|+-++....+. ++.+...|    -+|++...++.|.++++...   ..+...|-+--..=-++|+.+ 
T Consensus       384 KaAVelE~~~darilL~rAvec-cp~s~dLw----lAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~m  458 (913)
T KOG0495|consen  384 KAAVELEEPEDARILLERAVEC-CPQSMDLW----LALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDM  458 (913)
T ss_pred             HHHHhccChHHHHHHHHHHHHh-ccchHHHH----HHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHH
Confidence            4445566677788888888774 23344444    45566677888988887664   456667765554445566554 


Q ss_pred             -hH----HHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCc--hHHHHHHHHHHHhCCChHHHHHH
Q 044628          147 -TP----YFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLN--CFVSSALVDLYGKCGFVEDARRV  219 (665)
Q Consensus       147 -~~----~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~  219 (665)
                       ..    -+..+...|+..|..-|-.=..+|-..|.+-.+..+....+..|++..  ..+|+.-...|.+.+.++-|+.+
T Consensus       459 v~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAV  538 (913)
T KOG0495|consen  459 VEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAV  538 (913)
T ss_pred             HHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHH
Confidence             22    244566778888888777777777777777777777777777776532  45666666677777777777777


Q ss_pred             HhccCC---CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCC
Q 044628          220 FDEVLC---RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDL  296 (665)
Q Consensus       220 ~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~  296 (665)
                      |....+   .+...|...+..=-..|..++-..+|++....- +-....|....+..-..|++..|..++..+.+.. +.
T Consensus       539 ya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pn  616 (913)
T KOG0495|consen  539 YAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PN  616 (913)
T ss_pred             HHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CC
Confidence            655432   244456555555555666666666666665541 1122222222333334455555555555555543 33


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHh
Q 044628          297 DVLVATSLVDMYAKNGNIDDACRVFDGMTA--KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSC  374 (665)
Q Consensus       297 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  374 (665)
                      +..+|-+-+..-..+.+++.|+.+|.+...  +....|.--+.----.+..++|++++++..+.  -|+           
T Consensus       617 seeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~-----------  683 (913)
T KOG0495|consen  617 SEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPD-----------  683 (913)
T ss_pred             cHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCc-----------
Confidence            444555555555555555555555554432  33334433333333344455555555444432  222           


Q ss_pred             CCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHH
Q 044628          375 GSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE--P-DLVTWTSIIGAYAFHGLSKESIE  451 (665)
Q Consensus       375 ~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~  451 (665)
                                             -...|-.+.+.+-+.++++.|.+.|..-.+  | .+..|-.+...=-+.|+...|..
T Consensus       684 -----------------------f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~  740 (913)
T KOG0495|consen  684 -----------------------FHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARS  740 (913)
T ss_pred             -----------------------hHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHH
Confidence                                   234556677788888999999998887653  3 45678888888888899999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCC
Q 044628          452 VFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEP  531 (665)
Q Consensus       452 ~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p  531 (665)
                      ++++.+-.+ +-|...|...++.=.+.|..++|..+..+..+  .++.+...|..-|.+..+.++-..+.+.+++..  .
T Consensus       741 ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALkkce--~  815 (913)
T KOG0495|consen  741 ILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--H  815 (913)
T ss_pred             HHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHHHHHHHhcc--C
Confidence            999998863 33567888999999999999999999999988  466778889999999999999888888888874  4


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeEEEE
Q 044628          532 RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEI  609 (665)
Q Consensus       532 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~i~~  609 (665)
                      |+.+..++...+....+++.|+.-|+++++.+|++..+|..+-..+.+.|.-++-.+++++.....  +.-|..|+-+
T Consensus       816 dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~E--P~hG~~W~av  891 (913)
T KOG0495|consen  816 DPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAE--PTHGELWQAV  891 (913)
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCCCcHHHHH
Confidence            566677777888889999999999999999999999999999999999999999999998876543  3456777643

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

Probab=99.64  E-value=8.5e-11  Score=118.05  Aligned_cols=512  Identities=13%  Similarity=0.060  Sum_probs=379.3

Q ss_pred             cCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcc-----------------cCCCCcccHHHHHHH
Q 044628           76 FGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDE-----------------MRVRNIVTWNTLISG  138 (665)
Q Consensus        76 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~-----------------~~~~~~~~~~~li~~  138 (665)
                      .++...|+-++....+.+ +.++.-|-+-...=-..|.+..|+.+..+                 +..|++  --++|.-
T Consensus       264 l~DikKaR~llKSvretn-P~hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLeaiRLhp~d~--aK~vvA~  340 (913)
T KOG0495|consen  264 LEDIKKARLLLKSVRETN-PKHPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLEAIRLHPPDV--AKTVVAN  340 (913)
T ss_pred             HHHHHHHHHHHHHHHhcC-CCCCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHHHHhcCChHH--HHHHHHH
Confidence            356777888888888765 23333443333333344555555554432                 122332  3334433


Q ss_pred             HHhCCCCc-----------------hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHH
Q 044628          139 IINCGGNV-----------------TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSS  201 (665)
Q Consensus       139 ~~~~~~~~-----------------~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  201 (665)
                      -++.--..                 .+++++-.+.  -|+.+.   |=++.....+.+.|.-++...++.- +.+...|.
T Consensus       341 Avr~~P~Sv~lW~kA~dLE~~~~~K~RVlRKALe~--iP~sv~---LWKaAVelE~~~darilL~rAvecc-p~s~dLwl  414 (913)
T KOG0495|consen  341 AVRFLPTSVRLWLKAADLESDTKNKKRVLRKALEH--IPRSVR---LWKAAVELEEPEDARILLERAVECC-PQSMDLWL  414 (913)
T ss_pred             HHHhCCCChhhhhhHHhhhhHHHHHHHHHHHHHHh--CCchHH---HHHHHHhccChHHHHHHHHHHHHhc-cchHHHHH
Confidence            33332111                 2334433332  243332   3344555667777888888888863 33344444


Q ss_pred             HHHHHHHhCCChHHHHHHHhcc---CCCCchhHHHHHHHHHhcCCchHHHHHHHH----HHHCCCCCCHhhHHHHHHHHh
Q 044628          202 ALVDLYGKCGFVEDARRVFDEV---LCRDLVLWNVMVSCYALNCLGDGAIAVFNL----MRLEGMKGDYFTFSSLVNSCG  274 (665)
Q Consensus       202 ~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~----m~~~g~~p~~~t~~~ll~~~~  274 (665)
                          +|++..-++.|.++++..   ...+...|-+-..-=-.+|+.+...+++++    +...|+..+...|..=..+|-
T Consensus       415 ----AlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e  490 (913)
T KOG0495|consen  415 ----ALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACE  490 (913)
T ss_pred             ----HHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHh
Confidence                455666778888887655   445788888877777788998888887765    456799999999999899999


Q ss_pred             ccCCcHHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHH
Q 044628          275 TLGSSKLGRQIHGLVIKQSFDLD--VLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAV  349 (665)
Q Consensus       275 ~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  349 (665)
                      ..|..-.+..|...++..|+...  ..+|+.-.+.|.+.+.++-|+.+|....+   .+...|...+..--..|..++-.
T Consensus       491 ~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~  570 (913)
T KOG0495|consen  491 DAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLE  570 (913)
T ss_pred             hcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHH
Confidence            99999999999999999988553  46788888999999999999999988765   45677888887777889999999


Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC--C
Q 044628          350 KLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK--E  427 (665)
Q Consensus       350 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~  427 (665)
                      .+|++....- +-....+.......-..|++..|+.++..+.+... .+..++-+-+..-.....++.|+.+|.+..  .
T Consensus       571 Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~p-nseeiwlaavKle~en~e~eraR~llakar~~s  648 (913)
T KOG0495|consen  571 ALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANP-NSEEIWLAAVKLEFENDELERARDLLAKARSIS  648 (913)
T ss_pred             HHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHhccC
Confidence            9999998753 22334444444556667999999999999988764 378888889999999999999999999876  4


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHH
Q 044628          428 PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTC  506 (665)
Q Consensus       428 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~  506 (665)
                      ++...|.--+...-..++.++|++++++.++.  -|+.. .|..+.+.+-+.++++.|.+.|..-.+  .++-.+-.|-.
T Consensus       649 gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWll  724 (913)
T KOG0495|consen  649 GTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLL  724 (913)
T ss_pred             CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHH
Confidence            78888888888878889999999999999985  77775 677778889999999999999988776  34455778889


Q ss_pred             HHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------------------
Q 044628          507 LTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK------------------  566 (665)
Q Consensus       507 l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------------------  566 (665)
                      |.++=.+.|.+-.|..++++.  ..+.+...|...+..-.++|+.++|...+.++++--|.+                  
T Consensus       725 LakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkT  804 (913)
T KOG0495|consen  725 LAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKT  804 (913)
T ss_pred             HHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccch
Confidence            999999999999999999998  333468899999999999999999999988887555543                  


Q ss_pred             ------------CchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeE
Q 044628          567 ------------PVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSW  606 (665)
Q Consensus       567 ------------~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~  606 (665)
                                  +.+....+.++....+++.|++.|.+..+.+..--..+.|
T Consensus       805 ks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~  856 (913)
T KOG0495|consen  805 KSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAW  856 (913)
T ss_pred             HHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHH
Confidence                        4456677888888999999999999888766543333333

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

Probab=99.60  E-value=3.3e-12  Score=133.11  Aligned_cols=326  Identities=13%  Similarity=0.085  Sum_probs=196.9

Q ss_pred             CCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcc---CCCCchhHHHHHHHHHcCCChHHHHHHHH
Q 044628          277 GSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGM---TAKNVVSWNTMVVGFGQNGDGREAVKLLR  353 (665)
Q Consensus       277 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~  353 (665)
                      |++++|..++.++++.. +.+...|-.|...|-..|+.+++...+--.   ...|...|-.+..-..+.|.+++|.-.|.
T Consensus       153 g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~  231 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYS  231 (895)
T ss_pred             CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            55555555555555443 334444455555555555555544433221   22334445444444555555555555555


Q ss_pred             HHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHH----HHHHHHhcCCHHHHHHHHhcCCC--
Q 044628          354 DMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENA----LINAYSKCGSIAGALQCFGSVKE--  427 (665)
Q Consensus       354 ~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~----li~~~~~~g~~~~A~~~~~~~~~--  427 (665)
                      +.++.. +++...+---...|-+.|+...|..-+.++.....+.|..-...    .+..|...++-+.|.+.++....  
T Consensus       232 rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~  310 (895)
T KOG2076|consen  232 RAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKE  310 (895)
T ss_pred             HHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhc
Confidence            544432 12222222223334444555555444444444333222222222    23344455555666666655442  


Q ss_pred             ---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---------------------------CHHHHHHHHHHHhc
Q 044628          428 ---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP---------------------------DSIAFLEVLSACSH  477 (665)
Q Consensus       428 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---------------------------~~~t~~~ll~a~~~  477 (665)
                         -+...++.++..|.+...++.|......+.....++                           +... ..+.-++.+
T Consensus       311 ~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~  389 (895)
T KOG2076|consen  311 KDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVH  389 (895)
T ss_pred             cccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhc
Confidence               334456777777777777777777777776622222                           2222 112222333


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCChHHHHHHHHhC---CCCCChhHHHHHHHHHHhcCCHHHH
Q 044628          478 GGLVSEGLRYFNLMISDYHILP--DSEHYTCLTDLLGRVGLLVEAYDLLASM---PIEPRSDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~~~~~~g~~~~a  552 (665)
                      ....+....+...... ..+.|  +...|.-+.++|...|++.+|++++..+   +...+..+|-.+...+...|..++|
T Consensus       390 L~~~e~~e~ll~~l~~-~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A  468 (895)
T KOG2076|consen  390 LKERELLEALLHFLVE-DNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEA  468 (895)
T ss_pred             ccccchHHHHHHHHHH-hcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHH
Confidence            3333333333333433 34333  5778899999999999999999999999   2223477999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeE
Q 044628          553 KWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSW  606 (665)
Q Consensus       553 ~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~  606 (665)
                      .+.+++++.+.|++..+-..|+.+|.+.|+.|+|.+++..+..-+.++.++++|
T Consensus       469 ~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  469 IEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            999999999999999999999999999999999999999988666666777777

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.60  E-value=4e-15  Score=146.38  Aligned_cols=253  Identities=21%  Similarity=0.140  Sum_probs=113.4

Q ss_pred             HHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHH-HhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH
Q 044628          337 VGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILS-SCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSI  415 (665)
Q Consensus       337 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~  415 (665)
                      ..+.+.|++++|++++++.......|+...|-.++. .+-..++.+.|.+.++.+...+.. +...+..++.. ...+++
T Consensus        16 ~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~   93 (280)
T PF13429_consen   16 RLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDP   93 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccccc
Confidence            344445555555555543332221233333333222 233345555555555555544322 34445566666 678888


Q ss_pred             HHHHHHHhcCC--CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 044628          416 AGALQCFGSVK--EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHA-VRPDSIAFLEVLSACSHGGLVSEGLRYFNLMI  492 (665)
Q Consensus       416 ~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  492 (665)
                      ++|.+++...-  .++...+..++..+...|+++++.++++++.... ..++...|..+...+.+.|+.++|++++++..
T Consensus        94 ~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al  173 (280)
T PF13429_consen   94 EEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKAL  173 (280)
T ss_dssp             ------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99988887664  3667778888889999999999999999987643 23455677788888999999999999999998


Q ss_pred             HhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 044628          493 SDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       493 ~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  569 (665)
                      +   ..| |......++..+...|+.+++.++++..  ....|+..|..+..++...|+.++|...++++.+.+|+|+..
T Consensus       174 ~---~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~  250 (280)
T PF13429_consen  174 E---LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLW  250 (280)
T ss_dssp             H---H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHH
T ss_pred             H---cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccccc
Confidence            7   356 4778889999999999999988888777  224567788999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          570 YALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       570 ~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      ...+++++...|+.++|.+++++.-
T Consensus       251 ~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  251 LLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccc
Confidence            9999999999999999999988764

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.58  E-value=1.1e-11  Score=128.57  Aligned_cols=520  Identities=10%  Similarity=-0.022  Sum_probs=298.9

Q ss_pred             ccCCChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHH
Q 044628           58 STHSAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLIS  137 (665)
Q Consensus        58 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~  137 (665)
                      |+.|+.+||.+++..|+..|+.+.|- +|..|.-..++....+++.++......++.+.+.       +|...+|+.|..
T Consensus        20 gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~aDtyt~Ll~   91 (1088)
T KOG4318|consen   20 GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLADTYTNLLK   91 (1088)
T ss_pred             cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCchhHHHHHHH
Confidence            99999999999999999999999998 9999998888889999999999999999887765       778889999999


Q ss_pred             HHHhCCCCc-hHHHHH-hh-------hCCCCCCcchHHHHHHHHhcCC-C------hHHHHHHHHHHHHhCC-CCchHHH
Q 044628          138 GIINCGGNV-TPYFRR-ML-------LDNVRLDHITFNSLLRACVQAD-D------IEVGRRLHSFILKVGF-GLNCFVS  200 (665)
Q Consensus       138 ~~~~~~~~~-~~~~~~-m~-------~~g~~p~~~t~~~ll~~~~~~~-~------~~~a~~~~~~~~~~g~-~~~~~~~  200 (665)
                      +|.+.|+.. ++..++ |.       ..|+.--..-|-..+++|-..- +      ..--+.+++..++.+. .|...-+
T Consensus        92 ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~  171 (1088)
T KOG4318|consen   92 AYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWN  171 (1088)
T ss_pred             HHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCccccc
Confidence            999999987 555554 22       1232222222222222221110 0      0011223333333331 1111111


Q ss_pred             HH---HHHHHHh-CCChHHHHHHHhccC-CCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhc
Q 044628          201 SA---LVDLYGK-CGFVEDARRVFDEVL-CRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGT  275 (665)
Q Consensus       201 ~~---li~~~~~-~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  275 (665)
                      +.   .++-... ...+++-........ .++..+|.+.+.+-..+|+.+.|..++.+|++.|+..+..-|-.++-+   
T Consensus       172 ~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---  248 (1088)
T KOG4318|consen  172 APFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---  248 (1088)
T ss_pred             chHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---
Confidence            11   1111111 122333333333333 478889999999999999999999999999999998888877777765   


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChH-----HHHH
Q 044628          276 LGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGR-----EAVK  350 (665)
Q Consensus       276 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~-----~A~~  350 (665)
                      .++...+..+..-|...|+.|+..|+.--+-.+.++|....+.+..+.-.--....+..+..+...+.+.+     -...
T Consensus       249 ~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~  328 (1088)
T KOG4318|consen  249 INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIG  328 (1088)
T ss_pred             CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHH
Confidence            78888888999999999999999998877777777665333222211100001112233333311111111     1222


Q ss_pred             HHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCC---CchhHHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 044628          351 LLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQ---AFLSIENALINAYSKCGSIAGALQCFGSVKE  427 (665)
Q Consensus       351 ~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  427 (665)
                      .+.+..-.|+.-....|..... ....|.-+...++-..+..--..   .++..+..+            +.+.|.+...
T Consensus       329 s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~------------lrqyFrr~e~  395 (1088)
T KOG4318|consen  329 STKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGAL------------LRQYFRRIER  395 (1088)
T ss_pred             HhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHH------------HHHHHHHHHh
Confidence            2233222343333333322222 22256666666666555322111   122222222            3344444443


Q ss_pred             CChhHHHHHHHHHHh---cCChHHHHHHHHHH------------HH----cCCCC-------CHHHHHHHHHHHhcCCcH
Q 044628          428 PDLVTWTSIIGAYAF---HGLSKESIEVFEKM------------LS----HAVRP-------DSIAFLEVLSACSHGGLV  481 (665)
Q Consensus       428 ~~~~~~~~li~~~~~---~g~~~~A~~~~~~m------------~~----~g~~p-------~~~t~~~ll~a~~~~g~~  481 (665)
                      +....-.-.-.+...   ..+..+..++....            ..    +-+.|       =...-..++..|+..-+.
T Consensus       396 ~~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~  475 (1088)
T KOG4318|consen  396 HICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNK  475 (1088)
T ss_pred             hHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHH
Confidence            222111111111111   11111111111111            10    00111       011233444555555555


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCC-----CCCChhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          482 SEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMP-----IEPRSDTLGAFIGACKVHGSIGLAKWAA  556 (665)
Q Consensus       482 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~ll~~~~~~g~~~~a~~~~  556 (665)
                      .+++..-+.... +-+ +  ..|..||+.+....+.++|..+.++..     +.-|..-+..+.+...+++....+..++
T Consensus       476 lK~l~~~ekye~-~lf-~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL  551 (1088)
T KOG4318|consen  476 LKILCDEEKYED-LLF-A--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTIL  551 (1088)
T ss_pred             HHHHHHHHHHHH-HHh-h--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHH
Confidence            555544444333 112 2  678999999999999999999999882     2334555677778888888888888888


Q ss_pred             HHHHh---cCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeE
Q 044628          557 EKLLE---LEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSW  606 (665)
Q Consensus       557 ~~~~~---~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~  606 (665)
                      +...+   ..|........+.+--+..|+.+...++.+-+...|+.. .|.-|
T Consensus       552 ~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e-tgPl~  603 (1088)
T KOG4318|consen  552 YEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE-TGPLW  603 (1088)
T ss_pred             hhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh-cccce
Confidence            77755   334334455566677788899999999999888888755 24444

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.50  E-value=2.9e-11  Score=124.56  Aligned_cols=286  Identities=9%  Similarity=-0.027  Sum_probs=199.6

Q ss_pred             cCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHH--HHHHHHHHhcCCHHHHH
Q 044628          241 NCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVA--TSLVDMYAKNGNIDDAC  318 (665)
Q Consensus       241 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~--~~li~~~~~~g~~~~A~  318 (665)
                      .|++++|.+.+....+..-.| ...|.....+..+.|+.+.+.+.+..+.+.  .|+....  ......+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            578888887776655432111 222333344456778888888888888764  3444322  23467788889999998


Q ss_pred             HHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCC
Q 044628          319 RVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGV  395 (665)
Q Consensus       319 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~  395 (665)
                      ..++.+.+   .+......+...|.+.|++++|++++..+.+.+..++. ....+-.                       
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~~-----------------------  229 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLEQ-----------------------  229 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHHH-----------------------
Confidence            88888765   35567778888889999999999999998887644322 1211100                       


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044628          396 QAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVL  472 (665)
Q Consensus       396 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  472 (665)
                          ..+..++....+..+.+...++++.+.+   .++.....+..++...|+.++|.+++++..+.  .||....  ++
T Consensus       230 ----~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l  301 (398)
T PRK10747        230 ----QAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LL  301 (398)
T ss_pred             ----HHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HH
Confidence                0112223333334455666666666653   57778888888999999999999999888874  5555322  23


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCHHH
Q 044628          473 SACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       473 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~  551 (665)
                      .+....++.+++.+..+...+.  .+-|...+.++..++.+.|++++|.+.|+.. ...|+...+..+...+...|+.++
T Consensus       302 ~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~  379 (398)
T PRK10747        302 IPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEE  379 (398)
T ss_pred             HhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHH
Confidence            3444558889999999888873  3445667888889999999999999999988 778888888888889999999999


Q ss_pred             HHHHHHHHHhcC
Q 044628          552 AKWAAEKLLELE  563 (665)
Q Consensus       552 a~~~~~~~~~~~  563 (665)
                      |.+.+++.+.+-
T Consensus       380 A~~~~~~~l~~~  391 (398)
T PRK10747        380 AAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHhhh
Confidence            999999887754

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.50  E-value=1.7e-10  Score=111.66  Aligned_cols=352  Identities=15%  Similarity=0.142  Sum_probs=231.2

Q ss_pred             CCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHh--hHHHHHH
Q 044628          194 GLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYF--TFSSLVN  271 (665)
Q Consensus       194 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~  271 (665)
                      ..|.+.+-..--.+-+.|....|+..|.+....-+..|.+.+.-.--..+.+.+..+.     .|...|..  .=-.+..
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~-----~~l~~~~h~M~~~F~~~  235 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILV-----VGLPSDMHWMKKFFLKK  235 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHH-----hcCcccchHHHHHHHHH
Confidence            4454444344445667788888888888776655555555444322222222222111     11111111  1112334


Q ss_pred             HHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCC------chhHHHHHHHHHcCCCh
Q 044628          272 SCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKN------VVSWNTMVVGFGQNGDG  345 (665)
Q Consensus       272 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~  345 (665)
                      ++-.....+++.+-.+.....|++.+...-+....+.-...+++.|+.+|+++.+.|      ..+|...+-  +++.+.
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LY--v~~~~s  313 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLY--VKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHH--HHhhhH
Confidence            455555667777777777777777666666666566666667777777777766532      234433331  121111


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcC
Q 044628          346 REAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSV  425 (665)
Q Consensus       346 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  425 (665)
                      .  +..+.+-                               ...+  .  +--+.+...+.+-|+-.++.++|...|++.
T Consensus       314 k--Ls~LA~~-------------------------------v~~i--d--KyR~ETCCiIaNYYSlr~eHEKAv~YFkRA  356 (559)
T KOG1155|consen  314 K--LSYLAQN-------------------------------VSNI--D--KYRPETCCIIANYYSLRSEHEKAVMYFKRA  356 (559)
T ss_pred             H--HHHHHHH-------------------------------HHHh--c--cCCccceeeehhHHHHHHhHHHHHHHHHHH
Confidence            1  0111000                               0000  0  111233345566778888889999999887


Q ss_pred             CC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-C
Q 044628          426 KE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-D  500 (665)
Q Consensus       426 ~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~  500 (665)
                      .+   .....|+.|..-|....+...|++-++..++-  .| |-..|-.|.++|.-.+...-|+-+|++...   ++| |
T Consensus       357 LkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi--~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~---~kPnD  431 (559)
T KOG1155|consen  357 LKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI--NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE---LKPND  431 (559)
T ss_pred             HhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc--CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh---cCCCc
Confidence            64   45568999999999999999999999999874  45 667899999999999999999999999876   445 6


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh-------cCCCCCchHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLE-------LEPSKPVNYA  571 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-------~~p~~~~~~~  571 (665)
                      ...|.+|.++|.+.++.++|++.|.+.  ....+...+..|...+...++.++|.+.+++-++       .+|+...+..
T Consensus       432 sRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~  511 (559)
T KOG1155|consen  432 SRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARL  511 (559)
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHH
Confidence            889999999999999999999999988  2233557788889999999999999999998876       4454455566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHh
Q 044628          572 LVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       572 ~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      -|+.-+.+.++|++|...-....
T Consensus       512 fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  512 FLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHh
Confidence            78888999999999988765544

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.50  E-value=9.8e-11  Score=113.94  Aligned_cols=395  Identities=13%  Similarity=0.049  Sum_probs=256.0

Q ss_pred             HHHhcCCChHHHHHHHHHHHHhCCCCc-hHHHHHHHHHHHhCCChHHHHHHHhccCCCCch---hHHHHHHHHHhcCCch
Q 044628          170 RACVQADDIEVGRRLHSFILKVGFGLN-CFVSSALVDLYGKCGFVEDARRVFDEVLCRDLV---LWNVMVSCYALNCLGD  245 (665)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~g~~~  245 (665)
                      +-|-+.|.+++|.+.+.+.+..  .|| +.-|.....+|...|++++..+--....+-+..   .+..-.+++-+.|+++
T Consensus       123 N~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E~lg~~~  200 (606)
T KOG0547|consen  123 NKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHEQLGKFD  200 (606)
T ss_pred             hhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHhhccHH
Confidence            4577889999999999999985  566 788888999999999999888776655443332   4444455666677777


Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHH--------HHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044628          246 GAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHG--------LVIKQSFDLDVLVATSLVDMYAKNGNIDDA  317 (665)
Q Consensus       246 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~--------~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  317 (665)
                      +|+.=.             |...++..+....-.-.+.+++.        +-.+.+-+|.... ...|..|...      
T Consensus       201 eal~D~-------------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS-~~fi~syf~s------  260 (606)
T KOG0547|consen  201 EALFDV-------------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPS-ATFIASYFGS------  260 (606)
T ss_pred             HHHHhh-------------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCc-HHHHHHHHhh------
Confidence            765422             22223333222222222222222        2222111222221 2233333221      


Q ss_pred             HHHHhccC-----CCCchhHHHHHHHHH----c-CCChHHHHHHHHHHhhCC-CCC-----CHH----HHHHHHHH--hC
Q 044628          318 CRVFDGMT-----AKNVVSWNTMVVGFG----Q-NGDGREAVKLLRDMLQGS-FCP-----DEV----TLASILSS--CG  375 (665)
Q Consensus       318 ~~~~~~~~-----~~~~~~~~~li~~~~----~-~g~~~~A~~~~~~m~~~g-~~p-----~~~----t~~~ll~~--~~  375 (665)
                         |..=+     .+...+.-.+..++.    . ...+.+|...+.+-.... ..+     |..    .-..++.+  ..
T Consensus       261 ---F~~~~~~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~f  337 (606)
T KOG0547|consen  261 ---FHADPKPLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHF  337 (606)
T ss_pred             ---ccccccccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhh
Confidence               11100     011111212221111    1 112334444333321100 011     110    11112222  22


Q ss_pred             CCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHH
Q 044628          376 SLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEV  452 (665)
Q Consensus       376 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~  452 (665)
                      -.|+.-.+.+-++..++....++. .|--+..+|....+.++-.+.|++..+   .|..+|..-...+.-.+++++|..=
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHH
Confidence            347777788888888876544333 255566778999999999999998763   5677888888888888999999999


Q ss_pred             HHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCC
Q 044628          453 FEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIE  530 (665)
Q Consensus       453 ~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  530 (665)
                      |++.+..  .|+. ..|.-+..+..+.+.++++...|+..++  .++..+++|+-....+...++++.|.+.|+.. .++
T Consensus       417 F~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  417 FQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            9999984  6644 5788888888889999999999999998  57777999999999999999999999999987 444


Q ss_pred             CC---------hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          531 PR---------SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       531 p~---------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      |+         +.+-.+++-.-++ +++.+|+.+++++++++|....+|..|+.+-.+.|+.++|+++|++...
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             cccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            44         3333344433344 8999999999999999999999999999999999999999999987653

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

Probab=99.49  E-value=2.6e-09  Score=111.96  Aligned_cols=341  Identities=13%  Similarity=0.132  Sum_probs=244.9

Q ss_pred             ccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHccc---CCCCcccHHHHHHHHHhCCCCc--hHH
Q 044628           75 KFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEM---RVRNIVTWNTLISGIINCGGNV--TPY  149 (665)
Q Consensus        75 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~---~~~~~~~~~~li~~~~~~~~~~--~~~  149 (665)
                      ..|+++.|..++..+++.. +.....|-.|-..|-..|+.+++...+--.   ...|..-|-.+-.-..+.|...  .-.
T Consensus       151 arg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHH
Confidence            4499999999999999975 456778999999999999999988765433   3455666777777777777666  445


Q ss_pred             HHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHH----HHHHHhCCChHHHHHHHhccCC
Q 044628          150 FRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSAL----VDLYGKCGFVEDARRVFDEVLC  225 (665)
Q Consensus       150 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l----i~~~~~~g~~~~A~~~~~~~~~  225 (665)
                      |.+..+.. +++-..+---...|-+.|+...|..-+.++.....+.|..-.-.+    +..|...++-+.|.+.++....
T Consensus       230 y~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s  308 (895)
T KOG2076|consen  230 YSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS  308 (895)
T ss_pred             HHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            55554432 233334444456677889999999999999887543333333333    4556667777888888887754


Q ss_pred             --C---CchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCC----------------------HhhH----HHHHHHHh
Q 044628          226 --R---DLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGD----------------------YFTF----SSLVNSCG  274 (665)
Q Consensus       226 --~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------------~~t~----~~ll~~~~  274 (665)
                        .   +...+|.++..|.+...++.|......+......+|                      ...|    .-+.-++.
T Consensus       309 ~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~  388 (895)
T KOG2076|consen  309 KEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLV  388 (895)
T ss_pred             hccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhh
Confidence              2   445788999999999999999999888876222121                      1111    12333345


Q ss_pred             ccCCcHHHHHHHHHHHHhCC--CCchhHHHHHHHHHHhcCCHHHHHHHHhccCC----CCchhHHHHHHHHHcCCChHHH
Q 044628          275 TLGSSKLGRQIHGLVIKQSF--DLDVLVATSLVDMYAKNGNIDDACRVFDGMTA----KNVVSWNTMVVGFGQNGDGREA  348 (665)
Q Consensus       275 ~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A  348 (665)
                      .....+....+.....+..+  .-+...|.-+.++|...|++.+|.++|..+..    .+...|--+..+|...|.+++|
T Consensus       389 ~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A  468 (895)
T KOG2076|consen  389 HLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEA  468 (895)
T ss_pred             cccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHH
Confidence            66667777777777777774  34567788999999999999999999999875    4667899999999999999999


Q ss_pred             HHHHHHHhhCCCCCCHH-HHHHHHHHhCCCCchHhHHHHHHHHH--------HhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 044628          349 VKLLRDMLQGSFCPDEV-TLASILSSCGSLSISCETRQVHAYAI--------KNGVQAFLSIENALINAYSKCGSIAGAL  419 (665)
Q Consensus       349 ~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~i~~~~~--------~~g~~~~~~~~~~li~~~~~~g~~~~A~  419 (665)
                      ++.|+.....  .|+.. .-.+|-..+.+.|+.++|.+.+..+.        ..+..|...+.--..+.|.+.|+.++=.
T Consensus       469 ~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi  546 (895)
T KOG2076|consen  469 IEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFI  546 (895)
T ss_pred             HHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHH
Confidence            9999998874  45433 33455556778999999999888743        2344556666666677788888877643

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.49  E-value=3.3e-09  Score=102.95  Aligned_cols=479  Identities=13%  Similarity=0.061  Sum_probs=344.4

Q ss_pred             hccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccC----CCCcccHHHHHHHHHhCCCCchHH
Q 044628           74 AKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMR----VRNIVTWNTLISGIINCGGNVTPY  149 (665)
Q Consensus        74 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~----~~~~~~~~~li~~~~~~~~~~~~~  149 (665)
                      -..+++..|+.+|...+.-. ..+...|-.-+.+=.++..+..|+.++++..    .-|..-|- -            -.
T Consensus        84 esq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyK-Y------------~y  149 (677)
T KOG1915|consen   84 ESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYK-Y------------IY  149 (677)
T ss_pred             HhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHH-H------------HH
Confidence            45677888999999988755 4677788888888889999999999998753    11111110 0            01


Q ss_pred             HHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhcc--CCCC
Q 044628          150 FRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEV--LCRD  227 (665)
Q Consensus       150 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~  227 (665)
                      .+                     -..|++..|.++|+.-.+  ..|+...|++.|+.=.+-..++.|+.++++.  ..|+
T Consensus       150 mE---------------------E~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~  206 (677)
T KOG1915|consen  150 ME---------------------EMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPK  206 (677)
T ss_pred             HH---------------------HHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheeccc
Confidence            11                     235788999999998877  4799999999999999999999999999986  5689


Q ss_pred             chhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHH----hccCCcHHHHHHHHHHHHhCCCCc--hhHH
Q 044628          228 LVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSC----GTLGSSKLGRQIHGLVIKQSFDLD--VLVA  301 (665)
Q Consensus       228 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~----~~~~~~~~a~~~~~~~~~~g~~~~--~~~~  301 (665)
                      +.+|--....=-++|+...|..+|....+.  -.|...-..+..++    .....++.|.-++..++..= +.+  ...|
T Consensus       207 v~~wikyarFE~k~g~~~~aR~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~  283 (677)
T KOG1915|consen  207 VSNWIKYARFEEKHGNVALARSVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELY  283 (677)
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHH
Confidence            999988888888999999999999887653  12333323333333    45567888888888888762 333  4556


Q ss_pred             HHHHHHHHhcCCHHHHHHHH--------hccCCC---CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCH------
Q 044628          302 TSLVDMYAKNGNIDDACRVF--------DGMTAK---NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDE------  364 (665)
Q Consensus       302 ~~li~~~~~~g~~~~A~~~~--------~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~------  364 (665)
                      ..+...=-+-|+.....+..        +.+...   |-.+|--.+..--..|+.+...++|++.+.. ++|-.      
T Consensus       284 k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~  362 (677)
T KOG1915|consen  284 KKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWR  362 (677)
T ss_pred             HHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHH
Confidence            66665555666644433332        222222   5567777888888889999999999999875 45532      


Q ss_pred             -HHHHHHHHHh---CCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHH----hcCCHHHHHHHHhcCC--CCChhHHH
Q 044628          365 -VTLASILSSC---GSLSISCETRQVHAYAIKNGVQAFLSIENALINAYS----KCGSIAGALQCFGSVK--EPDLVTWT  434 (665)
Q Consensus       365 -~t~~~ll~~~---~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~----~~g~~~~A~~~~~~~~--~~~~~~~~  434 (665)
                       ..|..+=-+|   ....+.+.++++++..++ -++....++.-+=-+|+    ++.++..|.+++....  .|-..++.
T Consensus       363 RYIYLWinYalyeEle~ed~ertr~vyq~~l~-lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk  441 (677)
T KOG1915|consen  363 RYIYLWINYALYEELEAEDVERTRQVYQACLD-LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFK  441 (677)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHH
Confidence             2222222222   346788999999998888 44555666665555554    6889999999998876  47788888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 044628          435 SIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRV  514 (665)
Q Consensus       435 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  514 (665)
                      .-|..=.+.++++.+..+|++.++-+ +-|..++......=...|+.+.|..+|+-+++...+.--...|.+.|+.=...
T Consensus       442 ~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~  520 (677)
T KOG1915|consen  442 GYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEE  520 (677)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhc
Confidence            88888899999999999999999863 33567888777777788999999999999988433333355677888888899


Q ss_pred             CChHHHHHHHHhC-CCCCChhHHHHHHHHHH-----hcC-----------CHHHHHHHHHHHHh----cCCCC--CchHH
Q 044628          515 GLLVEAYDLLASM-PIEPRSDTLGAFIGACK-----VHG-----------SIGLAKWAAEKLLE----LEPSK--PVNYA  571 (665)
Q Consensus       515 g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~-----~~g-----------~~~~a~~~~~~~~~----~~p~~--~~~~~  571 (665)
                      |.++.|..++++. ...+...+|-++...-.     ..+           +...|+.+|+++..    .+|..  ....-
T Consensus       521 ~E~ekaR~LYerlL~rt~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLE  600 (677)
T KOG1915|consen  521 GEFEKARALYERLLDRTQHVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLE  600 (677)
T ss_pred             chHHHHHHHHHHHHHhcccchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            9999999999998 55566778988874433     334           56788999998864    33432  12233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          572 LVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       572 ~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .+-++-...|...+...+-.+|.+
T Consensus       601 aw~~~E~~~G~~~d~~~V~s~mPk  624 (677)
T KOG1915|consen  601 AWKNMEETFGTEGDVERVQSKMPK  624 (677)
T ss_pred             HHHHHHHhcCchhhHHHHHHhccH
Confidence            445556677877777777777653

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.48  E-value=4.6e-12  Score=128.06  Aligned_cols=273  Identities=14%  Similarity=0.042  Sum_probs=162.8

Q ss_pred             CHHHHHHHHhccCC--CCc-hhHHHHHHHHHcCCChHHHHHHHHHHhhCC-C-CCCHHHHHHHHHHhCCCCchHhHHHHH
Q 044628          313 NIDDACRVFDGMTA--KNV-VSWNTMVVGFGQNGDGREAVKLLRDMLQGS-F-CPDEVTLASILSSCGSLSISCETRQVH  387 (665)
Q Consensus       313 ~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~-~p~~~t~~~ll~~~~~~~~~~~a~~i~  387 (665)
                      +..+|...|..++.  .|. .....+..+|...+++++|.++|+...+.. . .-+..+|.++|--+-+    +.+...+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHH
Confidence            45677788877654  233 333456677888888888888888877642 1 1234566666544321    1111222


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 044628          388 AYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEP---DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD  464 (665)
Q Consensus       388 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  464 (665)
                      ..-.-.--+..+.+|-++...|+-.++.+.|.+.|++..+-   ...+|+.+..-+.....+|.|...|+..+.  +.|+
T Consensus       410 aq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~r  487 (638)
T KOG1126|consen  410 AQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPR  487 (638)
T ss_pred             HHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCch
Confidence            21111122345566677777777777777777777766542   334556565666666677777777766654  3444


Q ss_pred             H-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHH
Q 044628          465 S-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFI  540 (665)
Q Consensus       465 ~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll  540 (665)
                      . ..|..+...|.+.++++.|+-.|+.+.+   +.| +.....++...+.+.|+.|+|+++++++ ..+| |+..----.
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            4 2555666667777777777777776654   445 3444455566666777777777777766 3333 333333333


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          541 GACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       541 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      ..+...++.++|.+.+|++.++-|++..+|.+++.+|.+.|+.+.|..-|-.+.
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~  618 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWAL  618 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHh
Confidence            444556667777777777777777777777777777777777766666555443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.48  E-value=3.9e-11  Score=123.60  Aligned_cols=275  Identities=11%  Similarity=0.016  Sum_probs=189.6

Q ss_pred             cCCHHHHHHHHhccCCC--Cch-hHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHH--HHHHHhCCCCchHhHHH
Q 044628          311 NGNIDDACRVFDGMTAK--NVV-SWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLA--SILSSCGSLSISCETRQ  385 (665)
Q Consensus       311 ~g~~~~A~~~~~~~~~~--~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~--~ll~~~~~~~~~~~a~~  385 (665)
                      .|+++.|++......+.  ++. .|-.......+.|+++.|...|.++.+.  .|+.....  .....+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            46666666666554432  122 2222233335667777777777766553  34433222  22344556677777777


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---Chh--------HHHHHHHHHHhcCChHHHHHHHH
Q 044628          386 VHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEP---DLV--------TWTSIIGAYAFHGLSKESIEVFE  454 (665)
Q Consensus       386 i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~--------~~~~li~~~~~~g~~~~A~~~~~  454 (665)
                      .++.+.+.. +.+..+...+...|.+.|++++|.+++..+.+.   +..        .|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            777666655 445566677888888888898888888877642   111        33334444444555666667777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-
Q 044628          455 KMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-  532 (665)
Q Consensus       455 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-  532 (665)
                      .+.+. .+.+......+..++...|+.++|.++++...+   ..|+....  ++.+....|+.+++++.+++. ...|+ 
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCC
Confidence            66543 244667888899999999999999999998876   34554322  233334569999999999988 55665 


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .....++...|...+++++|++.++++++.+|++ ..+..++.++.+.|+.++|.+.+++...
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5567788899999999999999999999999984 6688999999999999999999987754

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.47  E-value=5e-12  Score=127.82  Aligned_cols=159  Identities=14%  Similarity=0.146  Sum_probs=71.3

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH
Q 044628          429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCL  507 (665)
Q Consensus       429 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  507 (665)
                      .+.+|-++.++|..+++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+..+.     .|..+|+++
T Consensus       420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~-----~~~rhYnAw  492 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG-----VDPRHYNAW  492 (638)
T ss_pred             CcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc-----CCchhhHHH
Confidence            3444444444444444444444444444442  33 223444444444444444444444444432     333333332


Q ss_pred             ---HHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          508 ---TDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       508 ---~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                         .-.|.+.++++.|+-.|+++ .+.|. .+....+...+.+.|+.++|++++++++-++|.++-.-...+.++...++
T Consensus       493 YGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~  572 (638)
T KOG1126|consen  493 YGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGR  572 (638)
T ss_pred             HhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcc
Confidence               22344444444444444444 44442 22333333344444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHh
Q 044628          583 WFDVARLRKMMR  594 (665)
Q Consensus       583 ~~~A~~~~~~m~  594 (665)
                      +++|.+.+++++
T Consensus       573 ~~eal~~LEeLk  584 (638)
T KOG1126|consen  573 YVEALQELEELK  584 (638)
T ss_pred             hHHHHHHHHHHH
Confidence            444444444444

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.46  E-value=3.3e-10  Score=108.95  Aligned_cols=428  Identities=13%  Similarity=0.081  Sum_probs=289.4

Q ss_pred             chHHHHHH---HHhcCCChHHHHHHHHHHHHhCCCCchHHHH-HHHHHHHhCCChHHHHHHHhccCC--C------Cchh
Q 044628          163 ITFNSLLR---ACVQADDIEVGRRLHSFILKVGFGLNCFVSS-ALVDLYGKCGFVEDARRVFDEVLC--R------DLVL  230 (665)
Q Consensus       163 ~t~~~ll~---~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~~~~~g~~~~A~~~~~~~~~--~------~~~~  230 (665)
                      .||+.|..   -|.......+|...++.+++...-|+.-..- .+-+.|.+...+.+|++.++....  |      .+..
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            35655544   4555667788999999999988777764432 344678888999999998865422  2      2235


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCC------------Cch
Q 044628          231 WNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFD------------LDV  298 (665)
Q Consensus       231 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~------------~~~  298 (665)
                      .|.+.-.|.+.|+++.|+..|+...+.  .||-.+-..|+-.+...|+-+..++.|..++..-..            |+.
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            666667889999999999999998875  588887767777777789999999999999875322            222


Q ss_pred             hHHHHHH-----HHHHhcCC--HHHHH----HHHhccCCCCch---hHH------------------HHHHHHHcCCChH
Q 044628          299 LVATSLV-----DMYAKNGN--IDDAC----RVFDGMTAKNVV---SWN------------------TMVVGFGQNGDGR  346 (665)
Q Consensus       299 ~~~~~li-----~~~~~~g~--~~~A~----~~~~~~~~~~~~---~~~------------------~li~~~~~~g~~~  346 (665)
                      ...|--|     .-.-+.+.  .+++.    ++..-+..|+-.   -|.                  .-...|.++|+++
T Consensus       357 ~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~  436 (840)
T KOG2003|consen  357 NLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIE  436 (840)
T ss_pred             HHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHH
Confidence            2222222     11111111  11111    122222223221   121                  1123578899999


Q ss_pred             HHHHHHHHHhhCCCCCCHHHH--HHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 044628          347 EAVKLLRDMLQGSFCPDEVTL--ASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGS  424 (665)
Q Consensus       347 ~A~~~~~~m~~~g~~p~~~t~--~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (665)
                      .|+++++-..+..-+.-...-  .+.|.-...-.++..|.+.-+..+... .-+......-...-...|++++|.+.+++
T Consensus       437 ~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  437 GAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            999999888765432222221  222222223345566666555444322 11111111112233457999999999999


Q ss_pred             CCCCChhHHHHHHH---HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh
Q 044628          425 VKEPDLVTWTSIIG---AYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDS  501 (665)
Q Consensus       425 ~~~~~~~~~~~li~---~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~  501 (665)
                      ....|...-.+|.+   .+-..|+.++|++.|-++..- +..+...+..+.+.|....+..+|++++.+...  -++.|+
T Consensus       516 al~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp  592 (840)
T KOG2003|consen  516 ALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDP  592 (840)
T ss_pred             HHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCH
Confidence            99877766555544   467789999999999888753 244556777788889899999999999998876  566688


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  579 (665)
                      ...+.|.++|-+.|+-..|.+..-.- ..-| +..+..-|...|....=.+.++..++++--+.|+.......++.++.+
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHh
Confidence            99999999999999999999875444 3333 555555555666666678999999999999999866666677889999


Q ss_pred             cCCHHHHHHHHHHHhhC
Q 044628          580 ERCWFDVARLRKMMRDN  596 (665)
Q Consensus       580 ~g~~~~A~~~~~~m~~~  596 (665)
                      .|++..|.++++....+
T Consensus       673 sgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             cccHHHHHHHHHHHHHh
Confidence            99999999999988754

>TIGR00540 hemY_coli hemY protein

Probab=99.45  E-value=2.2e-10  Score=118.81  Aligned_cols=289  Identities=11%  Similarity=0.035  Sum_probs=159.1

Q ss_pred             HhcCCchHHHHHHHHHHHCCCCCCHh-hHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044628          239 ALNCLGDGAIAVFNLMRLEGMKGDYF-TFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDA  317 (665)
Q Consensus       239 ~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  317 (665)
                      ...|+++.|.+.+.+..+.  .|+.. .+.....+....|+.+.+.+.+..+.+..-.+...+.-.....+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            4578888888888776654  34432 33344455667788888888888876653222223444456777778888888


Q ss_pred             HHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhC
Q 044628          318 CRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNG  394 (665)
Q Consensus       318 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g  394 (665)
                      ...++.+.+   .+...+..+...+.+.|++++|.+++..+.+.++.+ ...+..+-.                      
T Consensus       173 l~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~-~~~~~~l~~----------------------  229 (409)
T TIGR00540       173 RHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD-DEEFADLEQ----------------------  229 (409)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC-HHHHHHHHH----------------------
Confidence            888777764   244567777777888888888888888877765332 222211100                      


Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH---
Q 044628          395 VQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAF---  468 (665)
Q Consensus       395 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~---  468 (665)
                           ..+..+++.-......+...+.++...+   .+...+..+...+...|+.++|.+++++..+.  .||....   
T Consensus       230 -----~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~  302 (409)
T TIGR00540       230 -----KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLP  302 (409)
T ss_pred             -----HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhH
Confidence                 0011111111122233444455555543   47777888888888888888888888888875  4544321   


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHh--C-CCCCChhHHHHHHHHHHh
Q 044628          469 LEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLAS--M-PIEPRSDTLGAFIGACKV  545 (665)
Q Consensus       469 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~--~-~~~p~~~~~~~ll~~~~~  545 (665)
                      ..........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.  . ...|+...+..+...+.+
T Consensus       303 ~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~  382 (409)
T TIGR00540       303 LCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQ  382 (409)
T ss_pred             HHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHH
Confidence            1111112233555555555555554211111112333444555555555555555552  2 334444444444445555


Q ss_pred             cCCHHHHHHHHHHH
Q 044628          546 HGSIGLAKWAAEKL  559 (665)
Q Consensus       546 ~g~~~~a~~~~~~~  559 (665)
                      .|+.++|.+++++.
T Consensus       383 ~g~~~~A~~~~~~~  396 (409)
T TIGR00540       383 AGDKAEAAAMRQDS  396 (409)
T ss_pred             cCCHHHHHHHHHHH
Confidence            55555555555544

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.

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=9.1e-10  Score=106.68  Aligned_cols=326  Identities=10%  Similarity=0.014  Sum_probs=234.0

Q ss_pred             CCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchh-HHHHHHHH
Q 044628          261 GDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVS-WNTMVVGF  339 (665)
Q Consensus       261 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~li~~~  339 (665)
                      -|...+-...-...+.|....|...+...+..- +..-..|..|.+   -.-+.+.+..+....+..+... =-.+..++
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~---lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~  237 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSE---LITDIEILSILVVGLPSDMHWMKKFFLKKAY  237 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHH---hhchHHHHHHHHhcCcccchHHHHHHHHHHH
Confidence            344433333334556677777777777766432 333333333332   2334444444443443322111 11234566


Q ss_pred             HcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCC--CchhHHHHHHHHHHhcCCHHH
Q 044628          340 GQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQ--AFLSIENALINAYSKCGSIAG  417 (665)
Q Consensus       340 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~--~~~~~~~~li~~~~~~g~~~~  417 (665)
                      ....+.++++.-.......|..-+...-+....+.-...++++|+.+|+.+.+...-  .|..+|+.++-.--.+.++.-
T Consensus       238 ~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~  317 (559)
T KOG1155|consen  238 QELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSY  317 (559)
T ss_pred             HHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHH
Confidence            666678888888888888876555544444444556778999999999999887431  256667666533333223222


Q ss_pred             -HHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Q 044628          418 -ALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDY  495 (665)
Q Consensus       418 -A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  495 (665)
                       |..++ .+.+--+.|..++.+-|...++.++|...|++..+.  .|.. ..|+.+..-|....+...|++-++.+++  
T Consensus       318 LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--  392 (559)
T KOG1155|consen  318 LAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD--  392 (559)
T ss_pred             HHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHHHh--
Confidence             33332 333445667777888899999999999999999985  5655 4677777889999999999999999987  


Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          496 HILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       496 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      -.+-|-..|-.|..+|.-.+...=|+-.|+++ ..+| |...|.+|...|.+.++.++|++.+++++..+-.+..+|+.|
T Consensus       393 i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~L  472 (559)
T KOG1155|consen  393 INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRL  472 (559)
T ss_pred             cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHH
Confidence            23347889999999999999999999999999 7777 688999999999999999999999999999988888999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhh
Q 044628          574 SNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       574 ~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      +++|-+.++.++|...+++-.+
T Consensus       473 akLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  473 AKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999999987764

>TIGR00540 hemY_coli hemY protein

Probab=99.42  E-value=9.2e-11  Score=121.54  Aligned_cols=282  Identities=11%  Similarity=0.001  Sum_probs=194.4

Q ss_pred             HhCCChHHHHHHHhccCCC--C-chhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHh--hHHHHHHHHhccCCcHHH
Q 044628          208 GKCGFVEDARRVFDEVLCR--D-LVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYF--TFSSLVNSCGTLGSSKLG  282 (665)
Q Consensus       208 ~~~g~~~~A~~~~~~~~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~~~~~~~~~~~a  282 (665)
                      ...|+++.|++.+....+.  + ...+-.......+.|+.+.|.+.|.+..+..  |+..  .-......+...|+.+.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHH
Confidence            4579999999999887543  2 2234444567788899999999999987643  5543  333346677889999999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCC---chhHHHH----HHHHHcCCChHHHHHHHHHH
Q 044628          283 RQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKN---VVSWNTM----VVGFGQNGDGREAVKLLRDM  355 (665)
Q Consensus       283 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l----i~~~~~~g~~~~A~~~~~~m  355 (665)
                      ...++.+.+.. +.+..+...+...|.+.|++++|.+.+..+.+..   ...+..+    ..++...+..+++.+.+.++
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999999986 6677889999999999999999999999887542   2222111    11112112222222222222


Q ss_pred             hhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhH-
Q 044628          356 LQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE--PDLVT-  432 (665)
Q Consensus       356 ~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~-  432 (665)
                      ....  |+                              ..+.+...+..+...+...|+.++|.+++++..+  ||... 
T Consensus       252 ~~~~--p~------------------------------~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~  299 (409)
T TIGR00540       252 WKNQ--PR------------------------------HRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAI  299 (409)
T ss_pred             HHHC--CH------------------------------HHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccc
Confidence            2211  10                              0113455666777788888888888888887764  33331 


Q ss_pred             --HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH
Q 044628          433 --WTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI---AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCL  507 (665)
Q Consensus       433 --~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  507 (665)
                        +..........++.+.+.+.+++..+.  .|+..   ...++...|.+.|++++|.+.|+.... ....|+...+..+
T Consensus       300 ~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a-~~~~p~~~~~~~L  376 (409)
T TIGR00540       300 SLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAA-CKEQLDANDLAMA  376 (409)
T ss_pred             hhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHH-hhcCCCHHHHHHH
Confidence              122222334457788889998888875  56554   455778889999999999999995333 3457998888899


Q ss_pred             HHHHHhcCChHHHHHHHHhC
Q 044628          508 TDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~  527 (665)
                      ..++.+.|+.++|.+++++.
T Consensus       377 a~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       377 ADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            99999999999999999874

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.41  E-value=1.4e-10  Score=120.54  Aligned_cols=431  Identities=11%  Similarity=0.040  Sum_probs=222.2

Q ss_pred             hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC
Q 044628          147 TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR  226 (665)
Q Consensus       147 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  226 (665)
                      ..++..|...|+.||.+||..+|.-||..|+++.|- +|..|.-...+.+..+++.++......|+.+.+.       .|
T Consensus        10 tnfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep   81 (1088)
T KOG4318|consen   10 TNFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EP   81 (1088)
T ss_pred             chHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CC
Confidence            356667777778888888888888888888877777 7777777666667777777777777777766655       55


Q ss_pred             CchhHHHHHHHHHhcCCchH---HHHHHHHH----HHCCCCCCHhhHHHHHHHHhccC-Cc------HHHHHHHHHHHHh
Q 044628          227 DLVLWNVMVSCYALNCLGDG---AIAVFNLM----RLEGMKGDYFTFSSLVNSCGTLG-SS------KLGRQIHGLVIKQ  292 (665)
Q Consensus       227 ~~~~~~~li~~~~~~g~~~~---A~~~~~~m----~~~g~~p~~~t~~~ll~~~~~~~-~~------~~a~~~~~~~~~~  292 (665)
                      ...+|+.|..+|.++|+..-   +.+.+...    ...|+..-..-+-..+.+|-..- +.      .--+.++...++.
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            56677777777777777543   22211111    11222211111211111111100 00      0011122222222


Q ss_pred             C--CCCchhHHHH--HHHHH-HhcCCHHHHHHHHhccCC-CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHH
Q 044628          293 S--FDLDVLVATS--LVDMY-AKNGNIDDACRVFDGMTA-KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVT  366 (665)
Q Consensus       293 g--~~~~~~~~~~--li~~~-~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  366 (665)
                      +  ++........  .++-. .-...+++-........+ ++..+|.+.+..-..+|+.+.|..++.+|.+.|+..+..-
T Consensus       162 l~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~Hy  241 (1088)
T KOG4318|consen  162 LAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHY  241 (1088)
T ss_pred             HhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccccc
Confidence            2  1110000000  01111 111223333333333333 5666677777766667777777777777777776666665


Q ss_pred             HHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH------------------------HHHH
Q 044628          367 LASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGA------------------------LQCF  422 (665)
Q Consensus       367 ~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A------------------------~~~~  422 (665)
                      |-.+|-+   .++......+.+-|...|+.|+..++.-.+....+.|....+                        .+.+
T Consensus       242 FwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l  318 (1088)
T KOG4318|consen  242 FWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRL  318 (1088)
T ss_pred             chhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHH
Confidence            5555544   556666666666666677766666665544444432221111                        1111


Q ss_pred             hc---------CC-------CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCCCH-HHHHHHHHHHhcCC----
Q 044628          423 GS---------VK-------EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH--AVRPDS-IAFLEVLSACSHGG----  479 (665)
Q Consensus       423 ~~---------~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~-~t~~~ll~a~~~~g----  479 (665)
                      +.         .+       +.....|...+. ...+|..++..++...|..-  .+.++. ..|..++.-|.+.-    
T Consensus       319 ~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~  397 (1088)
T KOG4318|consen  319 RQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHI  397 (1088)
T ss_pred             HHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhH
Confidence            11         11       011233333322 23367777777777776542  223322 24444443332211    


Q ss_pred             ------------------cHHHHHHHHHHHHHhcCCCCCh----------------------------hhHHHHHHHHHh
Q 044628          480 ------------------LVSEGLRYFNLMISDYHILPDS----------------------------EHYTCLTDLLGR  513 (665)
Q Consensus       480 ------------------~~~~a~~~~~~~~~~~~~~p~~----------------------------~~~~~l~~~~~~  513 (665)
                                        ...+..++...      ..||.                            ..-+.++..+++
T Consensus       398 ~~~i~~~~qgls~~l~se~tp~vsell~~------lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~s  471 (1088)
T KOG4318|consen  398 CSRIYYAGQGLSLNLNSEDTPRVSELLEN------LRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNS  471 (1088)
T ss_pred             HHHHHHHHHHHHhhhchhhhHHHHHHHHH------hCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHH
Confidence                              00111111110      11111                            112233344444


Q ss_pred             cCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CCchHHHHHHHHHhcCCHHHHHHHH
Q 044628          514 VGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS---KPVNYALVSNVYASERCWFDVARLR  590 (665)
Q Consensus       514 ~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~y~~~g~~~~A~~~~  590 (665)
                      .-+..+++...++..-.-=...|..|+.-|..+...+.|....++....+..   +..-+..+.+++.+-+...++..+.
T Consensus       472 e~n~lK~l~~~ekye~~lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL  551 (1088)
T KOG4318|consen  472 EYNKLKILCDEEKYEDLLFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTIL  551 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHH
Confidence            4444555544333310001145777888888888888888888877654422   3456788999999999999999999


Q ss_pred             HHHhh
Q 044628          591 KMMRD  595 (665)
Q Consensus       591 ~~m~~  595 (665)
                      +.+++
T Consensus       552 ~e~ks  556 (1088)
T KOG4318|consen  552 YEDKS  556 (1088)
T ss_pred             hhhhH
Confidence            88876

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.41  E-value=1.1e-12  Score=129.12  Aligned_cols=251  Identities=15%  Similarity=0.146  Sum_probs=108.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcc-CC----CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCC
Q 044628          303 SLVDMYAKNGNIDDACRVFDGM-TA----KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSL  377 (665)
Q Consensus       303 ~li~~~~~~g~~~~A~~~~~~~-~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  377 (665)
                      .+..++.+.|++++|.++++.. ..    .|...|..+.......++.++|+..++++...+.. +...+..++.. ...
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            3455566667777777776432 11    24445555555556667777777777777654422 33334444444 566


Q ss_pred             CchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC-----CCChhHHHHHHHHHHhcCChHHHHHH
Q 044628          378 SISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK-----EPDLVTWTSIIGAYAFHGLSKESIEV  452 (665)
Q Consensus       378 ~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~  452 (665)
                      ++++.|..+.....+..  ++...+..++..|.+.|+++++.++++.+.     +.+...|..+...+.+.|+.++|++.
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            67777776665544432  344555667778888899999888888754     35777888899999999999999999


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCC
Q 044628          453 FEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIE  530 (665)
Q Consensus       453 ~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  530 (665)
                      +++..+.  .|+ ......++..+...|+.+++.++++...+.  .+.+...+..+..+|...|+.++|+..+++. ...
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            9999986  675 567888889999999999999999988873  3567778889999999999999999999998 445


Q ss_pred             C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044628          531 P-RSDTLGAFIGACKVHGSIGLAKWAAEKLLE  561 (665)
Q Consensus       531 p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  561 (665)
                      | |+.+...+..++...|+.++|.++.+++++
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            5 677777888999999999999999888765

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.40  E-value=6.1e-09  Score=101.20  Aligned_cols=389  Identities=14%  Similarity=0.111  Sum_probs=260.6

Q ss_pred             hCCChHHHHHHHhccCC---CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHh-hHHHHHHHHhccCCcHHHHH
Q 044628          209 KCGFVEDARRVFDEVLC---RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYF-TFSSLVNSCGTLGSSKLGRQ  284 (665)
Q Consensus       209 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~  284 (665)
                      ..+++..|+.+|++...   +++..|---+..=.++.....|..++++....  .|.+. .|.--+-.=-..|++..|.+
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHH
Confidence            34566677777776633   45566666666667777777777777776653  33322 12222233345678888888


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccC--CCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCC
Q 044628          285 IHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMT--AKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCP  362 (665)
Q Consensus       285 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  362 (665)
                      +|+...+.  .|+...|++.|+.=.+-..++.|..++++..  .|++.+|--...-=.++|+...|..+|....+.  -.
T Consensus       163 iferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~  238 (677)
T KOG1915|consen  163 IFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LG  238 (677)
T ss_pred             HHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hh
Confidence            88877764  6888888888888888888888888888754  577777777777777788888888888776652  12


Q ss_pred             CHHHHHHHHHHh----CCCCchHhHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHHHHHHH---hcC-----CC--
Q 044628          363 DEVTLASILSSC----GSLSISCETRQVHAYAIKNGVQA-FLSIENALINAYSKCGSIAGALQCF---GSV-----KE--  427 (665)
Q Consensus       363 ~~~t~~~ll~~~----~~~~~~~~a~~i~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~---~~~-----~~--  427 (665)
                      |...-..+..++    .+...++.|.-++...++.-... ....|..++..=-+-|+.....++.   .++     .+  
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n  318 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN  318 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC
Confidence            222222333333    34566778888888777653222 2445555555444556544433322   222     22  


Q ss_pred             -CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-------HHHHHHHHH---hcCCcHHHHHHHHHHHHHhcC
Q 044628          428 -PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-------AFLEVLSAC---SHGGLVSEGLRYFNLMISDYH  496 (665)
Q Consensus       428 -~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-------t~~~ll~a~---~~~g~~~~a~~~~~~~~~~~~  496 (665)
                       -|-.+|--.+..-...|+.+...++|++.+.. ++|-..       .|.-+--+|   ....+++.+.++|+..++  -
T Consensus       319 p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~--l  395 (677)
T KOG1915|consen  319 PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD--L  395 (677)
T ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--h
Confidence             45667777777777788999999999998875 555321       121111122   246788888899988876  3


Q ss_pred             CCCChhhHHHHHHHH----HhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 044628          497 ILPDSEHYTCLTDLL----GRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYA  571 (665)
Q Consensus       497 ~~p~~~~~~~l~~~~----~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  571 (665)
                      ++-...++.-+--+|    .|+.++..|.+++..+ |.-|...++...+..-.+.++++..+.++++.++..|.+..++.
T Consensus       396 IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~  475 (677)
T KOG1915|consen  396 IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWS  475 (677)
T ss_pred             cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHH
Confidence            444555555444443    4788888999988877 88888888888888888888999999999999999999888888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeE
Q 044628          572 LVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSW  606 (665)
Q Consensus       572 ~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~  606 (665)
                      -.+.+-...|++|-|+.+|.....+.....|-.-|
T Consensus       476 kyaElE~~LgdtdRaRaifelAi~qp~ldmpellw  510 (677)
T KOG1915|consen  476 KYAELETSLGDTDRARAIFELAISQPALDMPELLW  510 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHH
Confidence            88888888888888888888887766544554444

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.40  E-value=7.6e-11  Score=112.76  Aligned_cols=198  Identities=13%  Similarity=0.086  Sum_probs=166.4

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044628          397 AFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLS  473 (665)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  473 (665)
                      .....+..+...|.+.|++++|...|++..+   .+...+..+...|...|++++|.+.+++..+.. +.+...+..+..
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            3355667788899999999999999997753   456788888999999999999999999999863 334567777888


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHH
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~  551 (665)
                      .+...|++++|.+.++..............+..+...+.+.|++++|.+.+++. ...|+ ...+..+...+...|++++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHH
Confidence            899999999999999999873222334567778889999999999999999988 44454 5678888889999999999


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          552 AKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      |...++++++..|.++..+..++.++...|++++|..+.+.+..
T Consensus       188 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999999999888888888999999999999999999887764

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.37  E-value=2.1e-09  Score=102.75  Aligned_cols=284  Identities=11%  Similarity=0.034  Sum_probs=171.6

Q ss_pred             cCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 044628          241 NCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRV  320 (665)
Q Consensus       241 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  320 (665)
                      .|+|.+|.++..+-.+.+-.| ...|..-..+.-+.|+.+.+.+++.++.+.--.++..+.-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            588888888888876665433 3456666677778889999999988888875467777788888888889998888887


Q ss_pred             HhccC---CCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCC
Q 044628          321 FDGMT---AKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQA  397 (665)
Q Consensus       321 ~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~  397 (665)
                      .++..   .++.........+|.+.|++.+.+.++.+|.+.|+--|...-.                            -
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~----------------------------l  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR----------------------------L  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH----------------------------H
Confidence            77654   4577788889999999999999999999999988655432110                            0


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA  474 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  474 (665)
                      ...+++.+++-....+..+.-...++..+   +.++..-.+++.-+.+.|+.++|.++.++..+.+..|...    .+-.
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~  303 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIP  303 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHh
Confidence            11122333333333333333334444444   2445555566666667777777777777777666555522    2223


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCHHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSIGLAK  553 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~  553 (665)
                      +.+.++.+.-++..+...+.++..|  ..+.+|..+|.+.+.+.+|.+.|+.. ...|+..+|.-+..++.+.|+.+.|.
T Consensus       304 ~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~  381 (400)
T COG3071         304 RLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAE  381 (400)
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHH
Confidence            4555555555555555544322222  33444444444444444444444443 44444444444444444444444444


Q ss_pred             HHHHHH
Q 044628          554 WAAEKL  559 (665)
Q Consensus       554 ~~~~~~  559 (665)
                      +..++.
T Consensus       382 ~~r~e~  387 (400)
T COG3071         382 QVRREA  387 (400)
T ss_pred             HHHHHH
Confidence            444443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.36  E-value=1e-07  Score=96.25  Aligned_cols=268  Identities=15%  Similarity=0.112  Sum_probs=151.5

Q ss_pred             HHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCC----------cccHHHH
Q 044628           66 YSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRN----------IVTWNTL  135 (665)
Q Consensus        66 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~----------~~~~~~l  135 (665)
                      |...++-....+-++.+..++++-++    .++..-+--|..+++.+++++|.+.+......|          -..|+.+
T Consensus       141 W~lyl~Fv~~~~lPets~rvyrRYLk----~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~el  216 (835)
T KOG2047|consen  141 WDLYLKFVESHGLPETSIRVYRRYLK----VAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLEL  216 (835)
T ss_pred             hHHHHHHHHhCCChHHHHHHHHHHHh----cCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHH
Confidence            44444445556666677777777766    344557778888899999999998888775433          2346666


Q ss_pred             HHHHHhCCCCc-----hHHHHHhhhCCCCCC--cchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHH
Q 044628          136 ISGIINCGGNV-----TPYFRRMLLDNVRLD--HITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYG  208 (665)
Q Consensus       136 i~~~~~~~~~~-----~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  208 (665)
                      -...+++.+..     -.+++.+..  .-+|  ...|.+|.+-|.+.|.++.|..++++.++.  ..++.-++.+.+.|+
T Consensus       217 cdlis~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya  292 (835)
T KOG2047|consen  217 CDLISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYA  292 (835)
T ss_pred             HHHHHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHH
Confidence            66555554433     222222221  1233  235666666667777777777777666654  224444555555555


Q ss_pred             hCCChHHHHHHH-h---ccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCC-----------CCCCHhhHHHHHHHH
Q 044628          209 KCGFVEDARRVF-D---EVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEG-----------MKGDYFTFSSLVNSC  273 (665)
Q Consensus       209 ~~g~~~~A~~~~-~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-----------~~p~~~t~~~ll~~~  273 (665)
                      ....-.-+.++= .   ...+.+...+.             -.+.-|+.+...+           -.-+..+|..-+.  
T Consensus       293 ~FEE~~~~~~me~a~~~~~n~ed~~dl~-------------~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--  357 (835)
T KOG2047|consen  293 QFEESCVAAKMELADEESGNEEDDVDLE-------------LHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--  357 (835)
T ss_pred             HHHHHHHHHHHhhhhhcccChhhhhhHH-------------HHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--
Confidence            433222221111 0   00001111111             2222333332221           0112333333222  


Q ss_pred             hccCCcHHHHHHHHHHHHhCCCC------chhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc-------hhHHHHHHHHH
Q 044628          274 GTLGSSKLGRQIHGLVIKQSFDL------DVLVATSLVDMYAKNGNIDDACRVFDGMTAKNV-------VSWNTMVVGFG  340 (665)
Q Consensus       274 ~~~~~~~~a~~~~~~~~~~g~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~li~~~~  340 (665)
                      ...|+..+-...+.++++.- .|      -...|..+.+.|-..|+++.|+.+|++..+-+-       .+|..-...=.
T Consensus       358 l~e~~~~~~i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemEl  436 (835)
T KOG2047|consen  358 LYEGNAAEQINTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMEL  436 (835)
T ss_pred             hhcCChHHHHHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHH
Confidence            34456667777777777652 22      224688899999999999999999998876322       34666666666


Q ss_pred             cCCChHHHHHHHHHHhh
Q 044628          341 QNGDGREAVKLLRDMLQ  357 (665)
Q Consensus       341 ~~g~~~~A~~~~~~m~~  357 (665)
                      ++.+++.|+++.+....
T Consensus       437 rh~~~~~Al~lm~~A~~  453 (835)
T KOG2047|consen  437 RHENFEAALKLMRRATH  453 (835)
T ss_pred             hhhhHHHHHHHHHhhhc
Confidence            77888888888777643

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.35  E-value=2e-09  Score=99.69  Aligned_cols=311  Identities=14%  Similarity=0.096  Sum_probs=168.6

Q ss_pred             hcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCC---chhHHHHHHHHHHhcCCHHH
Q 044628          240 LNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDL---DVLVATSLVDMYAKNGNIDD  316 (665)
Q Consensus       240 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~  316 (665)
                      -+.+.++|.++|-+|.+.. +-+..+-.+|-+.+.+.|.++.|.++|+.+.+.---+   -....-.|..-|...|-+|.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3478899999999998742 1233445667777888899999999998888652111   12344556777888888888


Q ss_pred             HHHHHhccCCCCc---hhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHh
Q 044628          317 ACRVFDGMTAKNV---VSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKN  393 (665)
Q Consensus       317 A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~  393 (665)
                      |+.+|..+.+.+.   .....|+..|.+..+|++|++.-+++.+.|-++..+-..                         
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIA-------------------------  180 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIA-------------------------  180 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHH-------------------------
Confidence            8888888876333   345667888888888888888888777765444332211                         


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH-HHHHH
Q 044628          394 GVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIA-FLEVL  472 (665)
Q Consensus       394 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll  472 (665)
                            ..|--|...+....+.+.|..++                               .+..+.  .|+.+- =..+.
T Consensus       181 ------qfyCELAq~~~~~~~~d~A~~~l-------------------------------~kAlqa--~~~cvRAsi~lG  221 (389)
T COG2956         181 ------QFYCELAQQALASSDVDRARELL-------------------------------KKALQA--DKKCVRASIILG  221 (389)
T ss_pred             ------HHHHHHHHHHhhhhhHHHHHHHH-------------------------------HHHHhh--Cccceehhhhhh
Confidence                  01111222233333444444444                               444432  222221 11222


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCHHH
Q 044628          473 SACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       473 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~  551 (665)
                      +.....|+++.|.+.++.+.+ .+..--.++...|..+|...|+.++...++.++ ...+....-..+...-....-.+.
T Consensus       222 ~v~~~~g~y~~AV~~~e~v~e-Qn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~  300 (389)
T COG2956         222 RVELAKGDYQKAVEALERVLE-QNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDA  300 (389)
T ss_pred             HHHHhccchHHHHHHHHHHHH-hChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHH
Confidence            334444444444444444443 121112333444445555555555555555444 233333333333333333334455


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHH--hcCCHHHHHHHHHHHhhCCCccCCceeEEEECCEEEEE
Q 044628          552 AKWAAEKLLELEPSKPVNYALVSNVYA--SERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTF  616 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~~~~l~~~y~--~~g~~~~A~~~~~~m~~~~~~~~~~~s~i~~~~~~~~f  616 (665)
                      |...+.+-+...|.--..|..+..-..  .-|++.+...+++.|....++..|.+---..+=..|.|
T Consensus       301 Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~~YRC~~CGF~a~~l  367 (389)
T COG2956         301 AQAYLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKPRYRCQNCGFTAHTL  367 (389)
T ss_pred             HHHHHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcCCceecccCCcceee
Confidence            555555556666653333333322222  33567888888888887777766654433333333433

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.31  E-value=7.1e-09  Score=103.22  Aligned_cols=261  Identities=11%  Similarity=0.019  Sum_probs=187.5

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc---hhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 044628          296 LDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNV---VSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILS  372 (665)
Q Consensus       296 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  372 (665)
                      .+..+.....+-+..++++.+..++++.+.+.|+   ..+..-|..+...|+..+-+.+=.+|++.              
T Consensus       242 ~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--------------  307 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--------------  307 (611)
T ss_pred             hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--------------
Confidence            3444444445555555666666666655544322   23333444555555554444444444432              


Q ss_pred             HhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHH
Q 044628          373 SCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKES  449 (665)
Q Consensus       373 ~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  449 (665)
                                            .+....+|-++.--|.-.|+..+|++.|.+...   .=...|-.....|+-.|..++|
T Consensus       308 ----------------------yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQA  365 (611)
T KOG1173|consen  308 ----------------------YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQA  365 (611)
T ss_pred             ----------------------CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHH
Confidence                                  233444556666677778999999999988764   3346899999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-
Q 044628          450 IEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-  527 (665)
Q Consensus       450 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  527 (665)
                      +..+...-+. ++-....+.-+.--|.+.+..+.|.++|.+...   +-| |+...+-+.-.....+.+.+|..+|+.. 
T Consensus       366 maaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a---i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l  441 (611)
T KOG1173|consen  366 MAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA---IAPSDPLVLHELGVVAYTYEEYPEALKYFQKAL  441 (611)
T ss_pred             HHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh---cCCCcchhhhhhhheeehHhhhHHHHHHHHHHH
Confidence            9999888774 122223344455568889999999999999875   455 5666777777777888999999988876 


Q ss_pred             -C---CCC----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          528 -P---IEP----RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       528 -~---~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                       +   +.+    -..+|+.|..+|++.+..++|+..+++++.+.|.++.+|..++-+|...|+++.|.+.|.+....
T Consensus       442 ~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l  518 (611)
T KOG1173|consen  442 EVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALAL  518 (611)
T ss_pred             HHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence             1   111    24467888899999999999999999999999999999999999999999999999999887643

>PF13041 PPR_2: PPR repeat family

Probab=99.29  E-value=9.8e-12  Score=85.64  Aligned_cols=50  Identities=26%  Similarity=0.594  Sum_probs=47.9

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 044628          428 PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSH  477 (665)
Q Consensus       428 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  477 (665)
                      ||+++||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            78999999999999999999999999999999999999999999999875

>PF13041 PPR_2: PPR repeat family

Probab=99.29  E-value=7.2e-12  Score=86.32  Aligned_cols=50  Identities=28%  Similarity=0.470  Sum_probs=47.5

Q ss_pred             CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhc
Q 044628          226 RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGT  275 (665)
Q Consensus       226 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  275 (665)
                      ||+++||++|.+|++.|++++|+++|++|.+.|++||..||+.++++|++
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            68999999999999999999999999999999999999999999999874

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.26  E-value=1.6e-09  Score=111.21  Aligned_cols=231  Identities=16%  Similarity=0.143  Sum_probs=165.7

Q ss_pred             HHHHHHHHHhCCCCchHhHHHHHHHHHHh-----CC-CCc-hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--------C-
Q 044628          365 VTLASILSSCGSLSISCETRQVHAYAIKN-----GV-QAF-LSIENALINAYSKCGSIAGALQCFGSVKE--------P-  428 (665)
Q Consensus       365 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~~-----g~-~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~-  428 (665)
                      .|+..+...|...|+++.|..++...++.     |. .+. ....+.+...|...+++.+|..+|+++..        . 
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            34445556666677777776666655443     21 111 22334567788888999888888887752        1 


Q ss_pred             --ChhHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCCH-H-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcC--C
Q 044628          429 --DLVTWTSIIGAYAFHGLSKESIEVFEKMLS-----HAVRPDS-I-AFLEVLSACSHGGLVSEGLRYFNLMISDYH--I  497 (665)
Q Consensus       429 --~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~-~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--~  497 (665)
                        -..+++.|..+|.+.|++++|...+++..+     .|..+.. . -++.+...|...+.+++|..+++...+.+.  .
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              234677777889999999988887777654     2222222 2 466777789999999999999998776443  2


Q ss_pred             CCC----hhhHHHHHHHHHhcCChHHHHHHHHhC---------CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHh--
Q 044628          498 LPD----SEHYTCLTDLLGRVGLLVEAYDLLASM---------PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLE--  561 (665)
Q Consensus       498 ~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--  561 (665)
                      .++    ..+++.|..+|...|++++|.++++++         ...+. ...++.|..+|...++.+.|.+.|.+...  
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            222    467999999999999999999999987         11222 45677788899999999999988887754  


Q ss_pred             --cCCCC---CchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          562 --LEPSK---PVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       562 --~~p~~---~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                        ..|++   ..+|..|+.+|.+.|++++|.++-+.+..
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence              34444   45788999999999999999999887763

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.24  E-value=1.5e-07  Score=90.27  Aligned_cols=366  Identities=11%  Similarity=-0.012  Sum_probs=217.6

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHH-HHHHhcCC-chH--------------HHHHHHHHHHCCC-
Q 044628          197 CFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMV-SCYALNCL-GDG--------------AIAVFNLMRLEGM-  259 (665)
Q Consensus       197 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li-~~~~~~g~-~~~--------------A~~~~~~m~~~g~-  259 (665)
                      ...-...+..|...++-+.|.....+.+..-...-+.|+ .-+-+.|. -.+              |++.+.-..+.++ 
T Consensus        97 ~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp~aL~~i~~ll~l~v~  176 (564)
T KOG1174|consen   97 AEQRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRECPMALQVIEALLELGVN  176 (564)
T ss_pred             HHHHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhcchHHHHHHHHHHHhhc
Confidence            334445566777778888888888887665333333333 33333322 111              2222222222222 


Q ss_pred             --------------CCCHhhHHHHHHHH--hccCCcHHHHHHHHHHHH-hCCCCchhHHHHHHHHHHhcCCHHHHHHHHh
Q 044628          260 --------------KGDYFTFSSLVNSC--GTLGSSKLGRQIHGLVIK-QSFDLDVLVATSLVDMYAKNGNIDDACRVFD  322 (665)
Q Consensus       260 --------------~p~~~t~~~ll~~~--~~~~~~~~a~~~~~~~~~-~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  322 (665)
                                    .|+..+...-+.++  +-.++-..+.+.+-.+.+ .-++.|+.....+.++|...|+.++|...|+
T Consensus       177 g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe  256 (564)
T KOG1174|consen  177 GNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFS  256 (564)
T ss_pred             chhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHH
Confidence                          22222222223332  222333333333333333 2356677788888888888888888888888


Q ss_pred             ccCCCCchhHHH---HHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCch
Q 044628          323 GMTAKNVVSWNT---MVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFL  399 (665)
Q Consensus       323 ~~~~~~~~~~~~---li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~  399 (665)
                      +...-|+.+...   ..-.+.+.|+.++...+...+.... +-....|..-+...-...+++.|..+-+..++.+. .++
T Consensus       257 ~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~-r~~  334 (564)
T KOG1174|consen  257 STLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEP-RNH  334 (564)
T ss_pred             HHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCc-ccc
Confidence            776544433222   2334556777777777766665431 11111122222223345566666666666555432 222


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HHH
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVL-SAC  475 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll-~a~  475 (665)
                      ..+-.-..++...|+.++|.-.|+...   .-+..+|..|+..|...|.+.+|.-+-+...+. +..+..+.+.+. ..|
T Consensus       335 ~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~  413 (564)
T KOG1174|consen  335 EALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVL  413 (564)
T ss_pred             hHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceee
Confidence            223223345666788888888887655   257788888888888888888888777766654 233444554442 222


Q ss_pred             h-cCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCHHHH
Q 044628          476 S-HGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       476 ~-~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a  552 (665)
                      . ....-++|..+++...+   +.|+ ....+.+..++.+.|+.++++.++++. ...||....+.|...+...+.+.+|
T Consensus       414 ~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~a  490 (564)
T KOG1174|consen  414 FPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKA  490 (564)
T ss_pred             ccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHH
Confidence            2 22334778888877765   5565 445566777888888888888888887 6678888888888888888888888


Q ss_pred             HHHHHHHHhcCCCCCc
Q 044628          553 KWAAEKLLELEPSKPV  568 (665)
Q Consensus       553 ~~~~~~~~~~~p~~~~  568 (665)
                      ...|..++.++|++-.
T Consensus       491 m~~y~~ALr~dP~~~~  506 (564)
T KOG1174|consen  491 MEYYYKALRQDPKSKR  506 (564)
T ss_pred             HHHHHHHHhcCccchH
Confidence            8888888888888643

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.23  E-value=5.3e-08  Score=100.61  Aligned_cols=417  Identities=14%  Similarity=0.047  Sum_probs=269.0

Q ss_pred             cCCChHHHHHHH----HHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC---CchhHHHHHHHHHhcCCchH
Q 044628          174 QADDIEVGRRLH----SFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR---DLVLWNVMVSCYALNCLGDG  246 (665)
Q Consensus       174 ~~~~~~~a~~~~----~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~  246 (665)
                      ...+++++....    .++....+.-|..+|..|.-+..++|+++.+.+.|++...-   ....|+.+-..|...|.-..
T Consensus       296 ~Re~~~d~ilslm~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~  375 (799)
T KOG4162|consen  296 PRENIEDAILSLMLLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSK  375 (799)
T ss_pred             ccccHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchH
Confidence            334445544332    33333446678999999999999999999999999987543   45579999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHH-Hh-ccCCcHHHHHHHHHHHHh--CC--CCchhHHHHHHHHHHhc---------
Q 044628          247 AIAVFNLMRLEGMKGDYFTFSSLVNS-CG-TLGSSKLGRQIHGLVIKQ--SF--DLDVLVATSLVDMYAKN---------  311 (665)
Q Consensus       247 A~~~~~~m~~~g~~p~~~t~~~ll~~-~~-~~~~~~~a~~~~~~~~~~--g~--~~~~~~~~~li~~~~~~---------  311 (665)
                      |+.+++.-....-.|+..+...+... |. +.+.++++..+-..++..  +.  ......+..+.-+|...         
T Consensus       376 Av~ll~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~se  455 (799)
T KOG4162|consen  376 AVNLLRESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSE  455 (799)
T ss_pred             HHHHHHhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHH
Confidence            99999887665434655544444433 43 557778887777777762  21  22334455555555432         


Q ss_pred             --CCHHHHHHHHhccCCC---CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHH
Q 044628          312 --GNIDDACRVFDGMTAK---NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQV  386 (665)
Q Consensus       312 --g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i  386 (665)
                        ....++.+.+++..+.   |..+---+.--|+..++.+.|++..++....+-.-+...+..+.-.++..+++..|..+
T Consensus       456 R~~~h~kslqale~av~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~v  535 (799)
T KOG4162|consen  456 RDALHKKSLQALEEAVQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDV  535 (799)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHH
Confidence              1234556666665432   22222223344667788999999999998876667777888777788888999999988


Q ss_pred             HHHHHH-hCCCCchhHHHHHHHHHHhcCCHHHHHHH--------------------------HhcCC----C-CCh-hHH
Q 044628          387 HAYAIK-NGVQAFLSIENALINAYSKCGSIAGALQC--------------------------FGSVK----E-PDL-VTW  433 (665)
Q Consensus       387 ~~~~~~-~g~~~~~~~~~~li~~~~~~g~~~~A~~~--------------------------~~~~~----~-~~~-~~~  433 (665)
                      .+.... .|.........  +..-..-++.++|...                          +..+.    + .+. .++
T Consensus       536 vd~al~E~~~N~~l~~~~--~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~s  613 (799)
T KOG4162|consen  536 VDAALEEFGDNHVLMDGK--IHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTS  613 (799)
T ss_pred             HHHHHHHhhhhhhhchhh--hhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhh
Confidence            886543 33211100000  0111113333333322                          22221    0 111 122


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH
Q 044628          434 TSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS--------IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYT  505 (665)
Q Consensus       434 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  505 (665)
                      ..+.. .+. -+...+..-.. |...-+.|+.        ..+......+...+..++|...+.+..+  ..+-....|.
T Consensus       614 r~ls~-l~a-~~~~~~~se~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~  688 (799)
T KOG4162|consen  614 RYLSS-LVA-SQLKSAGSELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYY  688 (799)
T ss_pred             HHHHH-HHH-hhhhhcccccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHH
Confidence            22211 111 11111100000 2222223322        1344555678888999999988888865  2333456677


Q ss_pred             HHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHH--HHHHHHhcCCCCCchHHHHHHHHHhcC
Q 044628          506 CLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKW--AAEKLLELEPSKPVNYALVSNVYASER  581 (665)
Q Consensus       506 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~y~~~g  581 (665)
                      .....+...|..+||.+.|... .+.|+ +.+..++...+...|+...|..  ++..+++++|.++.+|..||.++.+.|
T Consensus       689 ~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~G  768 (799)
T KOG4162|consen  689 LRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLG  768 (799)
T ss_pred             HhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcc
Confidence            7778889999999999998887 77886 6688888899999998888888  999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHhhCC
Q 044628          582 CWFDVARLRKMMRDNC  597 (665)
Q Consensus       582 ~~~~A~~~~~~m~~~~  597 (665)
                      +.++|.+.|+......
T Consensus       769 d~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  769 DSKQAAECFQAALQLE  784 (799)
T ss_pred             chHHHHHHHHHHHhhc
Confidence            9999999998876543

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.22  E-value=1.5e-08  Score=94.11  Aligned_cols=247  Identities=12%  Similarity=0.077  Sum_probs=182.0

Q ss_pred             CCChHHHHHHHHHHhhCCCCCCH-HHHHHHHHHhCCCCchHhHHHHHHHHHHhC-CCCc--hhHHHHHHHHHHhcCCHHH
Q 044628          342 NGDGREAVKLLRDMLQGSFCPDE-VTLASILSSCGSLSISCETRQVHAYAIKNG-VQAF--LSIENALINAYSKCGSIAG  417 (665)
Q Consensus       342 ~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g-~~~~--~~~~~~li~~~~~~g~~~~  417 (665)
                      +++.++|.++|-+|.+.  .|.. .+-.++-+.+.+.|..|.|+.+|+.+.++- ...+  ....-.|..-|.+.|-++.
T Consensus        48 s~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hcCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            45677777777777663  2222 233345555677777788888777766542 2111  2233456778999999999


Q ss_pred             HHHHHhcCCCCCh---hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHhcCCcHHHHHHHHHH
Q 044628          418 ALQCFGSVKEPDL---VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI----AFLEVLSACSHGGLVSEGLRYFNL  490 (665)
Q Consensus       418 A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~  490 (665)
                      |+.+|..+.+.+.   .....|+..|-+..++++|++.-+++.+.+-++..+    -|.-+........+++.|..++.+
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            9999999886333   456668999999999999999999999977666553    466677777778899999999999


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          491 MISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR--SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       491 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      ..+.  -+..+..--.+.+.+...|+++.|.+.++.. ...|+  ..+...|..+|...|+.+++...+.++.+..+. +
T Consensus       206 Alqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g-~  282 (389)
T COG2956         206 ALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTG-A  282 (389)
T ss_pred             HHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCC-c
Confidence            9872  2234555556788999999999999999998 55565  456778889999999999999999999999887 4


Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          568 VNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      ..-..+.+.-....-.++|.....+-
T Consensus       283 ~~~l~l~~lie~~~G~~~Aq~~l~~Q  308 (389)
T COG2956         283 DAELMLADLIELQEGIDAAQAYLTRQ  308 (389)
T ss_pred             cHHHHHHHHHHHhhChHHHHHHHHHH
Confidence            56666666665555556666554433

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.22  E-value=1.1e-08  Score=98.00  Aligned_cols=274  Identities=14%  Similarity=0.065  Sum_probs=180.6

Q ss_pred             cCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHH
Q 044628          311 NGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVH  387 (665)
Q Consensus       311 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~  387 (665)
                      .|++..|+++..+-.+   .....|..-+.+--+.|+.+.+-.++.+..+.--.++.....+........|+.+.|..-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            5888888888776543   2334455555566677888888888888776432344444555555567777888887777


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC----C-------hhHHHHHHHHHHhcCChHHHHHHHHHH
Q 044628          388 AYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEP----D-------LVTWTSIIGAYAFHGLSKESIEVFEKM  456 (665)
Q Consensus       388 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~-------~~~~~~li~~~~~~g~~~~A~~~~~~m  456 (665)
                      ..+.+.+ +....+.....+.|.+.|++.....++.++.+.    |       ..+|+.++.-....+..+.-...++..
T Consensus       177 ~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            7777665 344556677778888888888888888777642    1       235666666555555555555556555


Q ss_pred             HHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCC
Q 044628          457 LSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPR  532 (665)
Q Consensus       457 ~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~  532 (665)
                      ..+ .+-+...-.+++.-+.+.|+.++|.++.++..+ .+..|+.    +..-...+-++.+.=++..++.    |..  
T Consensus       256 pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk-~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h~~~--  327 (400)
T COG3071         256 PRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALK-RQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQHPED--  327 (400)
T ss_pred             cHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHH-hccChhH----HHHHhhcCCCCchHHHHHHHHHHHhCCCC--
Confidence            543 355555666667777778888888888777776 3555541    1111223444444444444333    333  


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      +..+.+|...|.+++.+.+|...++.+++..|+ ...|..++++|.+.|+.++|.++++...
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s-~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALKLRPS-ASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            467778888888888888888888888888886 6778888888888888888888887665

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=1.3e-07  Score=92.59  Aligned_cols=149  Identities=13%  Similarity=0.114  Sum_probs=69.5

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHH
Q 044628          443 HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAY  521 (665)
Q Consensus       443 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~  521 (665)
                      .|+...|.+-|+..+.....++.. |.-+..+|....+.++..+.|....+   +.| +..+|.-=..++.-.+++++|.
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~---ldp~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAED---LDPENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHh---cCCCCCchhHhHHHHHHHHHHHHHHH
Confidence            345555555555555442222221 33334445555555555555555543   222 2333433344444445555555


Q ss_pred             HHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          522 DLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       522 ~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .-|++. .+.|. ...+..+.-+..+.+.++++...|+...+.-|+.+..|...+.++..+++++.|.+.++...+
T Consensus       415 aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  415 ADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            555554 34442 223333333334444555555555555555555555555555555555555555555554443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=3.4e-07  Score=91.97  Aligned_cols=423  Identities=14%  Similarity=0.091  Sum_probs=247.6

Q ss_pred             hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHH--HHHHHH--hCCChHHHHHHHhc
Q 044628          147 TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSA--LVDLYG--KCGFVEDARRVFDE  222 (665)
Q Consensus       147 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--li~~~~--~~g~~~~A~~~~~~  222 (665)
                      .....++...+ +-|...+.+=+-++...+.+++|..+.+   ..+.   ..+++.  +=.+||  +.+..++|...++.
T Consensus        32 ~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ik---k~~~---~~~~~~~~fEKAYc~Yrlnk~Dealk~~~~  104 (652)
T KOG2376|consen   32 VKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIK---KNGA---LLVINSFFFEKAYCEYRLNKLDEALKTLKG  104 (652)
T ss_pred             HHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHH---hcch---hhhcchhhHHHHHHHHHcccHHHHHHHHhc
Confidence            44455555444 4456667777777888888888874433   2221   112222  234554  67888999998886


Q ss_pred             cCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCC-CHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCc--hh
Q 044628          223 VLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKG-DYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLD--VL  299 (665)
Q Consensus       223 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~  299 (665)
                      ....+..+...-...+-+.|++++|+++|+.+.+.+..- |...-..++.+-..    -.+.    .+......|+  -.
T Consensus       105 ~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~~----~~q~v~~v~e~sye  176 (652)
T KOG2376|consen  105 LDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQVQ----LLQSVPEVPEDSYE  176 (652)
T ss_pred             ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhHH----HHHhccCCCcchHH
Confidence            555565566666677888899999999999987765432 11112222221111    0111    1111122221  11


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccC--------CCCc----------hhHHHHHHHHHcCCChHHHHHHHHHHhhCCCC
Q 044628          300 VATSLVDMYAKNGNIDDACRVFDGMT--------AKNV----------VSWNTMVVGFGQNGDGREAVKLLRDMLQGSFC  361 (665)
Q Consensus       300 ~~~~li~~~~~~g~~~~A~~~~~~~~--------~~~~----------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  361 (665)
                      .+-.....+...|++.+|+++++...        +.|.          ..--.|.-.+...|+.++|..++...+... .
T Consensus       177 l~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~-~  255 (652)
T KOG2376|consen  177 LLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN-P  255 (652)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-C
Confidence            22223455678899999999998771        1111          112345566778999999999999998875 3


Q ss_pred             CCHHHHHHH---HHHhCCCCchHhH--HHHHHH-----------HHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcC
Q 044628          362 PDEVTLASI---LSSCGSLSISCET--RQVHAY-----------AIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSV  425 (665)
Q Consensus       362 p~~~t~~~l---l~~~~~~~~~~~a--~~i~~~-----------~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  425 (665)
                      +|.......   |-+.....++-.+  ...++.           .....-...+..-++++.+|.  +..+.++++-...
T Consensus       256 ~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~~~a~l  333 (652)
T KOG2376|consen  256 ADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQVRELSASL  333 (652)
T ss_pred             CCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhC
Confidence            454222221   2222222222221  111111           111111112222245555554  4556777777776


Q ss_pred             CCCC-hhHHHHHHHHHH--hcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCcHHHHHHHHH--------HHH
Q 044628          426 KEPD-LVTWTSIIGAYA--FHGLSKESIEVFEKMLSHAVRPDS--IAFLEVLSACSHGGLVSEGLRYFN--------LMI  492 (665)
Q Consensus       426 ~~~~-~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~--------~~~  492 (665)
                      .... ...+.+++....  +.....+|.+++...-+.  .|..  +.....+......|+++.|.+++.        .+.
T Consensus       334 p~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~  411 (652)
T KOG2376|consen  334 PGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSIL  411 (652)
T ss_pred             CccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhh
Confidence            6422 334444444332  223577788888777765  4444  455556667788999999999999        554


Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--------CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044628          493 SDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--------PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELE  563 (665)
Q Consensus       493 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  563 (665)
                      + .+..|  .+...++.++.+.++-+.|.+++.+.        ...+. ...|.-+...-.++|+.++|...++++++.+
T Consensus       412 ~-~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n  488 (652)
T KOG2376|consen  412 E-AKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN  488 (652)
T ss_pred             h-hccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC
Confidence            4 23334  45566788888888877676666655        22222 2233334444567899999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          564 PSKPVNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       564 p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      |++..+...++-+|++.. .+.|..+-+.+
T Consensus       489 ~~d~~~l~~lV~a~~~~d-~eka~~l~k~L  517 (652)
T KOG2376|consen  489 PNDTDLLVQLVTAYARLD-PEKAESLSKKL  517 (652)
T ss_pred             CchHHHHHHHHHHHHhcC-HHHHHHHhhcC
Confidence            999999999999998875 56666664433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.17  E-value=6.9e-09  Score=106.55  Aligned_cols=232  Identities=20%  Similarity=0.190  Sum_probs=155.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCC----------CCch-hHHHHHHHHHcCCChHHHHHHHHHHhhC---CCCCCH
Q 044628          299 LVATSLVDMYAKNGNIDDACRVFDGMTA----------KNVV-SWNTMVVGFGQNGDGREAVKLLRDMLQG---SFCPDE  364 (665)
Q Consensus       299 ~~~~~li~~~~~~g~~~~A~~~~~~~~~----------~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~  364 (665)
                      .+...|..+|...|+++.|..+|+...+          +.+. ..+.+...|...+++++|..+|+++...   ..-++.
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            3344455555556666655555544322          1111 1234566777778888888888777541   001111


Q ss_pred             HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC----------CChh-HH
Q 044628          365 VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE----------PDLV-TW  433 (665)
Q Consensus       365 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------~~~~-~~  433 (665)
                      .                               .-..+++.|..+|.+.|++++|...+++..+          +.+. ..
T Consensus       280 ~-------------------------------~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l  328 (508)
T KOG1840|consen  280 P-------------------------------AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQL  328 (508)
T ss_pred             H-------------------------------HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHH
Confidence            1                               1123445566677777777776666554431          3333 35


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc---CCCCCH----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhc----C-CCC-C
Q 044628          434 TSIIGAYAFHGLSKESIEVFEKMLSH---AVRPDS----IAFLEVLSACSHGGLVSEGLRYFNLMISDY----H-ILP-D  500 (665)
Q Consensus       434 ~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~----~-~~p-~  500 (665)
                      +.++..++..+++++|..++++..+.   -+.++.    .+++.+...+.+.|++++|.++|++++...    + ..+ .
T Consensus       329 ~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~  408 (508)
T KOG1840|consen  329 SELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGV  408 (508)
T ss_pred             HHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhh
Confidence            55677788889999999998876652   123333    378899999999999999999999987642    1 122 2


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC--------CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM--------PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLE  561 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  561 (665)
                      ..+++.|...|.+.+++++|.++|.+.        +..|+ ..+|..|...|...|+++.|+++.++++.
T Consensus       409 ~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  409 GKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             hHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            456788889999999999999988876        34455 45789999999999999999999998873

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.16  E-value=5.6e-09  Score=102.95  Aligned_cols=212  Identities=15%  Similarity=-0.012  Sum_probs=152.2

Q ss_pred             CchHhHHHHHHHHHHhC-CCC--chhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHH
Q 044628          378 SISCETRQVHAYAIKNG-VQA--FLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIE  451 (665)
Q Consensus       378 ~~~~~a~~i~~~~~~~g-~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  451 (665)
                      +..+.+..-+..++... ..+  ....+..+...|.+.|+.++|...|++..+   .+...|+.+...+...|++++|.+
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            34455555666665432 222  235577778889999999999999988763   567899999999999999999999


Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--C
Q 044628          452 VFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--P  528 (665)
Q Consensus       452 ~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~  528 (665)
                      .|++..+.  .|+. .++..+..++...|++++|.+.|+...+   ..|+..........+...++.++|.+.+++.  .
T Consensus       120 ~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99999984  6654 6788888889999999999999999987   3454432222233455678899999999765  3


Q ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH-------hcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          529 IEPRSDTLGAFIGACKVHGSIGLAKWAAEKLL-------ELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       529 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      ..|+...| .+  .....|+...+ ..++.+.       ++.|+.+.+|..++.+|...|++++|+..+++....++
T Consensus       195 ~~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 LDKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CCccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            33333222 22  22234544333 2333333       55667778999999999999999999999999886553

>PRK12370 invasion protein regulator; Provisional

Probab=99.15  E-value=1.2e-08  Score=110.07  Aligned_cols=244  Identities=12%  Similarity=0.003  Sum_probs=173.3

Q ss_pred             ChHHHHHHHHHHhhCCCCCCHH-HHHHHHHHh---------CCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 044628          344 DGREAVKLLRDMLQGSFCPDEV-TLASILSSC---------GSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCG  413 (665)
Q Consensus       344 ~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~---------~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g  413 (665)
                      ..++|+.+|++..+.  .|+.. .+..+..++         ...++.++|...++.+++.+ +.+...+..+...+...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            356777778777663  45443 222222211         13345778888888877765 345667777888889999


Q ss_pred             CHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHH
Q 044628          414 SIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFN  489 (665)
Q Consensus       414 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~  489 (665)
                      ++++|...|++..+   .+...|..+...+...|++++|+..+++..+.  .|+.. .+..++..+...|++++|++.++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            99999999998763   34667888899999999999999999999986  55542 33334445666899999999999


Q ss_pred             HHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhH-HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          490 LMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDT-LGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       490 ~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      ++.+.  ..| +...+..+..+|...|+.++|.+.++++ +..|+... ++.+...+...|  +.|...++.+++..-..
T Consensus       431 ~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        431 ELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            98762  235 3555777888999999999999999998 55665444 444445556666  47888788777644333


Q ss_pred             CchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          567 PVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       567 ~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +.....+..+|+-.|+-+.+..+ +++.+.+
T Consensus       507 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        507 DNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            33334478888889988887777 7777654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.13  E-value=6.7e-09  Score=99.19  Aligned_cols=164  Identities=15%  Similarity=0.166  Sum_probs=141.4

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH
Q 044628          429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCL  507 (665)
Q Consensus       429 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  507 (665)
                      ....+..+...|...|++++|.+.+++..+.  .|+ ...+..+...+...|++++|.+.++...+.  .+.+...+..+
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~  105 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEH--DPDDYLAYLALALYYQQLGELEKAEDSFRRALTL--NPNNGDVLNNY  105 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHH
Confidence            3567788889999999999999999999875  454 567788888999999999999999999872  33456778888


Q ss_pred             HHHHHhcCChHHHHHHHHhC-C--CCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCH
Q 044628          508 TDLLGRVGLLVEAYDLLASM-P--IEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCW  583 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~-~--~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~  583 (665)
                      ...+...|++++|.+.+++. .  ..| ....+..+...+...|+.++|...++++++.+|+++..+..++.+|...|++
T Consensus       106 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       106 GTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCH
Confidence            99999999999999999998 2  122 3556777888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhC
Q 044628          584 FDVARLRKMMRDN  596 (665)
Q Consensus       584 ~~A~~~~~~m~~~  596 (665)
                      ++|...+++....
T Consensus       186 ~~A~~~~~~~~~~  198 (234)
T TIGR02521       186 KDARAYLERYQQT  198 (234)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988765

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.13  E-value=2.7e-09  Score=98.74  Aligned_cols=188  Identities=12%  Similarity=0.060  Sum_probs=120.4

Q ss_pred             HHHHhcCCHHHHHHHHhcCCC--CChhHH-HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH
Q 044628          407 NAYSKCGSIAGALQCFGSVKE--PDLVTW-TSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSE  483 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~--~~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  483 (665)
                      ..|.+..+++.|+.+|.+-.+  |-.+|| .-+...+-..++.++|.++|+...+.. ..|......+...|...++++-
T Consensus       264 kvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~  342 (478)
T KOG1129|consen  264 KVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEM  342 (478)
T ss_pred             HHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHH
Confidence            334444444444444444332  222222 223444455556666666666665541 2233344445555555666666


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC---CCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          484 GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM---PIEPR--SDTLGAFIGACKVHGSIGLAKWAAEK  558 (665)
Q Consensus       484 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~  558 (665)
                      |+.+|+++.+ .|+ .+.+.|+.+.-++.-.+++|-++.-|++.   .-+|+  ..+|-.|.......||+..|.+.|+.
T Consensus       343 AlryYRRiLq-mG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrl  420 (478)
T KOG1129|consen  343 ALRYYRRILQ-MGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRL  420 (478)
T ss_pred             HHHHHHHHHH-hcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHH
Confidence            6666666655 343 34555555555555666666666666555   12233  55788888777888999999999999


Q ss_pred             HHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          559 LLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       559 ~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ++..+|++..+++.|+-+-.+.|+.++|+.++.......
T Consensus       421 aL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  421 ALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            999999999999999999999999999999999887654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.12  E-value=8.2e-07  Score=83.55  Aligned_cols=468  Identities=16%  Similarity=0.098  Sum_probs=251.5

Q ss_pred             HhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCC---CCcccHHHHHHHHHhCCCCchH
Q 044628           72 VSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRV---RNIVTWNTLISGIINCGGNVTP  148 (665)
Q Consensus        72 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~~~~~~~  148 (665)
                      -+...+++..|..+++.-...+-+-...+---+...|.+.|++++|..++..+.+   ++...|--|.-.+.-     +.
T Consensus        31 dfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~Fy-----Lg  105 (557)
T KOG3785|consen   31 DFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFY-----LG  105 (557)
T ss_pred             HHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHH-----HH
Confidence            3344556666666666555433222222333345566778888888888776543   222223222211110     23


Q ss_pred             HHHHhhhCC-CCCCcchHHH-HHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC
Q 044628          149 YFRRMLLDN-VRLDHITFNS-LLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR  226 (665)
Q Consensus       149 ~~~~m~~~g-~~p~~~t~~~-ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  226 (665)
                      .+.+....+ -.|+.....- ++...-+.++-++-..+++.+...     ..-.-+|..+.-..-.+++|++++.++...
T Consensus       106 ~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  106 QYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            333332222 1233333333 334445667777777777766543     233334444444445678888888887543


Q ss_pred             --CchhHHH-HHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHh--ccCCcHHHHHHHHHHHHhCCCCchhHH
Q 044628          227 --DLVLWNV-MVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCG--TLGSSKLGRQIHGLVIKQSFDLDVLVA  301 (665)
Q Consensus       227 --~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~--~~~~~~~a~~~~~~~~~~g~~~~~~~~  301 (665)
                        +....|. |.-+|.+...++-+.++++-....  -||+ |+..=+.+|.  +.=+-..|++-...+.+.+-..    |
T Consensus       181 n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdS-tiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~  253 (557)
T KOG3785|consen  181 NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDS-TIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----Y  253 (557)
T ss_pred             ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCc-HHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----c
Confidence              3444444 334667777777777777776654  3443 3333333332  2212222333333333322111    0


Q ss_pred             HHHHHHHHhc-----CCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCC
Q 044628          302 TSLVDMYAKN-----GNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGS  376 (665)
Q Consensus       302 ~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  376 (665)
                       ..+.-.++.     ..-+.|++++-.+.+-=+..--.++--|.++++..+|..+.+++.-  ..|-....-.+..+   
T Consensus       254 -~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~a---  327 (557)
T KOG3785|consen  254 -PFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFA---  327 (557)
T ss_pred             -hhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHH---
Confidence             111222222     1223455554433322222333455567888888888888777542  23433333332222   


Q ss_pred             CCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CChhHHHHHHHHHHhcCChHHHHH
Q 044628          377 LSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----PDLVTWTSIIGAYAFHGLSKESIE  451 (665)
Q Consensus       377 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~  451 (665)
                                                 ++.+-......+.-|...|+-.-+     .++.--.++.+.+.-..++++.+-
T Consensus       328 ---------------------------alGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~  380 (557)
T KOG3785|consen  328 ---------------------------ALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLT  380 (557)
T ss_pred             ---------------------------HhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHH
Confidence                                       111111112223334444443321     223344556666666667777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH-HHHHHHHHhcCChHHHHHHHHhCCCC
Q 044628          452 VFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHY-TCLTDLLGRVGLLVEAYDLLASMPIE  530 (665)
Q Consensus       452 ~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~  530 (665)
                      .++....- +..|..--..+.+|.+..|.+.+|.++|-.+.. -.+ .|..+| ..|..+|.+.|+++-|.+++-++...
T Consensus       381 YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~~is~-~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~  457 (557)
T KOG3785|consen  381 YLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELFIRISG-PEI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTP  457 (557)
T ss_pred             HHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHHhhhcC-hhh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCc
Confidence            77776664 333433334567888889999999999988754 223 234455 45668899999999999999998654


Q ss_pred             CChhHHHHHH-HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCC
Q 044628          531 PRSDTLGAFI-GACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVP  602 (665)
Q Consensus       531 p~~~~~~~ll-~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~  602 (665)
                      .+..+...++ .-|.+.+.+=-|-++|..+-.++|. |..|.         |+-..-.-+|+.+.....+..|
T Consensus       458 ~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~-pEnWe---------GKRGACaG~f~~l~~~~~~~~p  520 (557)
T KOG3785|consen  458 SERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT-PENWE---------GKRGACAGLFRQLANHKTDPIP  520 (557)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC-ccccC---------CccchHHHHHHHHHcCCCCCCc
Confidence            5566555555 6799999999999999999999986 55443         3333344555555544433334

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.12  E-value=7.1e-09  Score=91.90  Aligned_cols=162  Identities=17%  Similarity=0.134  Sum_probs=142.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHH
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTD  509 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~  509 (665)
                      ....|.-+|.+.|+...|.+-+++.++.  .|+. .++..+...|.+.|..+.|.+-|+...+   +.| +..+.|....
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNYG~  111 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNYGA  111 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhhhH
Confidence            4555777899999999999999999986  6655 5888888999999999999999999987   445 5778899999


Q ss_pred             HHHhcCChHHHHHHHHhC---CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHH
Q 044628          510 LLGRVGLLVEAYDLLASM---PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFD  585 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~---~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  585 (665)
                      -+|..|++++|...|+++   |.-| -..+|..+..+..+.|+.+.|+..+++.++++|+.+.....++....+.|++-+
T Consensus       112 FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         112 FLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchH
Confidence            999999999999999998   3333 266888888888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCC
Q 044628          586 VARLRKMMRDNCD  598 (665)
Q Consensus       586 A~~~~~~m~~~~~  598 (665)
                      |...++....++.
T Consensus       192 Ar~~~~~~~~~~~  204 (250)
T COG3063         192 ARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHHhccc
Confidence            9999999887664

>PRK12370 invasion protein regulator; Provisional

Probab=99.09  E-value=1.4e-08  Score=109.51  Aligned_cols=211  Identities=11%  Similarity=-0.037  Sum_probs=161.9

Q ss_pred             CchHhHHHHHHHHHHhCCCCchhHHHHHHHHHH---------hcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCC
Q 044628          378 SISCETRQVHAYAIKNGVQAFLSIENALINAYS---------KCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGL  445 (665)
Q Consensus       378 ~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~---------~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  445 (665)
                      +.++.|...++..++... .+...+..+..+|.         ..+++++|...+++..+   .+...|..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ldP-~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSP-NSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            345788888888876542 23445555554443         23458899999998764   467788888888999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCChHHHHHH
Q 044628          446 SKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDS-EHYTCLTDLLGRVGLLVEAYDL  523 (665)
Q Consensus       446 ~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~  523 (665)
                      +++|...|++..+.  .|+. ..+..+..++...|++++|+..++++.+   +.|+. ..+..+...+...|++++|++.
T Consensus       354 ~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        354 YIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999986  5654 5677888899999999999999999987   45653 2333445567778999999999


Q ss_pred             HHhC--CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          524 LASM--PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       524 ~~~~--~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +++.  ...|+ ...+..+..++...|+.++|+..++++....|.+......++..|...|  ++|...++.+.+.
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            9887  22454 4446666677889999999999999998888888888888888888888  4888877776653

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.07  E-value=5e-06  Score=84.50  Aligned_cols=216  Identities=11%  Similarity=0.067  Sum_probs=143.7

Q ss_pred             CCchHhHHHHHHHHHHhC-----CCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh-------hHHHHHHHHHHhcC
Q 044628          377 LSISCETRQVHAYAIKNG-----VQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDL-------VTWTSIIGAYAFHG  444 (665)
Q Consensus       377 ~~~~~~a~~i~~~~~~~g-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~li~~~~~~g  444 (665)
                      .|+..+-...+.++++.-     ...-...|..+.+.|-..|+++.|+.+|++..+-+-       ..|-.-...=.++.
T Consensus       360 e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~  439 (835)
T KOG2047|consen  360 EGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHE  439 (835)
T ss_pred             cCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhh
Confidence            355566666677666531     112345678889999999999999999999876332       35555556666788


Q ss_pred             ChHHHHHHHHHHHHcCCC----------CC-------HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH
Q 044628          445 LSKESIEVFEKMLSHAVR----------PD-------SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCL  507 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~----------p~-------~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  507 (665)
                      +++.|+++.++...-.-.          |-       ...|...++.-...|-++....+|+.+..-.-..|  ...-..
T Consensus       440 ~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTP--qii~Ny  517 (835)
T KOG2047|consen  440 NFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATP--QIIINY  517 (835)
T ss_pred             hHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCH--HHHHHH
Confidence            999999998887642111          11       11233344444456788888888888887322233  333334


Q ss_pred             HHHHHhcCChHHHHHHHHhC-C-CC-CC-hhHHHHHHHHHHh-c--CCHHHHHHHHHHHHhcCCCCC--chHHHHHHHHH
Q 044628          508 TDLLGRVGLLVEAYDLLASM-P-IE-PR-SDTLGAFIGACKV-H--GSIGLAKWAAEKLLELEPSKP--VNYALVSNVYA  578 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~-~-~~-p~-~~~~~~ll~~~~~-~--g~~~~a~~~~~~~~~~~p~~~--~~~~~l~~~y~  578 (665)
                      .-.+....-++++.+.+++- + ++ |+ ..+|++.+.-+.+ -  ...+.|+.+|+++++.-|...  ..|...+..--
T Consensus       518 AmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~Cpp~~aKtiyLlYA~lEE  597 (835)
T KOG2047|consen  518 AMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDGCPPEHAKTIYLLYAKLEE  597 (835)
T ss_pred             HHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Confidence            44566778899999999987 2 22 33 4579988865533 2  378999999999999887521  23445555555


Q ss_pred             hcCCHHHHHHHHHHHh
Q 044628          579 SERCWFDVARLRKMMR  594 (665)
Q Consensus       579 ~~g~~~~A~~~~~~m~  594 (665)
                      +-|.-..|..++++..
T Consensus       598 e~GLar~amsiyerat  613 (835)
T KOG2047|consen  598 EHGLARHAMSIYERAT  613 (835)
T ss_pred             HhhHHHHHHHHHHHHH
Confidence            6688888888888754

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.05  E-value=2.4e-06  Score=85.62  Aligned_cols=264  Identities=12%  Similarity=0.044  Sum_probs=142.7

Q ss_pred             HHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCCh
Q 044628          269 LVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDG  345 (665)
Q Consensus       269 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  345 (665)
                      -..-|-..+++.+..++.+.+.+.. ++....+..-|.++.+.|+..+-..+=.++.+   ...++|-++..-|...|+.
T Consensus       250 ~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i~k~  328 (611)
T KOG1173|consen  250 KADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCYYLMIGKY  328 (611)
T ss_pred             HHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHHHHHhcCc
Confidence            3333445555556666665555543 44444444445555555554443333333332   2345566666666666666


Q ss_pred             HHHHHHHHHHhhCCCCCC-HHHHHHHHHHhCCCCchHhHHHHHHHHHHh--C-CCCchhHHHHHHHHHHhcCCHHHHHHH
Q 044628          346 REAVKLLRDMLQGSFCPD-EVTLASILSSCGSLSISCETRQVHAYAIKN--G-VQAFLSIENALINAYSKCGSIAGALQC  421 (665)
Q Consensus       346 ~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~--g-~~~~~~~~~~li~~~~~~g~~~~A~~~  421 (665)
                      .+|.+.|.+....  .|. ...|...-.+++..|..|+|...+..+.+.  | ..|.  .|  +.--|.+.++++.|.+.
T Consensus       329 seARry~SKat~l--D~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~--LY--lgmey~~t~n~kLAe~F  402 (611)
T KOG1173|consen  329 SEARRYFSKATTL--DPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPS--LY--LGMEYMRTNNLKLAEKF  402 (611)
T ss_pred             HHHHHHHHHHhhc--CccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchH--HH--HHHHHHHhccHHHHHHH
Confidence            6666666554332  111 123333444444455555555444433321  1 1111  11  22235566666666666


Q ss_pred             HhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHc--CC---CC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 044628          422 FGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH--AV---RP-DSIAFLEVLSACSHGGLVSEGLRYFNLMI  492 (665)
Q Consensus       422 ~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~---~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  492 (665)
                      |....   ..|+...+-+.-.....+.+.+|..+|+..+..  .+   .+ -..+++.|..+|.+.+.+++|+..|+...
T Consensus       403 f~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL  482 (611)
T KOG1173|consen  403 FKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKAL  482 (611)
T ss_pred             HHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHH
Confidence            66544   245555666655555566677777777666521  00   11 22356666677777777777777777776


Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHH
Q 044628          493 SDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIG  541 (665)
Q Consensus       493 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~  541 (665)
                      .  -.+.+..++.++.-.|...|+++.|.+.|.+. .++||..+-..+++
T Consensus       483 ~--l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  483 L--LSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             H--cCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            5  34456667777777777777777777777766 66676666555554

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.01  E-value=2.2e-06  Score=88.97  Aligned_cols=438  Identities=15%  Similarity=0.090  Sum_probs=254.7

Q ss_pred             CCCCChhHHHHHHHHhhcCCChHHHHHHHcccCC---CCcccHHHHHHHHHhCCCCc--hHHHHHhhhCCCCCCc-chHH
Q 044628           93 GLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRV---RNIVTWNTLISGIINCGGNV--TPYFRRMLLDNVRLDH-ITFN  166 (665)
Q Consensus        93 g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~~~~~--~~~~~~m~~~g~~p~~-~t~~  166 (665)
                      .+..+..+|..|.-+..++|+++.+-+.|++...   .....|+.+-..|...|...  +.+++.-....-.|+. ..+-
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            4567889999999999999999999999987642   33456888888887777765  5555443322222433 3333


Q ss_pred             HHHHHHh-cCCChHHHHHHHHHHHHhC--CC--CchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhc
Q 044628          167 SLLRACV-QADDIEVGRRLHSFILKVG--FG--LNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALN  241 (665)
Q Consensus       167 ~ll~~~~-~~~~~~~a~~~~~~~~~~g--~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  241 (665)
                      ..-+.|. +.+.++++..+-.++++..  ..  ..+..|-.+--+|...-            ...+.  +.      -+.
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A------------~~a~~--~s------eR~  457 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQA------------RQANL--KS------ERD  457 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHh------------hcCCC--hH------HHH
Confidence            3334444 4466677776666666521  00  11122222222221110            00000  00      011


Q ss_pred             CCchHHHHHHHHHHHCC-CCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 044628          242 CLGDGAIAVFNLMRLEG-MKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRV  320 (665)
Q Consensus       242 g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  320 (665)
                      ....++++.+++..+.+ -.|+...|.++  -++..++++.|.+...+..+.+-..+...|..|.-.+.-.+++.+|+.+
T Consensus       458 ~~h~kslqale~av~~d~~dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~v  535 (799)
T KOG4162|consen  458 ALHKKSLQALEEAVQFDPTDPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDV  535 (799)
T ss_pred             HHHHHHHHHHHHHHhcCCCCchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHH
Confidence            12345666777765542 23443333333  3556677888888888888776567777788777777888888888887


Q ss_pred             HhccCCC---CchhHHHHHHHHHcCCChHHHHHHHHHHhhC--CCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHH--Hh
Q 044628          321 FDGMTAK---NVVSWNTMVVGFGQNGDGREAVKLLRDMLQG--SFCPDEVTLASILSSCGSLSISCETRQVHAYAI--KN  393 (665)
Q Consensus       321 ~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~--~~  393 (665)
                      .+...+.   |-.....-+..-..-++.++|+.....+..-  ...+-..+..        .|.   ..+....+.  ..
T Consensus       536 vd~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~--------~g~---~~~lk~~l~la~~  604 (799)
T KOG4162|consen  536 VDAALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLD--------EGK---LLRLKAGLHLALS  604 (799)
T ss_pred             HHHHHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhh--------hhh---hhhhhcccccCcc
Confidence            7665432   1111112222333356667776666555431  0000000000        000   000000000  00


Q ss_pred             CCCCchhHHHHHHHHHH---hcCCHHHHHHHHhcCCCCC------hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 044628          394 GVQAFLSIENALINAYS---KCGSIAGALQCFGSVKEPD------LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD  464 (665)
Q Consensus       394 g~~~~~~~~~~li~~~~---~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  464 (665)
                      .....+.++..+.....   +.-..+.....+.....|+      ...|......+.+.+..++|...+.+....  .|-
T Consensus       605 q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l  682 (799)
T KOG4162|consen  605 QPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI--DPL  682 (799)
T ss_pred             cccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc--chh
Confidence            00111122222221111   1111111112222222233      345667777888899999999888887764  443


Q ss_pred             -HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCChHHHHH--HHHhC-CCCC-ChhHHHH
Q 044628          465 -SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRVGLLVEAYD--LLASM-PIEP-RSDTLGA  538 (665)
Q Consensus       465 -~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~-~~~p-~~~~~~~  538 (665)
                       ...|......+...|.+++|.+.|.....   +.|+ +....++..++.+.|+..-|.+  ++..+ .+.| +...|..
T Consensus       683 ~~~~~~~~G~~~~~~~~~~EA~~af~~Al~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~  759 (799)
T KOG4162|consen  683 SASVYYLRGLLLEVKGQLEEAKEAFLVALA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYY  759 (799)
T ss_pred             hHHHHHHhhHHHHHHHhhHHHHHHHHHHHh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHH
Confidence             34565566677888999999999998875   5665 6678899999999998888877  88887 6777 5789999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                      |...+.+.|+.++|-..|..++++++.+|.
T Consensus       760 LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  760 LGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            999999999999999999999999988764

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.01  E-value=2.7e-06  Score=81.90  Aligned_cols=280  Identities=13%  Similarity=0.008  Sum_probs=179.9

Q ss_pred             CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHH----HHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHH
Q 044628          327 KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVT----LASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIE  402 (665)
Q Consensus       327 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t----~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~  402 (665)
                      .|+.....+...+...|+.++|+..|++.+..  .|+..+    |..+   +.+.|+.+....+...+....-. +...|
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~L---L~~eg~~e~~~~L~~~Lf~~~~~-ta~~w  303 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVL---LGQEGGCEQDSALMDYLFAKVKY-TASHW  303 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHH---HHhccCHhhHHHHHHHHHhhhhc-chhhh
Confidence            35666777778888888888888888876653  344332    2222   24556666666665555432211 11111


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcC
Q 044628          403 NALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHG  478 (665)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~  478 (665)
                      -.-........+++.|+.+-++..+   .++..+-.-...+.+.|+.++|.-.|+..+..  .| +...|..|+.+|...
T Consensus       304 fV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--ap~rL~~Y~GL~hsYLA~  381 (564)
T KOG1174|consen  304 FVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQML--APYRLEIYRGLFHSYLAQ  381 (564)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhc--chhhHHHHHHHHHHHHhh
Confidence            1112223345667777777666553   34444444455677778888888888887764  55 456788888888888


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHH-HHHH-hcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHH
Q 044628          479 GLVSEGLRYFNLMISDYHILPDSEHYTCLT-DLLG-RVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKW  554 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~  554 (665)
                      |.+.+|.-.-+...+  -+.-+..+...+. +.+. ..---++|.+++++. .++|+ ......+...|...|..+.++.
T Consensus       382 ~~~kEA~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  382 KRFKEANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             chHHHHHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHH
Confidence            888888777666655  2334455444432 2222 122246777888777 67776 4456666677888888888888


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeEEEECCEEEEEEeCCCCCcchHHHHHHHH
Q 044628          555 AAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLC  634 (665)
Q Consensus       555 ~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~i~~~~~~~~f~~~~~~~~~~~~~~~~l~  634 (665)
                      ++++.+...|+ ...++.|++++.....+.+|.+.|.....                          .+|+.+....-++
T Consensus       460 LLe~~L~~~~D-~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--------------------------~dP~~~~sl~Gl~  512 (564)
T KOG1174|consen  460 LLEKHLIIFPD-VNLHNHLGDIMRAQNEPQKAMEYYYKALR--------------------------QDPKSKRTLRGLR  512 (564)
T ss_pred             HHHHHHhhccc-cHHHHHHHHHHHHhhhHHHHHHHHHHHHh--------------------------cCccchHHHHHHH
Confidence            88888888886 47778888888888888888888876653                          4556666677777


Q ss_pred             HHHHHHHhh
Q 044628          635 TVFGLMEEN  643 (665)
Q Consensus       635 ~l~~~~~~~  643 (665)
                      .+.+++++.
T Consensus       513 ~lEK~~~~~  521 (564)
T KOG1174|consen  513 LLEKSDDES  521 (564)
T ss_pred             HHHhccCCC
Confidence            888777644

>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=99.00  E-value=4.9e-06  Score=86.90  Aligned_cols=411  Identities=13%  Similarity=0.066  Sum_probs=245.4

Q ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCc--h-hHHHHHHHHHhc-----C
Q 044628          171 ACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDL--V-LWNVMVSCYALN-----C  242 (665)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~-~~~~li~~~~~~-----g  242 (665)
                      .+...|++++|.+.+..-.+. +.............|.+.|+.++|..++..+..+|+  . -|..+..+....     .
T Consensus        13 il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~   91 (517)
T PF12569_consen   13 ILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSDE   91 (517)
T ss_pred             HHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccccc
Confidence            356778999999988765543 333466677778899999999999999999865433  3 444555554222     2


Q ss_pred             CchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCC-cHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          243 LGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGS-SKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVF  321 (665)
Q Consensus       243 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  321 (665)
                      ..+...++|+++...-  |.......+.-.+..... -..+...+...++.|+|+   +++.|-..|......+-..+++
T Consensus        92 ~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   92 DVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             cHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHH
Confidence            4566788888886643  444333333222222112 234556666777777543   4555666666555544444554


Q ss_pred             hccC------------------CCCch--hHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCH-HHHHHHHHHhCCCCch
Q 044628          322 DGMT------------------AKNVV--SWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDE-VTLASILSSCGSLSIS  380 (665)
Q Consensus       322 ~~~~------------------~~~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~  380 (665)
                      ....                  .|...  +|..+...|-..|++++|++.+++.+..  .|+. ..|..-...+-+.|++
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCH
Confidence            4431                  12222  3456677888999999999999998885  4664 4566666778899999


Q ss_pred             HhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh----------hHHH--HHHHHHHhcCChHH
Q 044628          381 CETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDL----------VTWT--SIIGAYAFHGLSKE  448 (665)
Q Consensus       381 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----------~~~~--~li~~~~~~g~~~~  448 (665)
                      .+|...++.....+ ..|..+-+-.+..+.++|++++|.+++....+++.          ..|-  ....+|.+.|++..
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 KEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGL  323 (517)
T ss_pred             HHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            99999999888766 34566666777888999999999999888775441          1343  34677899999999


Q ss_pred             HHHHHHHHHHc--CC---CCCHHH----------HHHHHHHHhcCC-------cHHHHHHHHHHHHHhcCCCCCh-----
Q 044628          449 SIEVFEKMLSH--AV---RPDSIA----------FLEVLSACSHGG-------LVSEGLRYFNLMISDYHILPDS-----  501 (665)
Q Consensus       449 A~~~~~~m~~~--g~---~p~~~t----------~~~ll~a~~~~g-------~~~~a~~~~~~~~~~~~~~p~~-----  501 (665)
                      |++-|....+.  .+   +-|-.+          |..+++..-+..       -...|++++-.+-.........     
T Consensus       324 ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~  403 (517)
T PF12569_consen  324 ALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEAD  403 (517)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccc
Confidence            98887776652  11   223222          223332221111       1123444444443210000000     


Q ss_pred             ------hhHHHHHHHH---HhcCChHHHHHHHH-----------hC----CCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 044628          502 ------EHYTCLTDLL---GRVGLLVEAYDLLA-----------SM----PIEPRSDTLGAFIGACKVHGSIGLAKWAAE  557 (665)
Q Consensus       502 ------~~~~~l~~~~---~~~g~~~~A~~~~~-----------~~----~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  557 (665)
                            .--..+..-.   .+...-+++...-.           ..    +.+.|......-+.  ....=+++|.+.++
T Consensus       404 ~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp~GekL~--~t~dPLe~A~kfl~  481 (517)
T PF12569_consen  404 NENMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDPLGEKLL--KTEDPLEEAMKFLK  481 (517)
T ss_pred             cccCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCccHHHHh--cCCcHHHHHHHHHH
Confidence                  0000000000   11111112221110           00    11222222222111  12334688999999


Q ss_pred             HHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          558 KLLELEPSKPVNYALVSNVYASERCWFDVARLRKM  592 (665)
Q Consensus       558 ~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~  592 (665)
                      -+.+..|++..+|..-.++|.+.|++--|.+.+.+
T Consensus       482 pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  482 PLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            99999999999999999999999999988877653

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 [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.00  E-value=2e-07  Score=91.98  Aligned_cols=201  Identities=11%  Similarity=0.003  Sum_probs=131.7

Q ss_pred             HhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHH
Q 044628          373 SCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKES  449 (665)
Q Consensus       373 ~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  449 (665)
                      .+...|+.+.|...+...++.. +.+...++.+...|...|++++|...|++..+   .+...|..+...+...|++++|
T Consensus        73 ~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA  151 (296)
T PRK11189         73 LYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELA  151 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            3444455555555554444433 23456677888889999999999999988763   3567888888889999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHH--HHHHHHhC
Q 044628          450 IEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVE--AYDLLASM  527 (665)
Q Consensus       450 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~--A~~~~~~~  527 (665)
                      ++.|++..+.  .|+..........+...++.++|.+.|+....  ...|+...+ .++..  ..|+..+  +.+.+.+.
T Consensus       152 ~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~~~~~~~~~-~~~~~--~lg~~~~~~~~~~~~~~  224 (296)
T PRK11189        152 QDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--KLDKEQWGW-NIVEF--YLGKISEETLMERLKAG  224 (296)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--hCCccccHH-HHHHH--HccCCCHHHHHHHHHhc
Confidence            9999999985  56543222222234556789999999977654  233433222 23333  3455433  33333322


Q ss_pred             -C----CCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCCchHHHHHHHHHhcC
Q 044628          528 -P----IEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEP-SKPVNYALVSNVYASER  581 (665)
Q Consensus       528 -~----~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~y~~~g  581 (665)
                       .    ..| ....|..+...+...|+.++|+..|+++++.+| +...+-..++......+
T Consensus       225 ~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~~~~~e~~~~~~  285 (296)
T PRK11189        225 ATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHRYALLELALLGQ  285 (296)
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHh
Confidence             1    112 245788899999999999999999999999997 44455455555544433

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.95  E-value=1.6e-08  Score=93.84  Aligned_cols=232  Identities=13%  Similarity=0.104  Sum_probs=173.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCC--CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCC
Q 044628          299 LVATSLVDMYAKNGNIDDACRVFDGMTA--KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGS  376 (665)
Q Consensus       299 ~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  376 (665)
                      .--+-+..+|.+.|.+.+|.+.|+.-.+  +-+.||-.|-..|.+..+++.|+.+|.+-.+  ..|..+||..       
T Consensus       224 wWk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~-------  294 (478)
T KOG1129|consen  224 WWKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLL-------  294 (478)
T ss_pred             HHHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhh-------
Confidence            3346788888899999999888887653  6677888888889999999999988887766  3577777642       


Q ss_pred             CCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHH
Q 044628          377 LSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVF  453 (665)
Q Consensus       377 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~  453 (665)
                                                 .....+-..++.++|.++++...+   .++....++..+|...++++-|+..|
T Consensus       295 ---------------------------g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryY  347 (478)
T KOG1129|consen  295 ---------------------------GQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYY  347 (478)
T ss_pred             ---------------------------hhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHH
Confidence                                       223344455667777777776653   56666667777888888889999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCChHHHHHHHHhC-CCC
Q 044628          454 EKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD--SEHYTCLTDLLGRVGLLVEAYDLLASM-PIE  530 (665)
Q Consensus       454 ~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  530 (665)
                      +++.+.|+. +...|..+.-+|...+.+|-++.-|++.... --.|+  ..+|-.+.......|++.-|.+.|+-. ...
T Consensus       348 RRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d  425 (478)
T KOG1129|consen  348 RRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD  425 (478)
T ss_pred             HHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC
Confidence            988888854 5667777878888888888888888888762 22243  556777777778888888888888877 333


Q ss_pred             C-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044628          531 P-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       531 p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                      | ....++.|.-.-.+.|++++|+.+++.+..+.|+-.+
T Consensus       426 ~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m~E  464 (478)
T KOG1129|consen  426 AQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDMAE  464 (478)
T ss_pred             cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCccccc
Confidence            4 3667888777777888999999998888888887443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.95  E-value=2.5e-05  Score=83.33  Aligned_cols=461  Identities=15%  Similarity=0.151  Sum_probs=268.1

Q ss_pred             HHHHHHHhhcCCChHHHHHHHcccCC--CCc-----ccHHHHHHHHHhCCCCc-hHHHHHhhhCCCCCCcchHHHHHHHH
Q 044628          101 QNQVLHVYVKCKAFDDMEKLFDEMRV--RNI-----VTWNTLISGIINCGGNV-TPYFRRMLLDNVRLDHITFNSLLRAC  172 (665)
Q Consensus       101 ~~~li~~~~~~g~~~~A~~~f~~~~~--~~~-----~~~~~li~~~~~~~~~~-~~~~~~m~~~g~~p~~~t~~~ll~~~  172 (665)
                      +..+...+.++|-...|++.+..+..  +.+     ..=..++..+.+..-.+ ++.++.|...+++-|..+...+..-|
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky  688 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKY  688 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            56677888899999999988887751  221     11223344444433333 88899998888888877777766666


Q ss_pred             hcCCChHHHHHHHHHHHHh-----------CCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC---------------
Q 044628          173 VQADDIEVGRRLHSFILKV-----------GFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR---------------  226 (665)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~-----------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---------------  226 (665)
                      ...--.+.-.++|+.....           ++.-|+.+.-..|.+-|+.|++.+.+++.++-..-               
T Consensus       689 ~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL~  768 (1666)
T KOG0985|consen  689 HEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKLT  768 (1666)
T ss_pred             HHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhcccc
Confidence            6554455555555554432           24557777778899999999999998887654110               


Q ss_pred             ----------------CchhH------HHHHHHHHhcCCchHHHHHHHHHHHCCCCC-----------CHhhHHHHHHHH
Q 044628          227 ----------------DLVLW------NVMVSCYALNCLGDGAIAVFNLMRLEGMKG-----------DYFTFSSLVNSC  273 (665)
Q Consensus       227 ----------------~~~~~------~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-----------~~~t~~~ll~~~  273 (665)
                                      |.+.|      -..|..|++.=++...-.+.-.+.+....-           ..+....+..-+
T Consensus       769 DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~ik~Li~~v~gq~~~deLv~Ev  848 (1666)
T KOG0985|consen  769 DQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFIKNLILSVRGQFPVDELVEEV  848 (1666)
T ss_pred             ccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHHHHHHHHHhccCChHHHHHHH
Confidence                            11111      123445555443333322222222211100           001112233334


Q ss_pred             hccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH------------------------------------
Q 044628          274 GTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDA------------------------------------  317 (665)
Q Consensus       274 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A------------------------------------  317 (665)
                      .+.+++..-...++..+..| ..|..++|+|...|...++-.+-                                    
T Consensus       849 EkRNRLklLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD~  927 (1666)
T KOG0985|consen  849 EKRNRLKLLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQCDL  927 (1666)
T ss_pred             HhhhhHHHHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccCCcH
Confidence            45555666666666777777 56777788877766644322111                                    


Q ss_pred             ----------------HHHHhccC-----------------------------CCCchhHHHHHHHHHcCCChHHHHHHH
Q 044628          318 ----------------CRVFDGMT-----------------------------AKNVVSWNTMVVGFGQNGDGREAVKLL  352 (665)
Q Consensus       318 ----------------~~~~~~~~-----------------------------~~~~~~~~~li~~~~~~g~~~~A~~~~  352 (665)
                                      +-+.+++.                             ..|+..-+.-+.++...+-+.+-++++
T Consensus       928 elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELL 1007 (1666)
T KOG0985|consen  928 ELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELL 1007 (1666)
T ss_pred             HHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHH
Confidence                            00000000                             012223333445555566666666666


Q ss_pred             HHHhhCCCC--CCHHHHHHHHHH---------------------------hCCCCchHhHHHHHHHHHHhCCCCchhHHH
Q 044628          353 RDMLQGSFC--PDEVTLASILSS---------------------------CGSLSISCETRQVHAYAIKNGVQAFLSIEN  403 (665)
Q Consensus       353 ~~m~~~g~~--p~~~t~~~ll~~---------------------------~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~  403 (665)
                      ++..-..-.  -+...-+.++-.                           +...+-+++|..+|...     ..+....+
T Consensus      1008 EKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf-----~~n~~A~~ 1082 (1666)
T KOG0985|consen 1008 EKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKF-----DMNVSAIQ 1082 (1666)
T ss_pred             HHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHh-----cccHHHHH
Confidence            665432100  000011111100                           01111122222222111     11111111


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH
Q 044628          404 ALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSE  483 (665)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  483 (665)
                      .||+   ..+.++.|.+.-++..  ....|..+..+-.+.|...+|++-|-+      .-|+..|..+++.+.+.|.+++
T Consensus      1083 VLie---~i~~ldRA~efAe~~n--~p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~ed 1151 (1666)
T KOG0985|consen 1083 VLIE---NIGSLDRAYEFAERCN--EPAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYED 1151 (1666)
T ss_pred             HHHH---HhhhHHHHHHHHHhhC--ChHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHH
Confidence            1211   2234444444444433  456799999999999999999887744      2366789999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044628          484 GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELE  563 (665)
Q Consensus       484 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  563 (665)
                      -.+++....++ .-+|.++  +.|+-+|++.+++.|-++++.    .|+..-...+..-|...|.++.|+-++..     
T Consensus      1152 Lv~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~----- 1219 (1666)
T KOG0985|consen 1152 LVKYLLMARKK-VREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYSN----- 1219 (1666)
T ss_pred             HHHHHHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHHH-----
Confidence            99999888763 5556655  578999999999999888875    37777788888899999999998887763     


Q ss_pred             CCCCchHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          564 PSKPVNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       564 p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                         .+.|..|+..+...|.+..|...-++.
T Consensus      1220 ---vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1220 ---VSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             ---hhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence               456777777888888877776654444

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.92  E-value=1e-05  Score=82.60  Aligned_cols=415  Identities=13%  Similarity=0.008  Sum_probs=211.6

Q ss_pred             cCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC---CchhHHHHHHHHHhcCCchHHHHH
Q 044628          174 QADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR---DLVLWNVMVSCYALNCLGDGAIAV  250 (665)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~  250 (665)
                      ..+++..+.+..+.+++ +.+....+....--.+...|+-++|......-...   +.+.|..+.-.+-...++++|++.
T Consensus        19 E~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   19 ETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHH
Confidence            44555666666555555 22222222222222244456666666666554432   445677666666666777777777


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC----
Q 044628          251 FNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA----  326 (665)
Q Consensus       251 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----  326 (665)
                      |+.....+ +-|...+.-+--.-++.++++..........+.. +.....|..+.-++.-.|+...|..+.+...+    
T Consensus        98 y~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~  175 (700)
T KOG1156|consen   98 YRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNT  175 (700)
T ss_pred             HHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            77666543 1233334333333345555555555544444432 33344555566666666666666666554432    


Q ss_pred             -CCchhHHH------HHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHH-HHHHHhCCCCchHhHHHHHHHHHHhCCCCc
Q 044628          327 -KNVVSWNT------MVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLA-SILSSCGSLSISCETRQVHAYAIKNGVQAF  398 (665)
Q Consensus       327 -~~~~~~~~------li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~-~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~  398 (665)
                       ++...+.-      ........|..++|++.+..-...  ..|...+. +-...+.+.+++++|..++..++... +.+
T Consensus       176 ~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn-Pdn  252 (700)
T KOG1156|consen  176 SPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN-PDN  252 (700)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC-chh
Confidence             22222211      123344556666666655543321  11222221 11222445566666666666665543 222


Q ss_pred             hhHHHHHHHHHHhcCCHHHHH-HHHhcCCC--CChhHHHHHHHHHHh-cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044628          399 LSIENALINAYSKCGSIAGAL-QCFGSVKE--PDLVTWTSIIGAYAF-HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA  474 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~-~~~~~~~~--~~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  474 (665)
                      ...|-.+..++++-.+.-++. .+|....+  |-...-..+--.... ....+..-+.+..+.+.|+.+-...+.++.  
T Consensus       253 ~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLy--  330 (700)
T KOG1156|consen  253 LDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLY--  330 (700)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHH--
Confidence            333333344443333333333 44444432  000000000000111 112233344556666677655333333332  


Q ss_pred             HhcCCcHHH----HHHHHHHHHHhcC----------CCCChhhH--HHHHHHHHhcCChHHHHHHHHhC-CCCCChh-HH
Q 044628          475 CSHGGLVSE----GLRYFNLMISDYH----------ILPDSEHY--TCLTDLLGRVGLLVEAYDLLASM-PIEPRSD-TL  536 (665)
Q Consensus       475 ~~~~g~~~~----a~~~~~~~~~~~~----------~~p~~~~~--~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~  536 (665)
                       -.-...+-    +..+...+.. .|          -+|....|  -.++..+-+.|+++.|+..++.+ +..|..+ .|
T Consensus       331 -k~p~k~~~le~Lvt~y~~~L~~-~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly  408 (700)
T KOG1156|consen  331 -KDPEKVAFLEKLVTSYQHSLSG-TGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELY  408 (700)
T ss_pred             -hchhHhHHHHHHHHHHHhhccc-ccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHH
Confidence             22111111    1111111111 11          13454444  45677788999999999999988 6666633 44


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          537 GAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       537 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      ..=.+.+...|+++.|-..++++.+++-.|...-.--+.-..++.+.++|.++.....+.|.
T Consensus       409 ~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  409 LVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            44457788889999999999999999876544444677777889999999999887776653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.90  E-value=3.5e-05  Score=82.21  Aligned_cols=475  Identities=12%  Similarity=0.123  Sum_probs=269.3

Q ss_pred             HHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCchH
Q 044628           69 ALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTP  148 (665)
Q Consensus        69 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~~~  148 (665)
                      |..-+-+.+++..-...++..+..|. .++.++|+|...|...++-.+  +.+.+-    ..-=+..+.-||..+++.+.
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG~-~d~a~hnAlaKIyIDSNNnPE--~fLkeN----~yYDs~vVGkYCEKRDP~lA  916 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEGS-QDPATHNALAKIYIDSNNNPE--RFLKEN----PYYDSKVVGKYCEKRDPHLA  916 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhccC-cchHHHhhhhheeecCCCChH--HhcccC----CcchhhHHhhhhcccCCceE
Confidence            44445566777777777888888885 688999999999988765433  222222    22122334455555544210


Q ss_pred             --HHHHhhh----CCCCCCcchHHHHHHHHhcCCChH-----------HHHHHHHHHHHhCCC--CchHHHHHHHHHHHh
Q 044628          149 --YFRRMLL----DNVRLDHITFNSLLRACVQADDIE-----------VGRRLHSFILKVGFG--LNCFVSSALVDLYGK  209 (665)
Q Consensus       149 --~~~~m~~----~g~~p~~~t~~~ll~~~~~~~~~~-----------~a~~~~~~~~~~g~~--~~~~~~~~li~~~~~  209 (665)
                        .+++=..    -.+.-....|....+-+.+..|.+           --+++.++.++.+++  .|+.-.+..+.++..
T Consensus       917 ~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMt  996 (1666)
T KOG0985|consen  917 CVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMT  996 (1666)
T ss_pred             EEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHh
Confidence              0000000    001111122222223233333322           224566667766653  356666777888888


Q ss_pred             CCChHHHHHHHhccC-CCCch-----hHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHH
Q 044628          210 CGFVEDARRVFDEVL-CRDLV-----LWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGR  283 (665)
Q Consensus       210 ~g~~~~A~~~~~~~~-~~~~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  283 (665)
                      .+-..+-+++++.+. ++++.     .-|.||-.-.+ .+.....+..+++-.-. .|+      +...+...+-+++|.
T Consensus       997 adLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyD-a~~------ia~iai~~~LyEEAF 1068 (1666)
T KOG0985|consen  997 ADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYD-APD------IAEIAIENQLYEEAF 1068 (1666)
T ss_pred             cCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCC-chh------HHHHHhhhhHHHHHH
Confidence            888888888888773 33222     23334433333 23445555555543321 122      233344555667777


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCC
Q 044628          284 QIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD  363 (665)
Q Consensus       284 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  363 (665)
                      .+|...     ..+....+.||+   .-+.++.|.+.-++..+|  ..|..+..+-.+.|...+|++-|-+.      -|
T Consensus      1069 ~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~~~v~dAieSyika------dD 1132 (1666)
T KOG0985|consen 1069 AIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQGGLVKDAIESYIKA------DD 1132 (1666)
T ss_pred             HHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhcCchHHHHHHHHhc------CC
Confidence            777653     344455555553   346777787777777655  45888888888888888888887543      35


Q ss_pred             HHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC----------------
Q 044628          364 EVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE----------------  427 (665)
Q Consensus       364 ~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------------  427 (665)
                      ...|.-++..+++.|.+++-...+....+..-+|.+.  +.||-+|+|.+++.+-+++...-..                
T Consensus      1133 ps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~gpN~A~i~~vGdrcf~~~~y 1210 (1666)
T KOG0985|consen 1133 PSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIAGPNVANIQQVGDRCFEEKMY 1210 (1666)
T ss_pred             cHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhcCCCchhHHHHhHHHhhhhhh
Confidence            6678888888888888888888888777776666554  5788888888888776655432110                


Q ss_pred             -------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC
Q 044628          428 -------PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD  500 (665)
Q Consensus       428 -------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~  500 (665)
                             .++.-|..|...+...|++..|...-++.      .+..||..+-.+|...+.+.-|.     |.. .++...
T Consensus      1211 ~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlAQ-----iCG-L~iivh 1278 (1666)
T KOG0985|consen 1211 EAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLAQ-----ICG-LNIIVH 1278 (1666)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHHH-----hcC-ceEEEe
Confidence                   23444555666666666666665544332      23456777777777665554442     221 122234


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHh-cCCCCCchHHHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLE-LEPSKPVNYALVSNVY  577 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~y  577 (665)
                      .+-..-++..|...|.++|-+.+++.. +.+.- -..|.-|.-.|.+. +.++-.+.++-... ++      .--+..+.
T Consensus      1279 adeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky-kp~km~EHl~LFwsRvN------ipKviRA~ 1351 (1666)
T KOG0985|consen 1279 ADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY-KPEKMMEHLKLFWSRVN------IPKVIRAA 1351 (1666)
T ss_pred             hHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhcc------hHHHHHHH
Confidence            445666777777888888887777766 44332 22344444334333 33333333332221 11      11244555


Q ss_pred             HhcCCHHHHHHHHHHHhh
Q 044628          578 ASERCWFDVARLRKMMRD  595 (665)
Q Consensus       578 ~~~g~~~~A~~~~~~m~~  595 (665)
                      .++.-|.|..=++.+-.+
T Consensus      1352 eqahlW~ElvfLY~~y~e 1369 (1666)
T KOG0985|consen 1352 EQAHLWSELVFLYDKYEE 1369 (1666)
T ss_pred             HHHHHHHHHHHHHHhhhh
Confidence            566667776666655443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.90  E-value=2.1e-06  Score=80.84  Aligned_cols=411  Identities=16%  Similarity=0.097  Sum_probs=229.5

Q ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC---CchhHHHHHHHHHhcCCchHH
Q 044628          171 ACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR---DLVLWNVMVSCYALNCLGDGA  247 (665)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A  247 (665)
                      -+...+|+..|..+++.-...+-+-...+-.-+..+|...|++++|...+.-+...   +...|-.|..++.-.|.+.+|
T Consensus        31 dfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA  110 (557)
T KOG3785|consen   31 DFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEA  110 (557)
T ss_pred             HHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHH
Confidence            34455666667666666554432222233333445666777777777777655332   344555566666666677777


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC-
Q 044628          248 IAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA-  326 (665)
Q Consensus       248 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-  326 (665)
                      ..+-.+..+     +.-.-..++...-+.++-++-...++.+...     ..-.-+|..+.-..-.+++|++++.++.. 
T Consensus       111 ~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  111 KSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            665544321     2222333444444556666666665554432     12223344444444567777777777654 


Q ss_pred             -CCchhHHH-HHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCC----CCchH--hHHH----------HHH
Q 044628          327 -KNVVSWNT-MVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGS----LSISC--ETRQ----------VHA  388 (665)
Q Consensus       327 -~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~--~a~~----------i~~  388 (665)
                       |+....|. |.-+|.+..-++-+.+++.--.+.  -||.. +..=+.+|..    .|+..  +-..          ...
T Consensus       181 n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdSt-iA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~  257 (557)
T KOG3785|consen  181 NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDST-IAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIE  257 (557)
T ss_pred             ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcH-HHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHH
Confidence             33333333 334555666666666665554442  23332 2222222211    11110  0011          111


Q ss_pred             HHHHhCC------CC-----------chhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCC------
Q 044628          389 YAIKNGV------QA-----------FLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGL------  445 (665)
Q Consensus       389 ~~~~~g~------~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~------  445 (665)
                      ++.++++      +.           -+..--.|+--|.+.+++++|..+.+++....+.-|-.-.-.++.+|+      
T Consensus       258 ~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSre  337 (557)
T KOG3785|consen  258 YLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSRE  337 (557)
T ss_pred             HHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHH
Confidence            2222111      00           011222355568899999999999998876554444333333444443      


Q ss_pred             -hHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHH
Q 044628          446 -SKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL  523 (665)
Q Consensus       446 -~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  523 (665)
                       ..-|.+.|+-.-+++..-|.+ --.++.+++.-...+++.+-+++.+.. +-...|...+ .+..+++..|.+.+|+++
T Consensus       338 HlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~s-YF~NdD~Fn~-N~AQAk~atgny~eaEel  415 (557)
T KOG3785|consen  338 HLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIES-YFTNDDDFNL-NLAQAKLATGNYVEAEEL  415 (557)
T ss_pred             HHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcchhhh-HHHHHHHHhcChHHHHHH
Confidence             334555665555555444433 234455555556778899999888877 4444444444 578999999999999999


Q ss_pred             HHhC-CCC-CChhHHHHHHH-HHHhcCCHHHHHHHHHHHHhcC-CCC-CchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          524 LASM-PIE-PRSDTLGAFIG-ACKVHGSIGLAKWAAEKLLELE-PSK-PVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       524 ~~~~-~~~-p~~~~~~~ll~-~~~~~g~~~~a~~~~~~~~~~~-p~~-~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      |-+. +.+ .|..+|.+++. ++.+.+..+.|..+   +++.+ |.+ ......+++.+.+++.+=-|.+.|+.+...++
T Consensus       416 f~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~---~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  416 FIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDM---MLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             HhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHH---HHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            9888 222 46777877774 45667788777554   45544 322 23445678889999999999999999987654


Q ss_pred             c
Q 044628          599 H  599 (665)
Q Consensus       599 ~  599 (665)
                      .
T Consensus       493 ~  493 (557)
T KOG3785|consen  493 T  493 (557)
T ss_pred             C
Confidence            3

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.89  E-value=6.8e-05  Score=75.93  Aligned_cols=211  Identities=9%  Similarity=0.005  Sum_probs=128.9

Q ss_pred             HHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHH--HHHHHHhCCCCc-
Q 044628           70 LKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNT--LISGIINCGGNV-  146 (665)
Q Consensus        70 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~--li~~~~~~~~~~-  146 (665)
                      +.-....+.+++|.+....++..+ +-+.....+-+-+....+++++|+.+...-..-  .++|.  +=.+||.-.... 
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccH
Confidence            345567788999999999888866 566677777777888999999999776654321  12222  356666544333 


Q ss_pred             ---hHHHHHhhhCCCCCCcc-hHHHHHHHHhcCCChHHHHHHHHHHHHhCCCC-chHHHHHHHHHHHhCCChHHHHHHHh
Q 044628          147 ---TPYFRRMLLDNVRLDHI-TFNSLLRACVQADDIEVGRRLHSFILKVGFGL-NCFVSSALVDLYGKCGFVEDARRVFD  221 (665)
Q Consensus       147 ---~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~  221 (665)
                         +..+.     |..++.. +...-...|-+.+++++|..+|..+.+++.+. |...-..++..-.    .-.+. +.+
T Consensus        96 Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a----~l~~~-~~q  165 (652)
T KOG2376|consen   96 DEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA----ALQVQ-LLQ  165 (652)
T ss_pred             HHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----hhhHH-HHH
Confidence               33333     5555443 55555566889999999999999999987442 2222222322211    11121 344


Q ss_pred             ccCCCCchhHHHH---HHHHHhcCCchHHHHHHHHHHHCC-------CCCCH------hh-HHHHHHHHhccCCcHHHHH
Q 044628          222 EVLCRDLVLWNVM---VSCYALNCLGDGAIAVFNLMRLEG-------MKGDY------FT-FSSLVNSCGTLGSSKLGRQ  284 (665)
Q Consensus       222 ~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g-------~~p~~------~t-~~~ll~~~~~~~~~~~a~~  284 (665)
                      ..+.....+|..+   ...++..|++.+|++++....+.+       -.-+.      .+ -..+.-.+-..|+.++|..
T Consensus       166 ~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  166 SVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             hccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence            4443333344433   456778999999999998873221       11111      11 1122233456788889999


Q ss_pred             HHHHHHHhC
Q 044628          285 IHGLVIKQS  293 (665)
Q Consensus       285 ~~~~~~~~g  293 (665)
                      ++..+++..
T Consensus       246 iy~~~i~~~  254 (652)
T KOG2376|consen  246 IYVDIIKRN  254 (652)
T ss_pred             HHHHHHHhc
Confidence            888888876

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.87  E-value=3.1e-07  Score=89.19  Aligned_cols=156  Identities=16%  Similarity=0.121  Sum_probs=116.9

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh----cCCc
Q 044628          405 LINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS----HGGL  480 (665)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~----~~g~  480 (665)
                      ...+|...|++++|.+++.+.  .+.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++.    ..+.
T Consensus       108 ~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~  182 (290)
T PF04733_consen  108 AATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGEK  182 (290)
T ss_dssp             HHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCchh
Confidence            345677889999999888876  56677777889999999999999999999874  344 34444444432    3347


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCH-HHHHHHHH
Q 044628          481 VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSI-GLAKWAAE  557 (665)
Q Consensus       481 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~-~~a~~~~~  557 (665)
                      +.+|..+|+++..  ...+++...+.+..+....|++++|.+++++. ...| +..++..++-.+...|+. +.+.+...
T Consensus       183 ~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  183 YQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             CCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            8999999999877  45678888899999999999999999998887 4444 466777777777788877 77888999


Q ss_pred             HHHhcCCCCC
Q 044628          558 KLLELEPSKP  567 (665)
Q Consensus       558 ~~~~~~p~~~  567 (665)
                      ++....|+++
T Consensus       261 qL~~~~p~h~  270 (290)
T PF04733_consen  261 QLKQSNPNHP  270 (290)
T ss_dssp             HCHHHTTTSH
T ss_pred             HHHHhCCCCh
Confidence            9998999853

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.87  E-value=0.00013  Score=84.81  Aligned_cols=150  Identities=9%  Similarity=-0.105  Sum_probs=66.3

Q ss_pred             HHhCCChHHHHHHHhccCCCCchh--HHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHH
Q 044628          207 YGKCGFVEDARRVFDEVLCRDLVL--WNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQ  284 (665)
Q Consensus       207 ~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  284 (665)
                      |...|++.+|..........+...  ...........|+++.+...+..+.......+..........+...|+.+++..
T Consensus       351 ~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~  430 (903)
T PRK04841        351 WLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNT  430 (903)
T ss_pred             HHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHH
Confidence            455566665555554443332111  111122334456666665655554221111111122222333445566777766


Q ss_pred             HHHHHHHhCCC------Cc--hhHHHHHHHHHHhcCCHHHHHHHHhccCC----CCc----hhHHHHHHHHHcCCChHHH
Q 044628          285 IHGLVIKQSFD------LD--VLVATSLVDMYAKNGNIDDACRVFDGMTA----KNV----VSWNTMVVGFGQNGDGREA  348 (665)
Q Consensus       285 ~~~~~~~~g~~------~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~li~~~~~~g~~~~A  348 (665)
                      .+..+...--.      +.  ......+...+...|++++|...+++..+    .+.    ..++.+...+...|++++|
T Consensus       431 ~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A  510 (903)
T PRK04841        431 LLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARA  510 (903)
T ss_pred             HHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            66655432100      01  11112223344556666666666655322    111    1234444455556666666


Q ss_pred             HHHHHHHh
Q 044628          349 VKLLRDML  356 (665)
Q Consensus       349 ~~~~~~m~  356 (665)
                      ...+++..
T Consensus       511 ~~~~~~al  518 (903)
T PRK04841        511 LAMMQQTE  518 (903)
T ss_pred             HHHHHHHH
Confidence            66665554

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.86  E-value=8.9e-05  Score=75.94  Aligned_cols=446  Identities=15%  Similarity=0.104  Sum_probs=264.2

Q ss_pred             HHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCC---CCcccHHHHHHHHHhC
Q 044628           66 YSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRV---RNIVTWNTLISGIINC  142 (665)
Q Consensus        66 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~  142 (665)
                      |..++. |-..+.+..+....+.+++ +.+-...+....--.+...|+-++|......-..   ++.++|..+       
T Consensus        11 F~~~lk-~yE~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~-------   81 (700)
T KOG1156|consen   11 FRRALK-CYETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVL-------   81 (700)
T ss_pred             HHHHHH-HHHHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHH-------
Confidence            344444 4466777888888887777 4444444444333344556888888776554432   233344332       


Q ss_pred             CCCchHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhc
Q 044628          143 GGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDE  222 (665)
Q Consensus       143 ~~~~~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  222 (665)
                                                --.+....++++|.+.+..+.+.+ +.|...+.-|--.-++.|+++.....-..
T Consensus        82 --------------------------gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~  134 (700)
T KOG1156|consen   82 --------------------------GLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQ  134 (700)
T ss_pred             --------------------------HHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence                                      222334567888888888888765 33667777776667777787776665555


Q ss_pred             cC---CCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCC-CCCCHhhHHHHHH------HHhccCCcHHHHHHHHHHHHh
Q 044628          223 VL---CRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEG-MKGDYFTFSSLVN------SCGTLGSSKLGRQIHGLVIKQ  292 (665)
Q Consensus       223 ~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~------~~~~~~~~~~a~~~~~~~~~~  292 (665)
                      ..   ......|..+..++--.|+...|..++++..+.. -.|+...|.....      .....|..+.|.+.+..-...
T Consensus       135 LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~  214 (700)
T KOG1156|consen  135 LLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ  214 (700)
T ss_pred             HHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH
Confidence            43   3356789999999999999999999999987764 2456555543322      245667777776665543322


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCchhHHHHH-HHHHcCCChHHHH-HHHHHHhhCC---CCCCHH
Q 044628          293 SFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA--KNVVSWNTMV-VGFGQNGDGREAV-KLLRDMLQGS---FCPDEV  365 (665)
Q Consensus       293 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li-~~~~~~g~~~~A~-~~~~~m~~~g---~~p~~~  365 (665)
                       +......-..-.+.+.+.+++++|..++..+..  ||..-|+... .++.+-.+.-+++ .+|....+.-   -.|-..
T Consensus       215 -i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rl  293 (700)
T KOG1156|consen  215 -IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRL  293 (700)
T ss_pred             -HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhc
Confidence             122223334456778899999999999999876  4555555443 3443333334444 5555554321   111111


Q ss_pred             HHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH---H-HHHHHhcC--------------CC
Q 044628          366 TLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIA---G-ALQCFGSV--------------KE  427 (665)
Q Consensus       366 t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~---~-A~~~~~~~--------------~~  427 (665)
                      ..    +......-.+....++....+.|+++-   +..+...|-.....+   + +..+...+              ..
T Consensus       294 pl----svl~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~  366 (700)
T KOG1156|consen  294 PL----SVLNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEP  366 (700)
T ss_pred             cH----HHhCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCC
Confidence            11    111122223344455555666665542   233333332211111   0 11111111              12


Q ss_pred             CChhHHHH--HHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH
Q 044628          428 PDLVTWTS--IIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHY  504 (665)
Q Consensus       428 ~~~~~~~~--li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  504 (665)
                      |....|..  ++..|-..|+++.|...++..+.+  .|..+ -|..=.+.+.+.|++++|..++++..+  --.||...-
T Consensus       367 PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~e--lD~aDR~IN  442 (700)
T KOG1156|consen  367 PTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQE--LDTADRAIN  442 (700)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHh--ccchhHHHH
Confidence            55556655  566788889999999999998875  77765 455556778899999999999998876  233555444


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC---CCC--CC----hhHHHHHH--HHHHhcCCHHHHHHHHHHH
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASM---PIE--PR----SDTLGAFI--GACKVHGSIGLAKWAAEKL  559 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~---~~~--p~----~~~~~~ll--~~~~~~g~~~~a~~~~~~~  559 (665)
                      .--+.-..|+.+.++|.++....   +..  .+    .-.|-.+-  .+|.++|++.+|.+-+..+
T Consensus       443 sKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  443 SKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            35566778899999998887665   210  01    22344443  4577777777776544433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.83  E-value=2.2e-05  Score=80.81  Aligned_cols=176  Identities=16%  Similarity=0.094  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcC
Q 044628          401 IENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS--IAFLEVLSACSHG  478 (665)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~  478 (665)
                      .|-+-..-+-+.|++.+|.+++-.+..|+..     |..|-++|..+..+++.++-     .||.  .|...+..-+...
T Consensus       826 ~yiakaedldehgkf~eaeqlyiti~~p~~a-----iqmydk~~~~ddmirlv~k~-----h~d~l~dt~~~f~~e~e~~  895 (1636)
T KOG3616|consen  826 LYIAKAEDLDEHGKFAEAEQLYITIGEPDKA-----IQMYDKHGLDDDMIRLVEKH-----HGDHLHDTHKHFAKELEAE  895 (1636)
T ss_pred             HHHHhHHhHHhhcchhhhhheeEEccCchHH-----HHHHHhhCcchHHHHHHHHh-----ChhhhhHHHHHHHHHHHhc
Confidence            3333344455666677777776666666543     55666777777666665543     3333  3555555666666


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCC-C---ChhHHHHHH------HHHHhcCC
Q 044628          479 GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIE-P---RSDTLGAFI------GACKVHGS  548 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p---~~~~~~~ll------~~~~~~g~  548 (665)
                      |++..|.+.|-+...          |.+-+++|-..+.+++|.++-+.-+-. .   -...|..-+      ....++|-
T Consensus       896 g~lkaae~~flea~d----------~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksiggdaavkllnk~gl  965 (1636)
T KOG3616|consen  896 GDLKAAEEHFLEAGD----------FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSIGGDAAVKLLNKHGL  965 (1636)
T ss_pred             cChhHHHHHHHhhhh----------HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhhCcHHHHHHHHhhhh
Confidence            777777666655432          445566666666666666665544211 0   012232211      12234444


Q ss_pred             HHHHHHHH------HHHH-----hcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          549 IGLAKWAA------EKLL-----ELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       549 ~~~a~~~~------~~~~-----~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ++.|+...      +-++     .....-+.++..++..+...|++++|.+-+-...+.
T Consensus       966 l~~~id~a~d~~afd~afdlari~~k~k~~~vhlk~a~~ledegk~edaskhyveaikl 1024 (1636)
T KOG3616|consen  966 LEAAIDFAADNCAFDFAFDLARIAAKDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKL 1024 (1636)
T ss_pred             HHHHhhhhhcccchhhHHHHHHHhhhccCccchhHHhhhhhhccchhhhhHhhHHHhhc
Confidence            44443321      1111     112223456777777788888888887666555443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.82  E-value=1.3e-06  Score=77.84  Aligned_cols=162  Identities=15%  Similarity=0.070  Sum_probs=86.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcC
Q 044628          403 NALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHG  478 (665)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~  478 (665)
                      ..+...|.+.|+.+.|.+.|++..   ..+-...|....-+|..|++++|...|++....-.-|. ..||..+.-+..+.
T Consensus        73 ~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~  152 (250)
T COG3063          73 LVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKA  152 (250)
T ss_pred             HHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhc
Confidence            344445555555555555555443   23444455555555666666666666666655322222 13555555555566


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          479 GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAA  556 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  556 (665)
                      |+.+.|.++|++..+  -.+-.......+.+.....|++-.|..+++..  ...++..+....+..-...||.+.+-+.-
T Consensus       153 gq~~~A~~~l~raL~--~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~  230 (250)
T COG3063         153 GQFDQAEEYLKRALE--LDPQFPPALLELARLHYKAGDYAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQ  230 (250)
T ss_pred             CCchhHHHHHHHHHH--hCcCCChHHHHHHHHHHhcccchHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHH
Confidence            666666666666554  11222344555556666666666666666555  22345555545555555666666666665


Q ss_pred             HHHHhcCCCC
Q 044628          557 EKLLELEPSK  566 (665)
Q Consensus       557 ~~~~~~~p~~  566 (665)
                      .++...-|..
T Consensus       231 ~qL~r~fP~s  240 (250)
T COG3063         231 AQLQRLFPYS  240 (250)
T ss_pred             HHHHHhCCCc
Confidence            5555555654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.82  E-value=3.7e-06  Score=86.34  Aligned_cols=234  Identities=14%  Similarity=0.146  Sum_probs=154.1

Q ss_pred             HHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH
Q 044628          337 VGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIA  416 (665)
Q Consensus       337 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  416 (665)
                      ..+.+.|+++.|+..|-+...         ....+.+......+.+|..|.+.+......  ..-|..+.+-|+..|+++
T Consensus       714 ~hl~~~~q~daainhfiea~~---------~~kaieaai~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~dfe  782 (1636)
T KOG3616|consen  714 DHLEQIGQLDAAINHFIEANC---------LIKAIEAAIGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKGDFE  782 (1636)
T ss_pred             HHHHHHHhHHHHHHHHHHhhh---------HHHHHHHHhhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccchhHH
Confidence            345556677777766655421         223455556667788888888877665432  234556778888888888


Q ss_pred             HHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 044628          417 GALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYH  496 (665)
Q Consensus       417 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  496 (665)
                      .|.++|-+..     .++-.|..|.+.|++++|.++-.+..  |.......|..-..-.-..|++.+|.++|-.+..   
T Consensus       783 ~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~~---  852 (1636)
T KOG3616|consen  783 IAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIGE---  852 (1636)
T ss_pred             HHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEccC---
Confidence            8888887653     45556778888888888888766553  2233334555555567778888888887765533   


Q ss_pred             CCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 044628          497 ILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNV  576 (665)
Q Consensus       497 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  576 (665)
                        |+.     -|.+|-+.|..++.+++.++-.-..-..+-..+..-+...|++..|+..|-++        .-+..-.++
T Consensus       853 --p~~-----aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea--------~d~kaavnm  917 (1636)
T KOG3616|consen  853 --PDK-----AIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEA--------GDFKAAVNM  917 (1636)
T ss_pred             --chH-----HHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHHHhh--------hhHHHHHHH
Confidence              543     36778888888888888887621222445556666677788888887766543        335667788


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCccCCceeE
Q 044628          577 YASERCWFDVARLRKMMRDNCDHKVPGCSW  606 (665)
Q Consensus       577 y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~  606 (665)
                      |...+.|++|.++-+.--..+..|...+-|
T Consensus       918 yk~s~lw~dayriaktegg~n~~k~v~flw  947 (1636)
T KOG3616|consen  918 YKASELWEDAYRIAKTEGGANAEKHVAFLW  947 (1636)
T ss_pred             hhhhhhHHHHHHHHhccccccHHHHHHHHH
Confidence            888888888888765444444444444555

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.82  E-value=4.5e-06  Score=83.37  Aligned_cols=215  Identities=14%  Similarity=0.046  Sum_probs=134.8

Q ss_pred             HHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh----------HHHHHHH
Q 044628          369 SILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLV----------TWTSIIG  438 (665)
Q Consensus       369 ~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----------~~~~li~  438 (665)
                      .+.++.-+..+++.+.+-+...++..  .++.-++.....|...|.+.++...-+...+..-.          ....+..
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~  306 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGN  306 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhh
Confidence            34444445555666666666555544  44445555666666666666555544443321111          1122334


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCCh
Q 044628          439 AYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSE-HYTCLTDLLGRVGLL  517 (665)
Q Consensus       439 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~  517 (665)
                      +|.+.++++.|+..|.+....-..||..+         +....+++....+...   -+.|... --..=...+.+.|++
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt~~~ls---------~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gdy  374 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRTPDLLS---------KLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGDY  374 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcCHHHHH---------HHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccCH
Confidence            55666777777777777665433433221         1122333333333222   1333321 111124567788999


Q ss_pred             HHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          518 VEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       518 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .+|+..+.++ ...| |...|.....++.+.|++..|..-.+..++++|+....|..=+.++....+|++|.+.+++..+
T Consensus       375 ~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  375 PEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999888 4456 5777888888888999999999999999999999999999999999999999999999988876


Q ss_pred             CC
Q 044628          596 NC  597 (665)
Q Consensus       596 ~~  597 (665)
                      .+
T Consensus       455 ~d  456 (539)
T KOG0548|consen  455 LD  456 (539)
T ss_pred             cC
Confidence            54

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.81  E-value=3.9e-06  Score=87.70  Aligned_cols=125  Identities=14%  Similarity=0.063  Sum_probs=78.9

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGAC  543 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~  543 (665)
                      ++..+...|.+.|++++|+++.+..+.   ..|+ ++.|..-...|-+.|++++|.+.++.+ ...+. -.+-+-....+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~---htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~  272 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIE---HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYL  272 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHH
Confidence            334445566777777777777777776   3454 666777777777777777777777776 44443 33333344556


Q ss_pred             HhcCCHHHHHHHHHHHHhcC--CCC-------CchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          544 KVHGSIGLAKWAAEKLLELE--PSK-------PVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~--p~~-------~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      .+.|++++|+..+......+  |..       .....-.+.+|.+.|++..|.+.+..+.
T Consensus       273 LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  273 LRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             HHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            67777777777777665443  211       1122355677888888887777666554

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.79  E-value=1.6e-05  Score=74.85  Aligned_cols=287  Identities=12%  Similarity=0.110  Sum_probs=164.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhccCCCCchhHHHHH---HHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHH-HHHhCCCCc
Q 044628          304 LVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMV---VGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASI-LSSCGSLSI  379 (665)
Q Consensus       304 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~~~~~~~~  379 (665)
                      |...+.-.|++.+|+.-|....+-|+..|.++.   ..|...|+..-|+.-|.+..+  ++||-..-..- -..+.+.|.
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~vllK~Ge  121 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGVVLLKQGE  121 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhchhhhhccc
Confidence            344445556666666666666655555555443   345555666666665555554  34553321110 112345566


Q ss_pred             hHhHHHHHHHHHHhCCCCc--hh------------HHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHh
Q 044628          380 SCETRQVHAYAIKNGVQAF--LS------------IENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAF  442 (665)
Q Consensus       380 ~~~a~~i~~~~~~~g~~~~--~~------------~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  442 (665)
                      ++.|..=|+.+++......  ..            .....+..+.-.|+...|......+.+   .|...|..-..+|..
T Consensus       122 le~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i~  201 (504)
T KOG0624|consen  122 LEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYIA  201 (504)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHHh
Confidence            6666666666555432110  00            111122334456677777776666553   466666666777777


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChh----hHHHH---HH------
Q 044628          443 HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSE----HYTCL---TD------  509 (665)
Q Consensus       443 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~l---~~------  509 (665)
                      .|++..|+.-++..-+.. .-|..++.-+-..+...|+.+.++...++..+   +.||-.    +|..|   +.      
T Consensus       202 ~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK---ldpdHK~Cf~~YKklkKv~K~les~e  277 (504)
T KOG0624|consen  202 EGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLK---LDPDHKLCFPFYKKLKKVVKSLESAE  277 (504)
T ss_pred             cCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc---cCcchhhHHHHHHHHHHHHHHHHHHH
Confidence            777777776666655532 22334555555556667777777766666654   445422    12111   11      


Q ss_pred             HHHhcCChHHHHHHHHhC-CCCCCh--h---HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCH
Q 044628          510 LLGRVGLLVEAYDLLASM-PIEPRS--D---TLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCW  583 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~-~~~p~~--~---~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~  583 (665)
                      ...+.+++.++++-.+.. ..+|..  +   .+..+-.+++..+++.+|++...++++++|+|..++.--+.+|.....+
T Consensus       278 ~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~Y  357 (504)
T KOG0624|consen  278 QAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMY  357 (504)
T ss_pred             HHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHH
Confidence            123456666666665554 444441  1   2333345556778888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHhhC
Q 044628          584 FDVARLRKMMRDN  596 (665)
Q Consensus       584 ~~A~~~~~~m~~~  596 (665)
                      ++|+.-+++..+.
T Consensus       358 D~AI~dye~A~e~  370 (504)
T KOG0624|consen  358 DDAIHDYEKALEL  370 (504)
T ss_pred             HHHHHHHHHHHhc
Confidence            8888888777653

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.77  E-value=1.3e-05  Score=82.16  Aligned_cols=295  Identities=12%  Similarity=-0.016  Sum_probs=167.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccCC---CCchh---HHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHH-HHHH---
Q 044628          300 VATSLVDMYAKNGNIDDACRVFDGMTA---KNVVS---WNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEV-TLAS---  369 (665)
Q Consensus       300 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~---  369 (665)
                      .+..+...+...|+.+.+.+.+....+   ++...   .......+...|++++|.+.+++....  .|+.. .+..   
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~~~~   85 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDD--YPRDLLALKLHLG   85 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHhHH
Confidence            344444455555555554444443321   11111   222233455677777777777777654  23332 2221   


Q ss_pred             HHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCCh
Q 044628          370 ILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLS  446 (665)
Q Consensus       370 ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  446 (665)
                      ........+..+.+.+.... .....+........+...+...|++++|...+++..+   .+...+..+...|...|++
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH
Confidence            11111223444444444433 1111122233444556678888999999998888763   4566778888888899999


Q ss_pred             HHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH-H--HHHHHHHhcCChHHH
Q 044628          447 KESIEVFEKMLSHAV-RPDS--IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHY-T--CLTDLLGRVGLLVEA  520 (665)
Q Consensus       447 ~~A~~~~~~m~~~g~-~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-~--~l~~~~~~~g~~~~A  520 (665)
                      ++|...+++...... .|+.  ..+..+...+...|++++|..+++.........+..... +  .++..+...|..+.+
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~  244 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVG  244 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChH
Confidence            999999988877532 1232  235567777888999999999998875421111111111 1  223333344433333


Q ss_pred             HHH--H-HhC-CCCCC---hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC---------CCCchHHHHHHHHHhcCCHH
Q 044628          521 YDL--L-ASM-PIEPR---SDTLGAFIGACKVHGSIGLAKWAAEKLLELEP---------SKPVNYALVSNVYASERCWF  584 (665)
Q Consensus       521 ~~~--~-~~~-~~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p---------~~~~~~~~l~~~y~~~g~~~  584 (665)
                      .++  + ... +..|.   .........++...|+.+.|...++.+....-         .........+.++...|+++
T Consensus       245 ~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~  324 (355)
T cd05804         245 DRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYA  324 (355)
T ss_pred             HHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHH
Confidence            332  1 111 11111   12223455667788899999999888764221         13455678888899999999


Q ss_pred             HHHHHHHHHhhCC
Q 044628          585 DVARLRKMMRDNC  597 (665)
Q Consensus       585 ~A~~~~~~m~~~~  597 (665)
                      +|.+.+......+
T Consensus       325 ~A~~~L~~al~~a  337 (355)
T cd05804         325 TALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998877543

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.74  E-value=3e-07  Score=92.33  Aligned_cols=197  Identities=11%  Similarity=0.028  Sum_probs=150.0

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----C---CHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVR-----P---DSI  466 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-----p---~~~  466 (665)
                      +...|--|...-...++-..|+..+.+..+   .|....-.|.-.|...|.-.+|+..+++-+....+     +   +..
T Consensus       318 haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~  397 (579)
T KOG1125|consen  318 HAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENED  397 (579)
T ss_pred             HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCccchhccccCcccc
Confidence            344455555556666666667777766653   56667777777888888888899888887654211     0   000


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  544 (665)
                      .-..  ..+.....+....++|-.+....+..+|.+.+.+|.-+|--.|.+++|++.|+.+ ..+| |...|+-|.....
T Consensus       398 ~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLA  475 (579)
T KOG1125|consen  398 FENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLA  475 (579)
T ss_pred             ccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhc
Confidence            0000  1223334455667777777775666688999999999999999999999999999 7778 5778999999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...+.++|+.+|.+++++.|....+...|+-.|...|.++||.+.+-.....
T Consensus       476 N~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  476 NGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             CCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            9899999999999999999999999999999999999999999998766543

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.73  E-value=8.2e-07  Score=81.43  Aligned_cols=148  Identities=11%  Similarity=0.079  Sum_probs=114.6

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 044628          437 IGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL  516 (665)
Q Consensus       437 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  516 (665)
                      +..|...|+++......+.+.    .|.        ..+...++.+++...++...+  .-+.+...|..+...|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~----~~~--------~~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLA----DPL--------HQFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHh----Ccc--------ccccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCC
Confidence            345777788777644432222    111        122336777888888888776  345678899999999999999


Q ss_pred             hHHHHHHHHhC-CCCC-ChhHHHHHHHHH-HhcCC--HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHH
Q 044628          517 LVEAYDLLASM-PIEP-RSDTLGAFIGAC-KVHGS--IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       517 ~~~A~~~~~~~-~~~p-~~~~~~~ll~~~-~~~g~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~  591 (665)
                      +++|.+.|++. ...| +...+..+..+. ...|+  .++|.++++++++.+|+++.++..++..+.+.|++++|...|+
T Consensus        89 ~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         89 YDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999998 6667 466777777664 66676  5999999999999999999999999999999999999999999


Q ss_pred             HHhhCCC
Q 044628          592 MMRDNCD  598 (665)
Q Consensus       592 ~m~~~~~  598 (665)
                      ++.+...
T Consensus       169 ~aL~l~~  175 (198)
T PRK10370        169 KVLDLNS  175 (198)
T ss_pred             HHHhhCC
Confidence            9987654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.73  E-value=1.3e-06  Score=83.65  Aligned_cols=60  Identities=13%  Similarity=-0.040  Sum_probs=51.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          538 AFIGACKVHGSIGLAKWAAEKLLELEPSK---PVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       538 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .+...+...|+.+.|...++++++..|++   +.++..++.+|...|++++|...++.+..+.
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            34556788899999999999999987765   4688999999999999999999998887543

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).

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.72  E-value=4e-07  Score=88.43  Aligned_cols=149  Identities=14%  Similarity=0.043  Sum_probs=114.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH----HHHh
Q 044628          438 GAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTD----LLGR  513 (665)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~----~~~~  513 (665)
                      ..+...|++++|++++.+-      .+.......+..+.+.++++.|.+.++.|.+   +..|. +...+..    .+.-
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD~-~l~qLa~awv~l~~g  179 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDEDS-ILTQLAEAWVNLATG  179 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCCH-HHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcH-HHHHHHHHHHHHHhC
Confidence            3456679999999988642      3456667778899999999999999999976   34443 3333333    3333


Q ss_pred             cCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCH-HHHHHHH
Q 044628          514 VGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCW-FDVARLR  590 (665)
Q Consensus       514 ~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~-~~A~~~~  590 (665)
                      .+.+.+|.-+|+++  ...+++.+.+.+..+....|++++|+.+++++++.+|+++.+...++-+....|+. +.+.+.+
T Consensus       180 ~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  180 GEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             TTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             chhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            35799999999999  44567888888888999999999999999999999999999999999999999998 6677888


Q ss_pred             HHHhhC
Q 044628          591 KMMRDN  596 (665)
Q Consensus       591 ~~m~~~  596 (665)
                      .+++..
T Consensus       260 ~qL~~~  265 (290)
T PF04733_consen  260 SQLKQS  265 (290)
T ss_dssp             HHCHHH
T ss_pred             HHHHHh
Confidence            888753

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.68  E-value=5.7e-05  Score=80.85  Aligned_cols=173  Identities=13%  Similarity=0.030  Sum_probs=127.5

Q ss_pred             HHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 044628          416 AGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMI  492 (665)
Q Consensus       416 ~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  492 (665)
                      ..|...+.+..   ..+..+||.|.-. ...|.+.-|.-.|-+-+... +.+..+|..+.-.|....+++.|.+.|....
T Consensus       800 ~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~q  877 (1238)
T KOG1127|consen  800 CTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQ  877 (1238)
T ss_pred             HHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhh
Confidence            45667776554   3788899988665 55577777777776666541 3355788888888999999999999999886


Q ss_pred             HhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-------CCCCChhHHHHHHHHHHhcCCHHHHHH----------
Q 044628          493 SDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-------PIEPRSDTLGAFIGACKVHGSIGLAKW----------  554 (665)
Q Consensus       493 ~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~ll~~~~~~g~~~~a~~----------  554 (665)
                      .   +.| +...|..........|+.-++..+|.--       +-.|+...|.+...--...|+.++-+.          
T Consensus       878 S---LdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~  954 (1238)
T KOG1127|consen  878 S---LDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASL  954 (1238)
T ss_pred             h---cCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHH
Confidence            5   445 6777877777777889888888888762       445666667666655566666554443          


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          555 AAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       555 ~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      +.++.++-.|++..+|...+...-..+.+.+|.++..+.
T Consensus       955 al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~Rl  993 (1238)
T KOG1127|consen  955 ALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRL  993 (1238)
T ss_pred             HHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            455667788999999999999999999999888876655

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.66  E-value=3.7e-05  Score=71.04  Aligned_cols=417  Identities=12%  Similarity=0.051  Sum_probs=239.0

Q ss_pred             CCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCC--CCchhHHH
Q 044628          156 DNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLC--RDLVLWNV  233 (665)
Q Consensus       156 ~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~  233 (665)
                      .|+..-.--|.+++..+.+..++..|.+++..-.+.. +.+....+.|..+|-...++..|-..++++..  |...-|..
T Consensus         4 ~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrl   82 (459)
T KOG4340|consen    4 SGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRL   82 (459)
T ss_pred             ccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHH
Confidence            3444444557777777788888888888887776653 22555667777888888999999999988743  32222221


Q ss_pred             -HHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHH--HhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 044628          234 -MVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNS--CGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAK  310 (665)
Q Consensus       234 -li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~--~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  310 (665)
                       -...+-+.+.+.+|+++...|...   |+...-..-+.+  .-+.+++..+..+.++....|   +..+.+.......+
T Consensus        83 Y~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllyk  156 (459)
T KOG4340|consen   83 YQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYK  156 (459)
T ss_pred             HHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeec
Confidence             235566788899999998888652   222211112222  235567777777776654322   34444445555678


Q ss_pred             cCCHHHHHHHHhccCC----CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHH-HHHHHHHhCCCCchHhHHH
Q 044628          311 NGNIDDACRVFDGMTA----KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVT-LASILSSCGSLSISCETRQ  385 (665)
Q Consensus       311 ~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~~~~~a~~  385 (665)
                      .|++++|.+-|+...+    .....||.-+.. -+.|+++.|+++..++++.|++-.+.. ......+- ....+..-..
T Consensus       157 egqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegi-DvrsvgNt~~  234 (459)
T KOG4340|consen  157 EGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGI-DVRSVGNTLV  234 (459)
T ss_pred             cccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccC-chhcccchHH
Confidence            8888888888887765    345667755544 456788888888888888776421110 00000000 0000000011


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 044628          386 VHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHA  460 (665)
Q Consensus       386 i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  460 (665)
                      ++...       -+..+|.-...+.+.|+.+.|.+.+-.|+.     -|++|...+.-.= ..+++.+..+-+.-+... 
T Consensus       235 lh~Sa-------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~-  305 (459)
T KOG4340|consen  235 LHQSA-------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQ-  305 (459)
T ss_pred             HHHHH-------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhc-
Confidence            11110       012223334456789999999999999983     5777766553322 234555555555555554 


Q ss_pred             CCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC-CChhhHHHHHHHHH-hcCChHHHHHHHHhCCCCCC--hhH
Q 044628          461 VRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHIL-PDSEHYTCLTDLLG-RVGLLVEAYDLLASMPIEPR--SDT  535 (665)
Q Consensus       461 ~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~-p~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~p~--~~~  535 (665)
                       .| ...||..++-.||+..-++.|-.++-+-.. .-.+ .+...|+ |++++. ..-..++|++-++.....-.  ...
T Consensus       306 -nPfP~ETFANlLllyCKNeyf~lAADvLAEn~~-lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRk  382 (459)
T KOG4340|consen  306 -NPFPPETFANLLLLYCKNEYFDLAADVLAENAH-LTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRK  382 (459)
T ss_pred             -CCCChHHHHHHHHHHhhhHHHhHHHHHHhhCcc-hhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence             44 457999999999999999988887754322 0010 1223333 344443 34567777766655410000  000


Q ss_pred             HHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          536 LGAFIGACKVHGS---IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       536 ~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...-+..-+..++   ...+.+-+++.+++-   ..+....+++|.+..++..+++.|+.-.+-
T Consensus       383 lAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~Svef  443 (459)
T KOG4340|consen  383 LAIQVQEARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIFRKSVEF  443 (459)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHHHHHHhh
Confidence            0001111111221   122333444555442   234567788999999999999999876543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.65  E-value=6.5e-07  Score=77.59  Aligned_cols=93  Identities=11%  Similarity=-0.166  Sum_probs=55.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER  581 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  581 (665)
                      +..+...+...|++++|.+.|+.. ...| +...|..+..++...|++++|...++++++++|+++.++..++.+|...|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            334455555666666666666555 3334 34555555566666666666666666666666666666666666666666


Q ss_pred             CHHHHHHHHHHHhhC
Q 044628          582 CWFDVARLRKMMRDN  596 (665)
Q Consensus       582 ~~~~A~~~~~~m~~~  596 (665)
                      ++++|+..++.....
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            666666666655543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.65  E-value=2.1e-05  Score=84.02  Aligned_cols=382  Identities=12%  Similarity=0.014  Sum_probs=229.9

Q ss_pred             CCCc-hHHHHHHHHHHHhCCChHHHHHHHhccCC---CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHH
Q 044628          193 FGLN-CFVSSALVDLYGKCGFVEDARRVFDEVLC---RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSS  268 (665)
Q Consensus       193 ~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  268 (665)
                      +.++ ...|..|-..|+...+...|.+.|+..-+   .|..++......|++..+++.|..+.-..-+.. +.-...++.
T Consensus       487 ld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka-~a~~~k~nW  565 (1238)
T KOG1127|consen  487 LDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKA-PAFACKENW  565 (1238)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhc-hHHHHHhhh
Confidence            4444 46788888999988899999999987744   366789999999999999999999833322211 111112222


Q ss_pred             --HHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHH---HHHHHHcCC
Q 044628          269 --LVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNT---MVVGFGQNG  343 (665)
Q Consensus       269 --ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---li~~~~~~g  343 (665)
                        .--.+...++...+..-++...+.. +.|...|..|..+|.++|++..|.++|++...-++.+|-.   ....-+..|
T Consensus       566 ~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~G  644 (1238)
T KOG1127|consen  566 VQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNG  644 (1238)
T ss_pred             hhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhh
Confidence              2233566778888888888888765 6688899999999999999999999998877644443322   223456789


Q ss_pred             ChHHHHHHHHHHhhC------CCCCCHHHHHHHHHHhCCCCchHhHHHHHH-------HHHHhCCCCchhHHHHHHHHHH
Q 044628          344 DGREAVKLLRDMLQG------SFCPDEVTLASILSSCGSLSISCETRQVHA-------YAIKNGVQAFLSIENALINAYS  410 (665)
Q Consensus       344 ~~~~A~~~~~~m~~~------g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~-------~~~~~g~~~~~~~~~~li~~~~  410 (665)
                      ++.+|+..+......      +..--..++......+...|-...+..+++       -........+...|-.+     
T Consensus       645 kYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~a-----  719 (1238)
T KOG1127|consen  645 KYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVA-----  719 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHH-----
Confidence            999999988877542      111111222222222223333333333332       22222222222222222     


Q ss_pred             hcCCHHHHHHHHhcCCCCChh--HHHHHHHH-HHhcCCh---H---HHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----
Q 044628          411 KCGSIAGALQCFGSVKEPDLV--TWTSIIGA-YAFHGLS---K---ESIEVFEKMLSHAVRPDSIAFLEVLSACSH----  477 (665)
Q Consensus       411 ~~g~~~~A~~~~~~~~~~~~~--~~~~li~~-~~~~g~~---~---~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----  477 (665)
                           .+|..+|-... |+.+  .+..++.. .-..+..   +   -+.+.+-.-++  ...+..++..++..+.+    
T Consensus       720 -----sdac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~  791 (1238)
T KOG1127|consen  720 -----SDACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLL  791 (1238)
T ss_pred             -----hHHHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHH
Confidence                 23344444444 3321  11111111 2122221   1   11111111111  11223333333332222    


Q ss_pred             ---CC-cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHH
Q 044628          478 ---GG-LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       478 ---~g-~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~  551 (665)
                         .+ +...|+..+...++  -...+...|+.|. .+...|.+.-|...|-+. -..| ...+|..+.-.|....|++.
T Consensus       792 l~et~~~~~~Ai~c~KkaV~--L~ann~~~WnaLG-Vlsg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~  868 (1238)
T KOG1127|consen  792 LGETMKDACTAIRCCKKAVS--LCANNEGLWNALG-VLSGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEH  868 (1238)
T ss_pred             cCCcchhHHHHHHHHHHHHH--HhhccHHHHHHHH-HhhccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHH
Confidence               22 23467888887776  2233455555554 446667777777766554 3344 57789998888889999999


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          552 AKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKM  592 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~  592 (665)
                      |..++.++..++|.+...|...+.+-...|+.-++..+|..
T Consensus       869 A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  869 AEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             hhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            99999999999999988888888888888988888888876

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.64  E-value=0.00012  Score=69.15  Aligned_cols=329  Identities=16%  Similarity=0.074  Sum_probs=203.0

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHH---HHHhccCCcHHHHHHHHHHHHhCCCCchhHH-HHHHH
Q 044628          231 WNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLV---NSCGTLGSSKLGRQIHGLVIKQSFDLDVLVA-TSLVD  306 (665)
Q Consensus       231 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll---~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~-~~li~  306 (665)
                      ---+...+...|++.+|+.-|....+.    |...|.++.   ..|...|+...|..-+..+++.  .||-..- -.-..
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~  114 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhch
Confidence            334566677778888888888777652    334444443   3366667777777777777664  4543221 11233


Q ss_pred             HHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHH
Q 044628          307 MYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQV  386 (665)
Q Consensus       307 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i  386 (665)
                      .+.|.|.++.|..-|+.+.+.++.           +|...+|.+-+....      ........+..+...|+...++..
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s-----------~~~~~eaqskl~~~~------e~~~l~~ql~s~~~~GD~~~ai~~  177 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPS-----------NGLVLEAQSKLALIQ------EHWVLVQQLKSASGSGDCQNAIEM  177 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCC-----------cchhHHHHHHHHhHH------HHHHHHHHHHHHhcCCchhhHHHH
Confidence            456777777777777766542220           001111111000000      001122233344455666666666


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 044628          387 HAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSV---KEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP  463 (665)
Q Consensus       387 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  463 (665)
                      ...+++.. +.|...+..-..+|...|++..|..-++..   ...+....--+-..+...|+.+.++...++-++  +.|
T Consensus       178 i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldp  254 (504)
T KOG0624|consen  178 ITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDP  254 (504)
T ss_pred             HHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCc
Confidence            66666543 345666666777888888888887665544   346666666777777888888888888888776  477


Q ss_pred             CHHH-H---HHH---------HHHHhcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHhcCChHHHHHHHH
Q 044628          464 DSIA-F---LEV---------LSACSHGGLVSEGLRYFNLMISDYHILPD-----SEHYTCLTDLLGRVGLLVEAYDLLA  525 (665)
Q Consensus       464 ~~~t-~---~~l---------l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~  525 (665)
                      |... |   ..|         .......+.|.++++-.+...+   ..|.     ...+..+-.++...|++.+|++...
T Consensus       255 dHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk---~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~  331 (504)
T KOG0624|consen  255 DHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLK---NEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCK  331 (504)
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh---cCCcccceeeeeeheeeecccccCCHHHHHHHHH
Confidence            7632 2   111         1123445777778877777765   2344     2234445566778899999999988


Q ss_pred             hC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          526 SM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       526 ~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      +. .+.|| +.++.--..+|.....++.|+.-|+++.+.+|++..+-.-          .+.|.++.++..++.-
T Consensus       332 evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reG----------le~Akrlkkqs~kRDY  396 (504)
T KOG0624|consen  332 EVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREG----------LERAKRLKKQSGKRDY  396 (504)
T ss_pred             HHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHH----------HHHHHHHHHHhccchH
Confidence            87 77786 6677777888998999999999999999999997554332          3556666555554443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=6.3e-05  Score=75.44  Aligned_cols=395  Identities=14%  Similarity=0.054  Sum_probs=227.3

Q ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccC--CCC-chhHHHHHHHHHhcCCchHH
Q 044628          171 ACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL--CRD-LVLWNVMVSCYALNCLGDGA  247 (665)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~-~~~~~~li~~~~~~g~~~~A  247 (665)
                      +....|+++.|...|-..+... ++|.+.|+.-..+|++.|++++|.+=-.+-.  .|+ ...|+-...++.-.|++++|
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA   89 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEA   89 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHH
Confidence            4456677777777777777665 3367777777777777777777665443332  222 23677777777777777777


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHHhcc---CCcHHHHHHHHHHHH----hCCCCchhHHHHHHH----------HHHh
Q 044628          248 IAVFNLMRLEGMKGDYFTFSSLVNSCGTL---GSSKLGRQIHGLVIK----QSFDLDVLVATSLVD----------MYAK  310 (665)
Q Consensus       248 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~---~~~~~a~~~~~~~~~----~g~~~~~~~~~~li~----------~~~~  310 (665)
                      +.-|.+=++.. +-|...+..+..+....   ++.-..-.++..+..    .+. .....|..++.          .|..
T Consensus        90 ~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~-~~~~~~~~~l~~~~~~p~~l~~~l~  167 (539)
T KOG0548|consen   90 ILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYS-LSDPAYVKILEIIQKNPTSLKLYLN  167 (539)
T ss_pred             HHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhh-hccHHHHHHHHHhhcCcHhhhcccc
Confidence            77777665532 12344444444444111   000000001110000    000 00001111111          1111


Q ss_pred             cCCHHHHHHHHhccC----------------CC------------C----------chhHHHHHHHHHcCCChHHHHHHH
Q 044628          311 NGNIDDACRVFDGMT----------------AK------------N----------VVSWNTMVVGFGQNGDGREAVKLL  352 (665)
Q Consensus       311 ~g~~~~A~~~~~~~~----------------~~------------~----------~~~~~~li~~~~~~g~~~~A~~~~  352 (665)
                      ..++..|.-.+....                +|            |          ..-.-.+..+.-+..+++.|++-+
T Consensus       168 d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y  247 (539)
T KOG0548|consen  168 DPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHY  247 (539)
T ss_pred             cHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHH
Confidence            111222222221110                01            0          012345666677777888888888


Q ss_pred             HHHhhCCCCCCHHHHHHH-HHHhCCCCchHhHHHHHHHHHHhCCCCc------hhHHHHHHHHHHhcCCHHHHHHHHhcC
Q 044628          353 RDMLQGSFCPDEVTLASI-LSSCGSLSISCETRQVHAYAIKNGVQAF------LSIENALINAYSKCGSIAGALQCFGSV  425 (665)
Q Consensus       353 ~~m~~~g~~p~~~t~~~l-l~~~~~~~~~~~a~~i~~~~~~~g~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~~  425 (665)
                      .......   ...||... -.++...|........-...++.|...-      ......+..+|.+.++++.|...|.+.
T Consensus       248 ~~a~el~---~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~ka  324 (539)
T KOG0548|consen  248 AKALELA---TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKA  324 (539)
T ss_pred             HHHHhHh---hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHH
Confidence            8877643   44444444 3446667766666555555444442210      011122344788889999999999885


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH
Q 044628          426 KEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHY  504 (665)
Q Consensus       426 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  504 (665)
                      ..+...     -....+....++++...+...-  +.|+.. -.-.-.+.+.+.|++..|+..|.++++.  -+-|...|
T Consensus       325 Lte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr--~P~Da~lY  395 (539)
T KOG0548|consen  325 LTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKR--DPEDARLY  395 (539)
T ss_pred             hhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc--CCchhHHH
Confidence            531111     1122233445666665555443  344442 2222366788899999999999999983  35578899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASE  580 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  580 (665)
                      ..-.-+|.+.|.+.+|++-.+.. ...|+ ...|.-=..+.....+++.|.+.|++.++.+|++..+...+..++...
T Consensus       396 sNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  396 SNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHh
Confidence            99999999999999999887776 45555 334544455666778999999999999999999877777777666653

>PF12854 PPR_1: PPR repeat

Probab=98.63  E-value=4.6e-08  Score=60.32  Aligned_cols=33  Identities=33%  Similarity=0.505  Sum_probs=24.4

Q ss_pred             CCCCchHHHHHHHHHHHhCCChHHHHHHHhccC
Q 044628          192 GFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL  224 (665)
Q Consensus       192 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  224 (665)
                      |+.||..+||+||++||+.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            667777777777777777777777777777763

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.62  E-value=0.001  Score=70.09  Aligned_cols=49  Identities=18%  Similarity=0.146  Sum_probs=34.5

Q ss_pred             CHHHHHHHHHHHHhcCCCC------CchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          548 SIGLAKWAAEKLLELEPSK------PVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       548 ~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      |...++.-.+.+++ +|..      ...|..|+..|....+|..|-+.++.|..+.
T Consensus      1306 D~~~~i~qc~~lle-ep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k~ 1360 (1416)
T KOG3617|consen 1306 DAADGIRQCTTLLE-EPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKKV 1360 (1416)
T ss_pred             hHHHHHHHHHHHhh-CcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhcC
Confidence            44444444444443 2332      3567899999999999999999999998553

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.62  E-value=1e-06  Score=76.32  Aligned_cols=123  Identities=13%  Similarity=0.093  Sum_probs=100.4

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CC
Q 044628          451 EVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PI  529 (665)
Q Consensus       451 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  529 (665)
                      .+|++.++.  .|+.  +.....++...|++++|...|+....  --+.+...|..+..++.+.|++++|+..|++. ..
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            455666553  5554  44567778889999999999999886  23346888899999999999999999999998 55


Q ss_pred             CC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 044628          530 EP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       530 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  579 (665)
                      .| +...|..+..++...|+.++|+..+++++++.|+++..+...+++...
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~  138 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIM  138 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            56 577888888899999999999999999999999999999888776543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.60  E-value=6.2e-05  Score=78.75  Aligned_cols=358  Identities=13%  Similarity=0.080  Sum_probs=221.8

Q ss_pred             CchHHHHHHH--HHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHC-C--------CCCCH
Q 044628          195 LNCFVSSALV--DLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLE-G--------MKGDY  263 (665)
Q Consensus       195 ~~~~~~~~li--~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g--------~~p~~  263 (665)
                      -|..|..+++  +.|...|++|.|.+-.+-+.  +...|..|.+.+++..+.+-|.-.+-.|... |        -.|+ 
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-  800 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-  800 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-
Confidence            4677777777  46788899999988877654  3467999999999998888887776666432 1        1122 


Q ss_pred             hhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCC-CchhHHHHHHHHHcC
Q 044628          264 FTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAK-NVVSWNTMVVGFGQN  342 (665)
Q Consensus       264 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~  342 (665)
                      .+=.-+.-.....|.+++|+.++.+..+.+         .|=..|-..|.+++|.++-+.-..- =-.||..-..-+-..
T Consensus       801 e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear  871 (1416)
T KOG3617|consen  801 EDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEAR  871 (1416)
T ss_pred             chhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhh
Confidence            222223333457889999999999988754         3556677889999999886543221 113565566666667


Q ss_pred             CChHHHHHHHHHHhhC----------C---------CCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHH
Q 044628          343 GDGREAVKLLRDMLQG----------S---------FCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIEN  403 (665)
Q Consensus       343 g~~~~A~~~~~~m~~~----------g---------~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~  403 (665)
                      ++.+.|++.|++....          .         -.-|...|..--......|+.+.|..+|....+.         -
T Consensus       872 ~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~---------f  942 (1416)
T KOG3617|consen  872 RDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDY---------F  942 (1416)
T ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhh---------h
Confidence            8888888888764211          1         0123333444444455566777777666655442         3


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-----
Q 044628          404 ALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHG-----  478 (665)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-----  478 (665)
                      +++...|-.|+.++|.++-++-  .|......+.+-|-..|++.+|..+|.+.+.         |...|+.|-..     
T Consensus       943 s~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~ 1011 (1416)
T KOG3617|consen  943 SMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDR 1011 (1416)
T ss_pred             hheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHH
Confidence            5556666677788877776653  4666777788888888888888888877653         33333333222     


Q ss_pred             ----------CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-----------CCCC--ChhH
Q 044628          479 ----------GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-----------PIEP--RSDT  535 (665)
Q Consensus       479 ----------g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----------~~~p--~~~~  535 (665)
                                .+.-.|-++|++.-.         -..--+-+|-++|.+.+|+++--+-           .+.|  |+..
T Consensus      1012 L~nlal~s~~~d~v~aArYyEe~g~---------~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~l 1082 (1416)
T KOG3617|consen 1012 LANLALMSGGSDLVSAARYYEELGG---------YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKL 1082 (1416)
T ss_pred             HHHHHhhcCchhHHHHHHHHHHcch---------hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHH
Confidence                      233344455544321         1122345678888888887763221           1222  4555


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH------H---------------h-cCCCC---------CchHHHHHHHHHhcCCHH
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKL------L---------------E-LEPSK---------PVNYALVSNVYASERCWF  584 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~------~---------------~-~~p~~---------~~~~~~l~~~y~~~g~~~  584 (665)
                      .+.-...+..+.++++|..++-.+      +               + +.|..         ......+++.+.++|.+.
T Consensus      1083 l~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh 1162 (1416)
T KOG3617|consen 1083 LRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYH 1162 (1416)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchH
Confidence            555455555666777766553222      1               1 11221         235668899999999998


Q ss_pred             HHHHHHHHH
Q 044628          585 DVARLRKMM  593 (665)
Q Consensus       585 ~A~~~~~~m  593 (665)
                      .|.+-|.+.
T Consensus      1163 ~AtKKfTQA 1171 (1416)
T KOG3617|consen 1163 AATKKFTQA 1171 (1416)
T ss_pred             HHHHHHhhh
Confidence            888766543

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.59  E-value=4.5e-06  Score=91.84  Aligned_cols=198  Identities=15%  Similarity=0.090  Sum_probs=167.6

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-H
Q 044628          396 QAFLSIENALINAYSKCGSIAGALQCFGSVKE--------PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-I  466 (665)
Q Consensus       396 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~  466 (665)
                      +.+...|-..|......+++++|++++++...        .-...|.++++.-...|.-+...++|+++.+.   -|. .
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy---cd~~~ 1531 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY---CDAYT 1531 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh---cchHH
Confidence            34456677777788889999999999998763        23458999999888899889999999999873   344 4


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC---hhHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR---SDTLGAFIGA  542 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~ll~~  542 (665)
                      .|..|+.-|.+.+.+++|.++++.|.++++  -....|...++.+.+..+-++|..++.++ ..-|.   .....-.+..
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHH
Confidence            688899999999999999999999999655  67788999999999999999999999888 33333   4445555566


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          543 CKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       543 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      -.++|+.++|+.+|+.++.-.|.....|..++++-.+.|..+.++.+|++....++
T Consensus      1610 EFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence            67899999999999999999999999999999999999999999999999988765

>PF12854 PPR_1: PPR repeat

Probab=98.58  E-value=8.7e-08  Score=59.05  Aligned_cols=34  Identities=35%  Similarity=0.659  Sum_probs=26.8

Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccC
Q 044628          292 QSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMT  325 (665)
Q Consensus       292 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  325 (665)
                      +|+.||..+||.||++|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3677888888888888888888888888888774

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.57  E-value=0.00014  Score=74.43  Aligned_cols=21  Identities=10%  Similarity=-0.124  Sum_probs=13.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 044628          542 ACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       542 ~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      ++...|+.+.|.+.+..++++
T Consensus       316 ~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         316 YAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            345667777777777666643

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.54  E-value=3.6e-05  Score=71.13  Aligned_cols=304  Identities=14%  Similarity=0.052  Sum_probs=157.7

Q ss_pred             hhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCchhHHH-HHHHHH
Q 044628          264 FTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA--KNVVSWNT-MVVGFG  340 (665)
Q Consensus       264 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~-li~~~~  340 (665)
                      --+.+++..+.+..+++.+.+++..-.+.. +.+......|..+|-...++..|-+.++++..  |...-|.. -...+-
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLY   89 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHH
Confidence            335555556666667777777776666553 34566677777888888888888888887754  32222221 134555


Q ss_pred             cCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHH--hCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044628          341 QNGDGREAVKLLRDMLQGSFCPDEVTLASILSS--CGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGA  418 (665)
Q Consensus       341 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~--~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  418 (665)
                      +.+.+.+|+.+...|...   |+...-..-+.+  ..+.+++..++.+.++.-..   .+..+.+.......+.|+.+.|
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccHHHH
Confidence            677888888888877653   222221111211  12334444444444433211   1222223333344566666666


Q ss_pred             HHHHhcCCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 044628          419 LQCFGSVKE----PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISD  494 (665)
Q Consensus       419 ~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  494 (665)
                      .+-|+...+    .....||.-+ +..+.|+++.|++...+.+++|++--+. ++        -|...++..+ +.+   
T Consensus       164 vqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPE-lg--------IGm~tegiDv-rsv---  229 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPE-LG--------IGMTTEGIDV-RSV---  229 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCc-cC--------ccceeccCch-hcc---
Confidence            666665543    2333444333 3344556666666666666666542111 00        0000000000 000   


Q ss_pred             cCCCCChhhHHHH-------HHHHHhcCChHHHHHHHHhCC----CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044628          495 YHILPDSEHYTCL-------TDLLGRVGLLVEAYDLLASMP----IEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELE  563 (665)
Q Consensus       495 ~~~~p~~~~~~~l-------~~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  563 (665)
                       | .|-..+-+.+       ...+.+.|+++.|.+.+..||    -+.|++|...+.-. -..+++..+.+-+.-+++++
T Consensus       230 -g-Nt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~n  306 (459)
T KOG4340|consen  230 -G-NTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQN  306 (459)
T ss_pred             -c-chHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcC
Confidence             0 0001112222       233456677777777777773    23356665554321 23345555666666667777


Q ss_pred             CCCCchHHHHHHHHHhcCCHHHHHHHHH
Q 044628          564 PSKPVNYALVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       564 p~~~~~~~~l~~~y~~~g~~~~A~~~~~  591 (665)
                      |-.+.++..+.-+|++..-++-|..++-
T Consensus       307 PfP~ETFANlLllyCKNeyf~lAADvLA  334 (459)
T KOG4340|consen  307 PFPPETFANLLLLYCKNEYFDLAADVLA  334 (459)
T ss_pred             CCChHHHHHHHHHHhhhHHHhHHHHHHh
Confidence            7666677777777777777776666654

>PLN02789 farnesyltranstransferase

Probab=98.53  E-value=2.9e-05  Score=76.57  Aligned_cols=182  Identities=12%  Similarity=0.049  Sum_probs=128.2

Q ss_pred             HHhcC-CHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCCh--HHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcH
Q 044628          409 YSKCG-SIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLS--KESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLV  481 (665)
Q Consensus       409 ~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~  481 (665)
                      +.+.| ++++++..++++.+   ++...|+.....+.+.|+.  ++++++++++.+.  .| |..+|.....++.+.|++
T Consensus        81 L~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~  158 (320)
T PLN02789         81 LEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGW  158 (320)
T ss_pred             HHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhH
Confidence            33445 46777777776653   5556677665555566653  6778888888875  44 556788888888888889


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc---CCh----HHHHHHHHhC-CCCC-ChhHHHHHHHHHHhc----CC
Q 044628          482 SEGLRYFNLMISDYHILPDSEHYTCLTDLLGRV---GLL----VEAYDLLASM-PIEP-RSDTLGAFIGACKVH----GS  548 (665)
Q Consensus       482 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~----~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~----g~  548 (665)
                      +++++.++++++.  -..+...|+....++.+.   |..    +++++...++ ...| |...|+-+...+...    ++
T Consensus       159 ~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~  236 (320)
T PLN02789        159 EDELEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVS  236 (320)
T ss_pred             HHHHHHHHHHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCccccc
Confidence            9999999998872  234556666666555544   323    4667776555 5566 577898888888773    34


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC------------------CHHHHHHHHHHHh
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVSNVYASER------------------CWFDVARLRKMMR  594 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g------------------~~~~A~~~~~~m~  594 (665)
                      ..+|...+.++++.+|+++.+...|+++|+...                  ..++|.++.+.+.
T Consensus       237 ~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        237 DPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             chhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            567889999999999999999999999998743                  2356777777663

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.52  E-value=2.7e-06  Score=72.34  Aligned_cols=97  Identities=12%  Similarity=0.017  Sum_probs=85.9

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVY  577 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  577 (665)
                      +.+..-.+...+...|++++|..+|+-. .+.| +..-|..|...|...|++++|+..|.++..++|+++.++..++.+|
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3445556677788999999999999988 5666 5778999999999999999999999999999999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHhhC
Q 044628          578 ASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       578 ~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...|+.++|++.|+.....
T Consensus       114 L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999988653

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.47  E-value=7.7e-06  Score=82.50  Aligned_cols=216  Identities=17%  Similarity=0.178  Sum_probs=159.6

Q ss_pred             HhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHH
Q 044628          273 CGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAV  349 (665)
Q Consensus       273 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  349 (665)
                      +.+.|++.+|.-.|+..++.. +.+...|-.|.......++-..|+..+.+..+   .|....-+|.-.|...|.-.+|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            356778888888888888876 66778888888888888888888888877765   35566777778888889888999


Q ss_pred             HHHHHHhhCCCC--------CCHHHHHHHHHHhCCCCchHhHHHHHHHH-HHhCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 044628          350 KLLRDMLQGSFC--------PDEVTLASILSSCGSLSISCETRQVHAYA-IKNGVQAFLSIENALINAYSKCGSIAGALQ  420 (665)
Q Consensus       350 ~~~~~m~~~g~~--------p~~~t~~~ll~~~~~~~~~~~a~~i~~~~-~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  420 (665)
                      ..|+..+....+        ++..+-..  ........+....++|-.+ ...+..+|..++..|.-.|--.|++++|.+
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            998887653210        00000000  1112222333444444444 455656888888999999999999999999


Q ss_pred             HHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          421 CFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       421 ~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                      .|+....   .|...||.|...++...+.++|+..|++.++  ++|+-+ ....|.-+|...|.+++|.+.|-.++.
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9998763   5778999999999999999999999999998  488875 444566679999999999998877654

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.47  E-value=1.2e-05  Score=73.48  Aligned_cols=134  Identities=16%  Similarity=0.060  Sum_probs=98.9

Q ss_pred             CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHH
Q 044628          462 RPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAF  539 (665)
Q Consensus       462 ~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l  539 (665)
                      .|+......+-.++...|+-+....+......  ..+.+......++....+.|++.+|+..+++.  +-++|...|+.+
T Consensus        63 ~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~l  140 (257)
T COG5010          63 NPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLL  140 (257)
T ss_pred             CcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHH
Confidence            45332224555666677777777777666543  23344555666788888888888888888888  445577888888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          540 IGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       540 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .-+|.+.|+.+.|+..+.+++++.|+++.++..|+..|.-.|+.++|+.++......+
T Consensus       141 gaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         141 GAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             HHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            8888888888888888888888888888888888888888888888888887776544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.44  E-value=0.00083  Score=78.24  Aligned_cols=326  Identities=10%  Similarity=-0.031  Sum_probs=189.9

Q ss_pred             HHHhCCChHHHHHHHhccCC----CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCC--C----CCCHh--hHHHHHHHH
Q 044628          206 LYGKCGFVEDARRVFDEVLC----RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEG--M----KGDYF--TFSSLVNSC  273 (665)
Q Consensus       206 ~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~----~p~~~--t~~~ll~~~  273 (665)
                      .....|+++.+...++.++.    .+..........+...|++++|...+......-  .    .+...  ....+-..+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            34456778888888777632    123333344455667899999999998775431  1    11111  112222335


Q ss_pred             hccCCcHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHHHHhccCC-------CC--chhHHHHHHHHH
Q 044628          274 GTLGSSKLGRQIHGLVIKQSFDLD----VLVATSLVDMYAKNGNIDDACRVFDGMTA-------KN--VVSWNTMVVGFG  340 (665)
Q Consensus       274 ~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~~--~~~~~~li~~~~  340 (665)
                      ...|+++.+...++.....--..+    ....+.+...+...|++++|...+++...       +.  ..++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            678999999999998876421222    13446667778889999999999877642       11  124455566777


Q ss_pred             cCCChHHHHHHHHHHhhC----CCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH
Q 044628          341 QNGDGREAVKLLRDMLQG----SFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIA  416 (665)
Q Consensus       341 ~~g~~~~A~~~~~~m~~~----g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  416 (665)
                      ..|++++|...+++....    |. ++..                               .....+..+...+...|+++
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~-~~~~-------------------------------~~~~~~~~la~~~~~~G~~~  590 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHL-EQLP-------------------------------MHEFLLRIRAQLLWEWARLD  590 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhcc-cccc-------------------------------HHHHHHHHHHHHHHHhcCHH
Confidence            888888888888776542    11 0000                               00111223334445556666


Q ss_pred             HHHHHHhcCCC------C--ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHH-----HHHHHHHhcCCcHH
Q 044628          417 GALQCFGSVKE------P--DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAF-----LEVLSACSHGGLVS  482 (665)
Q Consensus       417 ~A~~~~~~~~~------~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~-----~~ll~a~~~~g~~~  482 (665)
                      +|...+.+...      +  ....+..+...+...|+.++|.+.+++.....-.. ....+     ...+..+...|..+
T Consensus       591 ~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  670 (903)
T PRK04841        591 EAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKE  670 (903)
T ss_pred             HHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHH
Confidence            66665554421      1  12233445556677788888888777765421111 11111     01123344577888


Q ss_pred             HHHHHHHHHHHhcCCCCChh----hHHHHHHHHHhcCChHHHHHHHHhC-------CCCCC-hhHHHHHHHHHHhcCCHH
Q 044628          483 EGLRYFNLMISDYHILPDSE----HYTCLTDLLGRVGLLVEAYDLLASM-------PIEPR-SDTLGAFIGACKVHGSIG  550 (665)
Q Consensus       483 ~a~~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll~~~~~~g~~~  550 (665)
                      .|.+++......  ......    .+..+..++...|+.++|...+++.       +..++ ..+...+..++...|+.+
T Consensus       671 ~A~~~l~~~~~~--~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~  748 (903)
T PRK04841        671 AAANWLRQAPKP--EFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKS  748 (903)
T ss_pred             HHHHHHHhcCCC--CCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHH
Confidence            888887665431  111111    1345666778888888888888776       22222 234455557788889999


Q ss_pred             HHHHHHHHHHhcCCC
Q 044628          551 LAKWAAEKLLELEPS  565 (665)
Q Consensus       551 ~a~~~~~~~~~~~p~  565 (665)
                      +|...+.+++++...
T Consensus       749 ~A~~~L~~Al~la~~  763 (903)
T PRK04841        749 EAQRVLLEALKLANR  763 (903)
T ss_pred             HHHHHHHHHHHHhCc
Confidence            999999999887644

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.44  E-value=2.3e-05  Score=71.85  Aligned_cols=155  Identities=10%  Similarity=0.118  Sum_probs=116.7

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 044628          406 INAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGL  485 (665)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  485 (665)
                      +-+|.+.|+++......+.+..+.        ..+...++.++++..+++..+.. ..|...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            457888888887765554433221        01223567788888888887752 345567888889999999999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHH-HhcCC--hHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044628          486 RYFNLMISDYHILPDSEHYTCLTDLL-GRVGL--LVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLL  560 (665)
Q Consensus       486 ~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  560 (665)
                      ..|++..+  -.+.+...+..+..++ .+.|+  .++|.+++++. ...| +...+..+...+...|++++|+..+++++
T Consensus        94 ~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQ--LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999987  2233677888888864 67787  59999999998 5666 46678888888999999999999999999


Q ss_pred             hcCCCCCchHH
Q 044628          561 ELEPSKPVNYA  571 (665)
Q Consensus       561 ~~~p~~~~~~~  571 (665)
                      +++|.+..-+.
T Consensus       172 ~l~~~~~~r~~  182 (198)
T PRK10370        172 DLNSPRVNRTQ  182 (198)
T ss_pred             hhCCCCccHHH
Confidence            99988655443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.43  E-value=9.1e-06  Score=84.09  Aligned_cols=187  Identities=18%  Similarity=0.134  Sum_probs=110.5

Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044628          394 GVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLS  473 (665)
Q Consensus       394 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  473 (665)
                      +++|--..-..+.+.+.++|-...|..+|++.     ..|.-.|-+|+..|+..+|..+..+-.++  +||..-|..+.+
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhh
Confidence            34555556667788888888888888888875     46777888888888888888888877773  778888888888


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHH
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~  551 (665)
                      .......+++|.++++....+        .-..+.....+.++++++.+.++.- .++| ...+|-.+.-+..+.++++.
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHH
Confidence            777777777777777665442        0011111122234444444444433 3333 23344444444444444444


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          552 AKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      |.+.|...+.++|++...|+.++.+|.+.|+-.+|...+++..+
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlK  581 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALK  581 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhh
Confidence            44444444444444444444444444444444444444444443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.41  E-value=2.4e-05  Score=85.02  Aligned_cols=133  Identities=14%  Similarity=0.102  Sum_probs=76.9

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH
Q 044628          429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCL  507 (665)
Q Consensus       429 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  507 (665)
                      ++..+-.|.....+.|..++|..+++...+.  .||.. ....+...+.+.+.+++|...+++...  .-+-+......+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            3555555556666666666666666666653  55543 455555566666666666666666654  222234455555


Q ss_pred             HHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          508 TDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      ..++.+.|++++|.++|++. ...|+ ..+|.++..++...|+.+.|...|+++++...+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~  220 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD  220 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc
Confidence            56666666666666666666 22332 455666666666666666666666666655443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.38  E-value=0.0039  Score=62.99  Aligned_cols=430  Identities=12%  Similarity=0.096  Sum_probs=242.2

Q ss_pred             CCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC--CchhHHHHHH
Q 044628          159 RLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR--DLVLWNVMVS  236 (665)
Q Consensus       159 ~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~li~  236 (665)
                      +-|..+|..||+-+... -+++++..++++... ++.....|..-|..-.+..+++..+++|.+...+  ++..|..-|+
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~   94 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLS   94 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHH
Confidence            45778888888877666 888999999988865 4556778888888888889999999999887544  6777877776


Q ss_pred             HHHh-cCCchH----HHHHHHHH-HHCCCCCCHh----hHHHHHHHHhccC------CcHHHHHHHHHHHHhCCCCchhH
Q 044628          237 CYAL-NCLGDG----AIAVFNLM-RLEGMKGDYF----TFSSLVNSCGTLG------SSKLGRQIHGLVIKQSFDLDVLV  300 (665)
Q Consensus       237 ~~~~-~g~~~~----A~~~~~~m-~~~g~~p~~~----t~~~ll~~~~~~~------~~~~a~~~~~~~~~~g~~~~~~~  300 (665)
                      ---+ +|+...    ..+.|+-. .+.|+.+-+.    -|...+..--..|      +++...+++..++..-+..=...
T Consensus        95 YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkL  174 (656)
T KOG1914|consen   95 YVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKL  174 (656)
T ss_pred             HHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHH
Confidence            4332 233332    22233332 3335443322    2333333322333      44455556666554432222233


Q ss_pred             HHHHHHHH-------------HhcCCHHHHHHHHhccCC------CCch---------------hHHHHHHHHHcCCCh-
Q 044628          301 ATSLVDMY-------------AKNGNIDDACRVFDGMTA------KNVV---------------SWNTMVVGFGQNGDG-  345 (665)
Q Consensus       301 ~~~li~~~-------------~~~g~~~~A~~~~~~~~~------~~~~---------------~~~~li~~~~~~g~~-  345 (665)
                      |+-....=             -+...+..|+++++++..      ++..               .|-.+|.-=..++-- 
T Consensus       175 W~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t  254 (656)
T KOG1914|consen  175 WKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRT  254 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCccc
Confidence            33221100             011233444444444321      1111               133333221111100 


Q ss_pred             -------HHHHHHHHH-HhhCCCCCCHHH-HHHHHHH----hCCCCc-------hHhHHHHHHHHHHhCCCCchhHHHHH
Q 044628          346 -------REAVKLLRD-MLQGSFCPDEVT-LASILSS----CGSLSI-------SCETRQVHAYAIKNGVQAFLSIENAL  405 (665)
Q Consensus       346 -------~~A~~~~~~-m~~~g~~p~~~t-~~~ll~~----~~~~~~-------~~~a~~i~~~~~~~g~~~~~~~~~~l  405 (665)
                             ....-.+++ |.-.+..|+..- +...+..    +...|+       -+++..+++..+..-...+..+|.++
T Consensus       255 ~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~  334 (656)
T KOG1914|consen  255 LDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFAL  334 (656)
T ss_pred             ccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   000011111 111122232211 1111111    122232       34444555544443333344444433


Q ss_pred             HHHHHhcC---CHHHHHHHHhcCCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhc
Q 044628          406 INAYSKCG---SIAGALQCFGSVKE----PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSH  477 (665)
Q Consensus       406 i~~~~~~g---~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~  477 (665)
                      .+-=-..-   ..+.....+++...    .-..+|-..++.-.+..-...|..+|.+.++.+..+ +.....+++..+|.
T Consensus       335 a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs  414 (656)
T KOG1914|consen  335 ADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS  414 (656)
T ss_pred             HhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc
Confidence            32211111   13333444444432    233467777777777777899999999999998888 55677777776654


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC---CCCCC--hhHHHHHHHHHHhcCCHHHH
Q 044628          478 GGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM---PIEPR--SDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~ll~~~~~~g~~~~a  552 (665)
                       ++.+-|.++|+.-.+.+|  -+...-.+.++-+.+.++-..|..+|++.   .+.||  ..+|..+|..-..-|+....
T Consensus       415 -kD~~~AfrIFeLGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si  491 (656)
T KOG1914|consen  415 -KDKETAFRIFELGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSI  491 (656)
T ss_pred             -CChhHHHHHHHHHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHH
Confidence             788999999999888543  34455578899999999999999999998   24454  56899999999999999999


Q ss_pred             HHHHHHHHhcCCCC----CchHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          553 KWAAEKLLELEPSK----PVNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       553 ~~~~~~~~~~~p~~----~~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      .++-++....-|.+    ...-..+.+.|.=.+.+..-..-++.+
T Consensus       492 ~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  492 LKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             HHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            99988887665522    123346667777777665544444433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.35  E-value=3e-05  Score=74.12  Aligned_cols=161  Identities=19%  Similarity=0.191  Sum_probs=110.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CC-h---hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH----HH
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVKE--PD-L---VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI----AF  468 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~  468 (665)
                      ...+-.+...|.+.|++++|...|+++.+  |+ .   ..|..+..+|...|++++|+..++++.+.  .|+..    ++
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~  110 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYAY  110 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHHH
Confidence            33445566677777888888888876653  22 1   35666777778888888888888888774  33221    34


Q ss_pred             HHHHHHHhcC--------CcHHHHHHHHHHHHHhcCCCCChh-h-----------------HHHHHHHHHhcCChHHHHH
Q 044628          469 LEVLSACSHG--------GLVSEGLRYFNLMISDYHILPDSE-H-----------------YTCLTDLLGRVGLLVEAYD  522 (665)
Q Consensus       469 ~~ll~a~~~~--------g~~~~a~~~~~~~~~~~~~~p~~~-~-----------------~~~l~~~~~~~g~~~~A~~  522 (665)
                      ..+..++...        |+.++|.+.|+.+.+.   .|+.. .                 ...+.+.|.+.|++++|+.
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~  187 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAIN  187 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            3444444433        6777888888887763   23321 1                 1245677889999999999


Q ss_pred             HHHhC----CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044628          523 LLASM----PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEP  564 (665)
Q Consensus       523 ~~~~~----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  564 (665)
                      .+++.    |..| ....|..+..++...|+.++|...++.+....|
T Consensus       188 ~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       188 RFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            99888    3233 256888999999999999999999888876655

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=98.35  E-value=5.1e-05  Score=69.43  Aligned_cols=155  Identities=12%  Similarity=0.051  Sum_probs=104.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 044628          434 TSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR  513 (665)
Q Consensus       434 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  513 (665)
                      ..+-..+...|+.+....+..+.... ..-|.......+....+.|++.+|...|++...  .-++|.+.|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            44555666667777766666554432 122333444566667777777777777777765  456677777777777777


Q ss_pred             cCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHH
Q 044628          514 VGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       514 ~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~  591 (665)
                      .|+.++|..-|.+. .+.| ++...+.+...+.-.|+.+.|+.++.......+.+..+-..|+-+....|++++|+.+..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            77777777777666 4444 355667777777777777777777777777777677777777777777777777776643

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.32  E-value=9e-06  Score=70.05  Aligned_cols=98  Identities=17%  Similarity=0.142  Sum_probs=80.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVY  577 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  577 (665)
                      +......+...+...|++++|.+.++.. ...| +...|..+...+...|++++|...++++++.+|+++..+..++.+|
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~   95 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECL   95 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            3455666777788888888888888887 4445 4667777778888889999999999999999999889999999999


Q ss_pred             HhcCCHHHHHHHHHHHhhCC
Q 044628          578 ASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       578 ~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ...|++++|.+.++...+..
T Consensus        96 ~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        96 LALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHhc
Confidence            99999999999988777643

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.31  E-value=7.5e-05  Score=74.26  Aligned_cols=113  Identities=18%  Similarity=0.149  Sum_probs=54.6

Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHH
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKW  554 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~  554 (665)
                      ..|..++|+..++.+.+  ..+-|...+....+.+.+.++.++|.+.++++ ...|+ ...+-.+..++.+.|+..+|++
T Consensus       318 ~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHH
Confidence            33455555555555444  22223333344445555555555555555554 33443 3344444455555555555555


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHH
Q 044628          555 AAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       555 ~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~  591 (665)
                      +++....-+|+++..|..|+.+|...|+-.+|...+.
T Consensus       396 ~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~A  432 (484)
T COG4783         396 ILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARA  432 (484)
T ss_pred             HHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHH
Confidence            5555555555555555555555555544444444443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.31  E-value=0.00015  Score=75.40  Aligned_cols=216  Identities=13%  Similarity=0.130  Sum_probs=175.7

Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 044628          294 FDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSS  373 (665)
Q Consensus       294 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  373 (665)
                      ++|--..-..+...+.++|-...|..+|+++     ..|...|..|+..|+..+|..+..+-.+  -+||...|..+...
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDV  466 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhh
Confidence            3455556677888999999999999999987     5688999999999999999999888777  47899999888888


Q ss_pred             hCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHH
Q 044628          374 CGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESI  450 (665)
Q Consensus       374 ~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  450 (665)
                      ..+..-+++|.++.++....       .-..+.....+.++++++.+.|+.-.+   --..+|-....+..+.++++.|.
T Consensus       467 ~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHH
Confidence            88888888888888765432       111122223347899999999986543   45678888888889999999999


Q ss_pred             HHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          451 EVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       451 ~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      +.|..-...  .||. ..|+.+-.++.+.|+-.+|...+.+..+ ++ .-+...|...+-...+.|.+++|++.+.++
T Consensus       540 ~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlK-cn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  540 KAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALK-CN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhh-cC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            999998874  7877 4799999999999999999999999988 55 556677888888889999999999999888

>PLN02789 farnesyltranstransferase

Probab=98.30  E-value=4.5e-05  Score=75.27  Aligned_cols=189  Identities=8%  Similarity=0.036  Sum_probs=139.8

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCc
Q 044628          406 INAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHG-LSKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGL  480 (665)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~  480 (665)
                      -..+.+.+..++|..+..++.+   .+...|+.....+...| +.++++..++++.+.  .|+. .+|......+.+.|.
T Consensus        44 ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         44 RAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHHHHHHcCc
Confidence            3345566788888888887764   34557777666777777 579999999999986  4433 456655444555565


Q ss_pred             --HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhc---CC----H
Q 044628          481 --VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVH---GS----I  549 (665)
Q Consensus       481 --~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---g~----~  549 (665)
                        .++++.+++.+.+  .-+-+...|+....++.+.|++++|++.++++ ...| +...|+.........   |.    .
T Consensus       122 ~~~~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~  199 (320)
T PLN02789        122 DAANKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMR  199 (320)
T ss_pred             hhhHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccH
Confidence              3678889988887  23346788888889999999999999999998 4445 577888776665544   22    3


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhc----CCHHHHHHHHHHHhhCCC
Q 044628          550 GLAKWAAEKLLELEPSKPVNYALVSNVYASE----RCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       550 ~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~----g~~~~A~~~~~~m~~~~~  598 (665)
                      +.......++++++|+|..+|..++.+|...    ++..+|.+........++
T Consensus       200 e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~  252 (320)
T PLN02789        200 DSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS  252 (320)
T ss_pred             HHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC
Confidence            5677888899999999999999999999883    455678888777655443

>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=98.28  E-value=1.7e-05  Score=79.63  Aligned_cols=123  Identities=18%  Similarity=0.081  Sum_probs=100.5

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  544 (665)
                      ...+++..+...+++++|+++|+++.+.   .|+  ....++..+...++-.+|++++++. ...| +...+......|.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            3455666777788889999999988772   244  4556788888888888999988887 3344 5556666667788


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      ..++.+.|..++++++++.|++...|..|+.+|.+.|++++|...++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999999999999999999999999999999999998875

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.26  E-value=0.00013  Score=79.51  Aligned_cols=142  Identities=13%  Similarity=0.075  Sum_probs=112.6

Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHH
Q 044628          395 VQAFLSIENALINAYSKCGSIAGALQCFGSVKE--P-DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLE  470 (665)
Q Consensus       395 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~  470 (665)
                      ...+...+-.|.+.....|..++|..+++...+  | +...+..++..+.+.+++++|+..+++....  .|+.. ....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            455677788888888999999999999998874  4 4567777888999999999999999999885  67665 4556


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHH
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFI  540 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll  540 (665)
                      +..++.+.|.+++|.++|+++..  ..+-+...+..+..++-..|+.++|...|++.  ...|....|+.++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            66778889999999999999986  23334778888899999999999999999988  3344555555544

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.23  E-value=0.00027  Score=78.56  Aligned_cols=219  Identities=15%  Similarity=0.159  Sum_probs=172.4

Q ss_pred             cchHHHHHHHHhcCCChHHHHHHHHHHHHhC-CC---CchHHHHHHHHHHHhCCChHHHHHHHhccCCC-C-chhHHHHH
Q 044628          162 HITFNSLLRACVQADDIEVGRRLHSFILKVG-FG---LNCFVSSALVDLYGKCGFVEDARRVFDEVLCR-D-LVLWNVMV  235 (665)
Q Consensus       162 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g-~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~li  235 (665)
                      ...|-.-|......+++++|+++.+++++.= +.   --.-+|.+++++-...|.-+...++|++..+- | ...|..|.
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~ 1537 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLL 1537 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHH
Confidence            4567777888889999999999999998751 11   12457888888888889889999999998664 3 35788999


Q ss_pred             HHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCC--chhHHHHHHHHHHhcCC
Q 044628          236 SCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDL--DVLVATSLVDMYAKNGN  313 (665)
Q Consensus       236 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~~~~~g~  313 (665)
                      ..|.+.+.+++|.++|+.|.+. ..-....|...+..+.+..+-+.|..++..+++.- +.  .+....-.+.+-.++|+
T Consensus      1538 ~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~l-Pk~eHv~~IskfAqLEFk~GD 1615 (1710)
T KOG1070|consen 1538 GIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSL-PKQEHVEFISKFAQLEFKYGD 1615 (1710)
T ss_pred             HHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhc-chhhhHHHHHHHHHHHhhcCC
Confidence            9999999999999999999876 23466778888889999999999999999988763 33  45566667778899999


Q ss_pred             HHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHH--HHHHHHHHhCCCCchHh
Q 044628          314 IDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEV--TLASILSSCGSLSISCE  382 (665)
Q Consensus       314 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~~~~~~~~~~~  382 (665)
                      .+.++.+|+....   +-...|+..|..-.++|+.+.+..+|++....++.|-..  .|...|..=.+.|+-+.
T Consensus      1616 aeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~ 1689 (1710)
T KOG1070|consen 1616 AERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKN 1689 (1710)
T ss_pred             chhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhh
Confidence            9999999998864   356789999999999999999999999999988877643  34444443333344333

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.23  E-value=0.0011  Score=60.85  Aligned_cols=225  Identities=12%  Similarity=-0.008  Sum_probs=117.0

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhH-HHHHHHHHHhCCCCchhHHHHHHHHH
Q 044628          331 SWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCET-RQVHAYAIKNGVQAFLSIENALINAY  409 (665)
Q Consensus       331 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a-~~i~~~~~~~g~~~~~~~~~~li~~~  409 (665)
                      .-.-|-++|...|.+...+.-   .. .|-.|....+..+-......++.+.- ..+.+.+.......+......-...|
T Consensus        43 ~d~y~~raylAlg~~~~~~~e---I~-~~~~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~  118 (299)
T KOG3081|consen   43 LDVYMYRAYLALGQYQIVISE---IK-EGKATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIY  118 (299)
T ss_pred             HHHHHHHHHHHcccccccccc---cc-cccCChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHh
Confidence            333455666666655433221   11 12233444443333333333333322 23334444443333333333334457


Q ss_pred             HhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh----cCCcHHHHH
Q 044628          410 SKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS----HGGLVSEGL  485 (665)
Q Consensus       410 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~----~~g~~~~a~  485 (665)
                      .+.|++++|.+.......  ....-.=...+.+..+.+-|.+.+++|.+-   -+..|.+-|.+++.    ..+.+.+|.
T Consensus       119 ~~~~~~deAl~~~~~~~~--lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAf  193 (299)
T KOG3081|consen  119 MHDGDFDEALKALHLGEN--LEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAF  193 (299)
T ss_pred             hcCCChHHHHHHHhccch--HHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHH
Confidence            777888888777777432  222222233445566677777777777752   24456655555543    234566777


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcC-CHHHHHHHHHHHHhc
Q 044628          486 RYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHG-SIGLAKWAAEKLLEL  562 (665)
Q Consensus       486 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~  562 (665)
                      -+|++|..  ...|+..+.+.+..+....|++++|..+++..  .-..++.+...++-.....| +.+.-.+...++...
T Consensus       194 yifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  194 YIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            77777765  35566666666666666666777776666666  22224445555554444444 334445556666666


Q ss_pred             CCCC
Q 044628          563 EPSK  566 (665)
Q Consensus       563 ~p~~  566 (665)
                      .|..
T Consensus       272 ~p~h  275 (299)
T KOG3081|consen  272 HPEH  275 (299)
T ss_pred             CCcc
Confidence            6654

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.17  E-value=0.00024  Score=70.79  Aligned_cols=144  Identities=13%  Similarity=0.079  Sum_probs=116.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHH
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEV-LSACSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTD  509 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~  509 (665)
                      .+--..-.+...|+.++|+..++.++..  .||...|..+ ...+...++.++|.+.++.+..   ..|+ ....-.+..
T Consensus       308 a~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~  382 (484)
T COG4783         308 AQYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQ  382 (484)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHH
Confidence            3334444566778999999999999886  7777666555 5578899999999999999987   4566 556678889


Q ss_pred             HHHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHH
Q 044628          510 LLGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVA  587 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~  587 (665)
                      +|.+.|++.+|+..+++.  ..+-|+..|..|..+|...|+..++..                 ..+..|+..|+|++|.
T Consensus       383 all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~-----------------A~AE~~~~~G~~~~A~  445 (484)
T COG4783         383 ALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALL-----------------ARAEGYALAGRLEQAI  445 (484)
T ss_pred             HHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHH-----------------HHHHHHHhCCCHHHHH
Confidence            999999999999999988  444478899999999999999776654                 4566788899999999


Q ss_pred             HHHHHHhhCC
Q 044628          588 RLRKMMRDNC  597 (665)
Q Consensus       588 ~~~~~m~~~~  597 (665)
                      ......+++.
T Consensus       446 ~~l~~A~~~~  455 (484)
T COG4783         446 IFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHhc
Confidence            9998887764

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.17  E-value=2.8e-06  Score=53.23  Aligned_cols=35  Identities=20%  Similarity=0.296  Sum_probs=32.3

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCH
Q 044628          229 VLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDY  263 (665)
Q Consensus       229 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  263 (665)
                      ++||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999973

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.15  E-value=3.7e-06  Score=52.71  Aligned_cols=35  Identities=31%  Similarity=0.639  Sum_probs=31.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS  465 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  465 (665)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999973

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.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.12  E-value=0.00061  Score=75.11  Aligned_cols=43  Identities=14%  Similarity=0.125  Sum_probs=24.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      +.-+-..|...++++.+..+++.+++.+|.|..+..-++..|.
T Consensus       226 ~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        226 LEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            3334445555556666666666666666666555555555554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.09  E-value=0.00014  Score=70.63  Aligned_cols=162  Identities=13%  Similarity=0.052  Sum_probs=112.9

Q ss_pred             hHHHHH-HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhh------
Q 044628          431 VTWTSI-IGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEH------  503 (665)
Q Consensus       431 ~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~------  503 (665)
                      .+|..+ ..++...|++++|.+.--..++.. ..+......-..++...++.+.|...|++.++   +.|+-..      
T Consensus       169 ~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~  244 (486)
T KOG0550|consen  169 FKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASM  244 (486)
T ss_pred             hHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhh
Confidence            444444 234566788888877766666542 11222222222234456777888888877764   3444221      


Q ss_pred             -------HHHHHHHHHhcCChHHHHHHHHhC-CCCCC-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 044628          504 -------YTCLTDLLGRVGLLVEAYDLLASM-PIEPR-----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNY  570 (665)
Q Consensus       504 -------~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  570 (665)
                             +..=.+-..+.|++.+|.+.+.+. .+.|+     +..|........+.|+.++|+...+.+++++|....+|
T Consensus       245 ~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikal  324 (486)
T KOG0550|consen  245 MPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKAL  324 (486)
T ss_pred             hHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHH
Confidence                   111223457889999999999988 55554     44455555667789999999999999999999999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          571 ALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       571 ~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ..-+++|...++|++|.+-+++....
T Consensus       325 l~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  325 LRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999888654

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.08  E-value=0.0001  Score=63.44  Aligned_cols=113  Identities=16%  Similarity=0.113  Sum_probs=87.7

Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CC
Q 044628          452 VFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PI  529 (665)
Q Consensus       452 ~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  529 (665)
                      .+++....  .|+. .....+...+...|++++|.+.|+.+...  .+.+...|..+...+.+.|++++|.+.+++. ..
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45555553  5544 34566667788889999999999988762  3446778888889999999999999988887 44


Q ss_pred             CC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044628          530 EP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       530 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                      .| +...+..+...+...|+.+.|...++++++++|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            55 4667777788889999999999999999999998755

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.05  E-value=0.00073  Score=61.50  Aligned_cols=166  Identities=19%  Similarity=0.201  Sum_probs=120.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHH--H-HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 044628          402 ENALINAYSKCGSIAGALQCFGSVKEPDLVTWTS--I-IGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHG  478 (665)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  478 (665)
                      |..++-+..-+|+.+.|..+++.+...=+.++..  | ..-+-..|++++|+++++...+.+ +.|.+++..=+...-..
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~  133 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQ  133 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHc
Confidence            3444445566788888888888765311111111  1 123456789999999999999875 44667777666666677


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcC---CHHHHH
Q 044628          479 GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHG---SIGLAK  553 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g---~~~~a~  553 (665)
                      |..-+|++-+....+  .+..|.+.|.-+.+.|...|+++.|.-.++++ -+.| ++..+..+.......|   +.+.++
T Consensus       134 GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~ar  211 (289)
T KOG3060|consen  134 GKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELAR  211 (289)
T ss_pred             CCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            887899888888887  57789999999999999999999999999998 4556 4555566665544443   788999


Q ss_pred             HHHHHHHhcCCCCCchH
Q 044628          554 WAAEKLLELEPSKPVNY  570 (665)
Q Consensus       554 ~~~~~~~~~~p~~~~~~  570 (665)
                      +.+.++++++|.+...+
T Consensus       212 kyy~~alkl~~~~~ral  228 (289)
T KOG3060|consen  212 KYYERALKLNPKNLRAL  228 (289)
T ss_pred             HHHHHHHHhChHhHHHH
Confidence            99999999999654443

>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=98.05  E-value=0.00013  Score=73.35  Aligned_cols=125  Identities=17%  Similarity=0.156  Sum_probs=102.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCc
Q 044628          402 ENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGL  480 (665)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~  480 (665)
                      ..+|+..+...++++.|..+|+++.+.+...+..++..+...++-.+|++++++..+.  .| |...+..-...|.+.++
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCC
Confidence            3456667777889999999999998777777777888888889999999999999875  44 44455555566889999


Q ss_pred             HHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhCCCCC
Q 044628          481 VSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASMPIEP  531 (665)
Q Consensus       481 ~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p  531 (665)
                      .+.|+++.+++..   ..| +-.+|..|+.+|.+.|++++|+-.++.+|..|
T Consensus       250 ~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  250 YELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             HHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            9999999999987   455 46699999999999999999999999997554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.04  E-value=0.00015  Score=63.20  Aligned_cols=114  Identities=14%  Similarity=0.052  Sum_probs=70.7

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCCh----hHHHHHHHHHHhcCCHHH
Q 044628          478 GGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRS----DTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~~~~~~g~~~~  551 (665)
                      .++...+.+.++.+.++++-.| .....-.+...+...|++++|.+.|+.. ...||.    .....|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            5666777777777766432221 1223334456667777777777777776 222332    234445566777788888


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          552 AKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKM  592 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~  592 (665)
                      |...++.. .-.+-.+..+..+|++|.+.|++++|+..|+.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            87777653 22333456677788888888888888887765

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.02  E-value=8.5e-06  Score=50.60  Aligned_cols=34  Identities=24%  Similarity=0.368  Sum_probs=29.9

Q ss_pred             chhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCC
Q 044628          228 LVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKG  261 (665)
Q Consensus       228 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  261 (665)
                      +.+||++|.+|++.|+++.|.++|++|++.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3589999999999999999999999999988887

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.00  E-value=1.1e-05  Score=50.01  Aligned_cols=33  Identities=24%  Similarity=0.512  Sum_probs=28.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP  463 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  463 (665)
                      .+|+++|.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888877

>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=97.98  E-value=7.8e-05  Score=59.14  Aligned_cols=94  Identities=19%  Similarity=0.164  Sum_probs=77.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASE  580 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  580 (665)
                      .+..+...+.+.|++++|.+.+++. ...|+ ...+..+...+...|+++.|...++++++..|.+...+..++.++...
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            3556677788889999999988887 44443 466777778888889999999999999999999888889999999999


Q ss_pred             CCHHHHHHHHHHHhhC
Q 044628          581 RCWFDVARLRKMMRDN  596 (665)
Q Consensus       581 g~~~~A~~~~~~m~~~  596 (665)
                      |++++|...++...+.
T Consensus        82 ~~~~~a~~~~~~~~~~   97 (100)
T cd00189          82 GKYEEALEAYEKALEL   97 (100)
T ss_pred             HhHHHHHHHHHHHHcc
Confidence            9999999998877643

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.96  E-value=2.8e-05  Score=72.49  Aligned_cols=119  Identities=18%  Similarity=0.151  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHh
Q 044628          448 ESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLAS  526 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  526 (665)
                      +...+-++++..|            .-..+.+++++|+..|..+++   +.| |...|..=..+|.+.|.++.|++-.+.
T Consensus        76 e~~~~AE~LK~eG------------N~~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~  140 (304)
T KOG0553|consen   76 EDKALAESLKNEG------------NKLMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCES  140 (304)
T ss_pred             hHHHHHHHHHHHH------------HHHHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            4555556666654            457788999999999999987   555 566677778899999999999998888


Q ss_pred             C-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 044628          527 M-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER  581 (665)
Q Consensus       527 ~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  581 (665)
                      . .+.|. ..+|..|..++...|++++|++.|+++++++|++......|..+--+.+
T Consensus       141 Al~iDp~yskay~RLG~A~~~~gk~~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~  197 (304)
T KOG0553|consen  141 ALSIDPHYSKAYGRLGLAYLALGKYEEAIEAYKKALELDPDNESYKSNLKIAEQKLN  197 (304)
T ss_pred             HHhcChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhccCCCcHHHHHHHHHHHHHhc
Confidence            7 77775 6689999999999999999999999999999998765555544433333

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.96  E-value=0.0055  Score=67.86  Aligned_cols=149  Identities=13%  Similarity=0.115  Sum_probs=94.7

Q ss_pred             HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcC
Q 044628          365 VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHG  444 (665)
Q Consensus       365 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  444 (665)
                      ..+..+..+|.+.|+.+++..+++.+++.. +.++.+.|.+...|+.. ++++|.+++.+.           +..|...+
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~k  183 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKK  183 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhh
Confidence            355566666677777777777777777766 55677778888888888 888888777664           33467777


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHH
Q 044628          445 LSKESIEVFEKMLSHAVRPDSIA-FLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL  523 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  523 (665)
                      ++.++.++|.++...  .|+... |..+++                .+....+..--+.++-.+...|-...++++++++
T Consensus       184 q~~~~~e~W~k~~~~--~~~d~d~f~~i~~----------------ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~i  245 (906)
T PRK14720        184 QYVGIEEIWSKLVHY--NSDDFDFFLRIER----------------KVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYI  245 (906)
T ss_pred             cchHHHHHHHHHHhc--CcccchHHHHHHH----------------HHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHH
Confidence            888888888888875  444332 222222                2222222223344555566667777778888888


Q ss_pred             HHhC-CCCC-ChhHHHHHHHHHH
Q 044628          524 LASM-PIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       524 ~~~~-~~~p-~~~~~~~ll~~~~  544 (665)
                      ++.+ ...| |.....-++..|+
T Consensus       246 LK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        246 LKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhcCCcchhhHHHHHHHHH
Confidence            8877 4444 3444445555544

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.95  E-value=1.1e-05  Score=62.65  Aligned_cols=78  Identities=19%  Similarity=0.173  Sum_probs=53.8

Q ss_pred             cCChHHHHHHHHhC----CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHH
Q 044628          514 VGLLVEAYDLLASM----PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARL  589 (665)
Q Consensus       514 ~g~~~~A~~~~~~~----~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~  589 (665)
                      .|++++|+.+++++    +..|+...|..+..++...|++++|..++++ .+.+|.++.....++.+|.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            46667777777666    2222445566677777788888888888877 667776666677778888888888888887


Q ss_pred             HHH
Q 044628          590 RKM  592 (665)
Q Consensus       590 ~~~  592 (665)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            764

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.94  E-value=0.00014  Score=68.01  Aligned_cols=100  Identities=15%  Similarity=0.205  Sum_probs=82.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhc
Q 044628          437 IGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRV  514 (665)
Q Consensus       437 i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  514 (665)
                      .+-+.+.+++.+|+..|.+.++.  .| |.+-|..-..+|++.|.++.|++-.+..++   +.|. ...|..|..+|...
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~  162 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLAL  162 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHcc
Confidence            34567889999999999999985  55 556777778899999999999998888876   5564 67899999999999


Q ss_pred             CChHHHHHHHHhC-CCCCChhHHHHHHH
Q 044628          515 GLLVEAYDLLASM-PIEPRSDTLGAFIG  541 (665)
Q Consensus       515 g~~~~A~~~~~~~-~~~p~~~~~~~ll~  541 (665)
                      |++++|++.|++. .+.|+..+|..=|.
T Consensus       163 gk~~~A~~aykKaLeldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  163 GKYEEAIEAYKKALELDPDNESYKSNLK  190 (304)
T ss_pred             CcHHHHHHHHHhhhccCCCcHHHHHHHH
Confidence            9999999999998 88998777665443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.93  E-value=0.00012  Score=74.14  Aligned_cols=102  Identities=17%  Similarity=0.070  Sum_probs=61.5

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHH
Q 044628          473 SACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIG  550 (665)
Q Consensus       473 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~  550 (665)
                      ..+...|++++|++.|+++++.  -+.+...|..+..+|.+.|++++|+..++++ .+.| +...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHH
Confidence            3445556677777777666651  2224555666666666666666666666666 4444 3445555666666666666


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHH
Q 044628          551 LAKWAAEKLLELEPSKPVNYALVSNV  576 (665)
Q Consensus       551 ~a~~~~~~~~~~~p~~~~~~~~l~~~  576 (665)
                      +|+..++++++++|+++.....+..+
T Consensus        88 eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         88 TAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            66666666666666665555544333

>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=97.89  E-value=3e-05  Score=57.57  Aligned_cols=64  Identities=14%  Similarity=0.037  Sum_probs=58.8

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC-CHHHHHHHHHHHhh
Q 044628          532 RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER-CWFDVARLRKMMRD  595 (665)
Q Consensus       532 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g-~~~~A~~~~~~m~~  595 (665)
                      ++.+|..+...+...|++++|+..++++++++|+++.+|..++.+|...| ++++|.+.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            46788889999999999999999999999999999999999999999999 79999999988764

...

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.87  E-value=0.00017  Score=60.39  Aligned_cols=92  Identities=11%  Similarity=-0.033  Sum_probs=45.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC-CCCCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHHHH
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASM-PIEPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK---PVNYALVSNV  576 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~  576 (665)
                      ..++..+.+.|++++|.+.++.+ ...|+    ...+..+..++...|+++.|...++.+++..|++   +.++..++.+
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            33444445555555555555444 21222    1233334445555555555555555555555443   2344555555


Q ss_pred             HHhcCCHHHHHHHHHHHhhC
Q 044628          577 YASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       577 y~~~g~~~~A~~~~~~m~~~  596 (665)
                      |.+.|++++|.+.++.+.+.
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHH
Confidence            55555555555555555443

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.84  E-value=0.005  Score=56.67  Aligned_cols=147  Identities=13%  Similarity=0.027  Sum_probs=98.1

Q ss_pred             HHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-CChhHHHHHHHHHHh----cCCh
Q 044628          372 SSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-PDLVTWTSIIGAYAF----HGLS  446 (665)
Q Consensus       372 ~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~  446 (665)
                      ..|...++++.|........      +......=+..+.|..+++-|.+.+++|.+ .+..+.+.|..++.+    .+..
T Consensus       116 ~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~  189 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKI  189 (299)
T ss_pred             HHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhh
Confidence            34555566666555443311      111112224456677788888888888886 344566666666654    3567


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHH-HHHH
Q 044628          447 KESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAY-DLLA  525 (665)
Q Consensus       447 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~-~~~~  525 (665)
                      .+|.-+|++|-++ ..|+..+.+....+|...|++++|..+++....+  -..+.++...++-+-.-.|...++. +.+.
T Consensus       190 qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k--d~~dpetL~Nliv~a~~~Gkd~~~~~r~l~  266 (299)
T KOG3081|consen  190 QDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK--DAKDPETLANLIVLALHLGKDAEVTERNLS  266 (299)
T ss_pred             hhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            8899999999875 5888889999999999999999999999988873  3445667777776666677665544 3344


Q ss_pred             hC
Q 044628          526 SM  527 (665)
Q Consensus       526 ~~  527 (665)
                      +.
T Consensus       267 QL  268 (299)
T KOG3081|consen  267 QL  268 (299)
T ss_pred             HH
Confidence            44

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.83  E-value=0.0015  Score=59.61  Aligned_cols=163  Identities=13%  Similarity=0.130  Sum_probs=128.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEV-LSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDL  510 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  510 (665)
                      .|..++-+....|+.+.|...++++... + |.+.-...+ ..-+...|.+++|+++++...++  -+.|...|---+-+
T Consensus        54 l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d--dpt~~v~~KRKlAi  129 (289)
T KOG3060|consen   54 LYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED--DPTDTVIRKRKLAI  129 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc--CcchhHHHHHHHHH
Confidence            3445566677889999999999999887 2 655322222 11245578999999999999984  34466677766777


Q ss_pred             HHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC---CHHH
Q 044628          511 LGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER---CWFD  585 (665)
Q Consensus       511 ~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g---~~~~  585 (665)
                      +-..|+--+|++-+...  .+..|...|.-|...|...|+++.|.-.+++++=++|.++..+..+++++.-.|   +.+-
T Consensus       130 lka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~  209 (289)
T KOG3060|consen  130 LKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLEL  209 (289)
T ss_pred             HHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHH
Confidence            77788888998887776  566799999999999999999999999999999999999999999999987666   5556


Q ss_pred             HHHHHHHHhhCCC
Q 044628          586 VARLRKMMRDNCD  598 (665)
Q Consensus       586 A~~~~~~m~~~~~  598 (665)
                      |++.+.+..+...
T Consensus       210 arkyy~~alkl~~  222 (289)
T KOG3060|consen  210 ARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHHHHhCh
Confidence            7777777766544

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.83  E-value=0.00096  Score=58.02  Aligned_cols=125  Identities=19%  Similarity=0.171  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hhhHH
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS----IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD--SEHYT  505 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~  505 (665)
                      .|..++..+ ..++...+.+.++.+.+.  .|+.    .....+...+...|++++|...|+.+... .-.|.  .....
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l   89 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHH
Confidence            344445554 467778888888888875  3333    23334456677788888888888888773 22222  22344


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCCCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044628          506 CLTDLLGRVGLLVEAYDLLASMPIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLL  560 (665)
Q Consensus       506 ~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  560 (665)
                      .|..++...|++++|+..++..+..+ ....+......+...|+.++|+..|++++
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            56777888888888888887763222 34456666677888888888888887753

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.83  E-value=0.00019  Score=67.49  Aligned_cols=106  Identities=15%  Similarity=0.102  Sum_probs=89.8

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhc---CCHHHHHHHHHHHHhcCCCCCchHHH
Q 044628          498 LPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVH---GSIGLAKWAAEKLLELEPSKPVNYAL  572 (665)
Q Consensus       498 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~p~~~~~~~~  572 (665)
                      +-|.+.|-.|...|.+.|+.+.|..-|.+. .+.| ++..+..+..++...   ....++..+++++++++|.|..+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            457899999999999999999999999988 5555 466677776665443   25688999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCccCCc
Q 044628          573 VSNVYASERCWFDVARLRKMMRDNCDHKVPG  603 (665)
Q Consensus       573 l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~  603 (665)
                      |+-.+...|++.+|...|+.|.+......|.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~r  263 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDPR  263 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCch
Confidence            9999999999999999999999877654443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.81  E-value=0.052  Score=55.21  Aligned_cols=77  Identities=16%  Similarity=0.232  Sum_probs=58.1

Q ss_pred             ChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccC--CCCcccHHHHHHHH
Q 044628           62 AHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMR--VRNIVTWNTLISGI  139 (665)
Q Consensus        62 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~  139 (665)
                      |...|..|++-+... ..++++..++++... ++.++..|..-|..-.+..+++...++|.+-.  .-++..|.+-|+-.
T Consensus        19 di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~YV   96 (656)
T KOG1914|consen   19 DIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLSYV   96 (656)
T ss_pred             cHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHHH
Confidence            566788888877665 788888888888763 46677788888888888899999999988643  34566777777644


Q ss_pred             H
Q 044628          140 I  140 (665)
Q Consensus       140 ~  140 (665)
                      -
T Consensus        97 R   97 (656)
T KOG1914|consen   97 R   97 (656)
T ss_pred             H
Confidence            3

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.80  E-value=5.3e-05  Score=55.40  Aligned_cols=59  Identities=15%  Similarity=0.135  Sum_probs=49.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +...+...|++++|+..++++++.+|+++.++..++.++...|++++|...++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34567788899999999999999999988999999999999999999999888886543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.80  E-value=0.00034  Score=58.48  Aligned_cols=104  Identities=13%  Similarity=0.148  Sum_probs=68.1

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----hhHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR----SDTLGAFI  540 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll  540 (665)
                      ++..+...+...|++++|.+.|+.+.+.+.-.+ ....+..+..++.+.|++++|.+.++.+ ...|+    ..++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455556666777777777777765321111 1334555677777777777777777776 32333    34566677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 044628          541 GACKVHGSIGLAKWAAEKLLELEPSKPVNY  570 (665)
Q Consensus       541 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  570 (665)
                      .++...|+.+.|...++++++..|+++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  113 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAK  113 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHH
Confidence            777888888888888888888888865543

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.80  E-value=2.4e-05  Score=47.32  Aligned_cols=31  Identities=32%  Similarity=0.462  Sum_probs=25.1

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHHHHCCC
Q 044628          229 VLWNVMVSCYALNCLGDGAIAVFNLMRLEGM  259 (665)
Q Consensus       229 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  259 (665)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4688888888888888888888888887764

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.77  E-value=3.1e-05  Score=46.79  Aligned_cols=31  Identities=23%  Similarity=0.542  Sum_probs=26.1

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHhhCCC
Q 044628          330 VSWNTMVVGFGQNGDGREAVKLLRDMLQGSF  360 (665)
Q Consensus       330 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  360 (665)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888888764

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.76  E-value=0.0003  Score=63.29  Aligned_cols=82  Identities=18%  Similarity=0.063  Sum_probs=60.4

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSN  575 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  575 (665)
                      ...+..+...+.+.|++++|...|++. ...|+    ...|..+...+...|+++.|+..++++++..|+++..+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            344556666667777777777777666 22222    3467777778888888888888888888888888888888888


Q ss_pred             HHHhcCC
Q 044628          576 VYASERC  582 (665)
Q Consensus       576 ~y~~~g~  582 (665)
                      +|...|+
T Consensus       115 ~~~~~g~  121 (172)
T PRK02603        115 IYHKRGE  121 (172)
T ss_pred             HHHHcCC
Confidence            8888776

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=97.74  E-value=1.8e-05  Score=64.78  Aligned_cols=51  Identities=45%  Similarity=0.743  Sum_probs=39.4

Q ss_pred             ceeEEEECCEEEEEEeCCCCCcchHHHHHHHHHHHHHHHhh-ccCCc-ccc--cCcc--------chhcccCCCC
Q 044628          603 GCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEEN-NVSGH-CNV--LDKE--------MDECTLWLPG  665 (665)
Q Consensus       603 ~~s~i~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~-~~~~~-~~~--~~~~--------~~~~~~~~hs  665 (665)
                      |+||+++    |.|++||.+||+.        ++..+++.. |.|++ .++  ++++        +++..+++||
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HS   64 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHS   64 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccH
Confidence            7999876    9999999999998        455566666 88888 655  4444        4477999997

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.72  E-value=0.0003  Score=63.05  Aligned_cols=94  Identities=14%  Similarity=-0.105  Sum_probs=75.8

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVS  574 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  574 (665)
                      ....|..++..+...|++++|+..|++. .+.|+    ..+|..+...+...|+.++|+..++++++++|.....+..++
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            3556677777788889999999988887 33333    347888888999999999999999999999999988888889


Q ss_pred             HHHH-------hcCCHHHHHHHHHHH
Q 044628          575 NVYA-------SERCWFDVARLRKMM  593 (665)
Q Consensus       575 ~~y~-------~~g~~~~A~~~~~~m  593 (665)
                      .+|.       +.|++++|...+++.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            8888       888888666666544

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.71  E-value=0.00049  Score=69.63  Aligned_cols=103  Identities=13%  Similarity=0.128  Sum_probs=84.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHh
Q 044628          436 IIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGR  513 (665)
Q Consensus       436 li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  513 (665)
                      ....+...|++++|++.|++.++.  .| +...+..+..++...|++++|+..++.++.   +.| +...|..+..+|..
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~---l~P~~~~a~~~lg~~~~~   82 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIE---LDPSLAKAYLRKGTACMK   82 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHHH
Confidence            355677889999999999999986  55 456788888899999999999999999987   344 57788889999999


Q ss_pred             cCChHHHHHHHHhC-CCCCChhHHHHHHHHH
Q 044628          514 VGLLVEAYDLLASM-PIEPRSDTLGAFIGAC  543 (665)
Q Consensus       514 ~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~  543 (665)
                      .|++++|+..|++. .+.|+......++..|
T Consensus        83 lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         83 LEEYQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             hCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            99999999999998 6677766555555444

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.66  E-value=0.075  Score=52.53  Aligned_cols=106  Identities=19%  Similarity=0.111  Sum_probs=67.5

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHH
Q 044628          405 LINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEG  484 (665)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  484 (665)
                      -|.-+...|+...|.++-.+..-||-.-|-..+.+|+..+++++-.++...      +-.++-|-..+.+|...|...+|
T Consensus       183 Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA  256 (319)
T PF04840_consen  183 TIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEA  256 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHH
Confidence            344455667777777777777667777777777777777777766654322      11235566667777777777777


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          485 LRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       485 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      ..+...+.           +..-+.+|.++|++.+|.+.-.+.
T Consensus       257 ~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  257 SKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            76665521           234466777777777776664443

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

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.65  E-value=0.07  Score=52.05  Aligned_cols=241  Identities=18%  Similarity=0.179  Sum_probs=156.5

Q ss_pred             cCCChHHHHHHHHHHhhCCCCCCH--HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 044628          341 QNGDGREAVKLLRDMLQGSFCPDE--VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGA  418 (665)
Q Consensus       341 ~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  418 (665)
                      -.|+++.|.+-|+.|...   |..  .-+..|.-..-+.|+.+.+++.-...-..- +.-.....+.++..+..|+++.|
T Consensus       132 ~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             hcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHH
Confidence            356777777777777642   221  223333334456666666666655544332 12234456778888888888888


Q ss_pred             HHHHhcCC-----CCChhH--HHHHHHHHH---hcCChHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHhcCCcHHHHHHH
Q 044628          419 LQCFGSVK-----EPDLVT--WTSIIGAYA---FHGLSKESIEVFEKMLSHAVRPDSIA-FLEVLSACSHGGLVSEGLRY  487 (665)
Q Consensus       419 ~~~~~~~~-----~~~~~~--~~~li~~~~---~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~g~~~~a~~~  487 (665)
                      +++.+.-.     ++|+.-  --.|+.+-+   -.-+...|...-.+..+  +.||.+. -.....++.+.|++.++-.+
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhH
Confidence            88887544     344432  222333221   22356667666666655  5788753 34445688999999999999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          488 FNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       488 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      ++.+-+   ..|....+.    +|.+..--+.+++-+++.    .++|| ..+...+..+....|++..|+.-.+.+...
T Consensus       286 lE~aWK---~ePHP~ia~----lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~  358 (531)
T COG3898         286 LETAWK---AEPHPDIAL----LYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE  358 (531)
T ss_pred             HHHHHh---cCCChHHHH----HHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh
Confidence            999865   456665443    344443334455544444    45664 556667778888999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhc-CCHHHHHHHHHHHhh
Q 044628          563 EPSKPVNYALVSNVYASE-RCWFDVARLRKMMRD  595 (665)
Q Consensus       563 ~p~~~~~~~~l~~~y~~~-g~~~~A~~~~~~m~~  595 (665)
                      .|. .+.|.+|+++-... |+-.+++..+-+..+
T Consensus       359 ~pr-es~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         359 APR-ESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             Cch-hhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            998 68899999997766 998888888776654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.65  E-value=0.0013  Score=59.07  Aligned_cols=131  Identities=13%  Similarity=0.106  Sum_probs=82.5

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHH
Q 044628          429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD--SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTC  506 (665)
Q Consensus       429 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~  506 (665)
                      ....+..+...+...|++++|...|++..+....++  ...+..+...+.+.|++++|...+++..+.  .+-+...+..
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  111 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNN  111 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHH
Confidence            344566666677777788888887777776433322  245666666777777777777777777652  1223455555


Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          507 LTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       507 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      +..++...|+...+..-++..                  ...+++|.+.++++++.+|++   |..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            666666666655544332221                  112677888999999999986   5566666665554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.65  E-value=0.0021  Score=68.06  Aligned_cols=65  Identities=22%  Similarity=0.088  Sum_probs=44.8

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          532 RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       532 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +...+.++.-.....|++++|...++++++++|+ ...|..++.+|...|+.++|.+.+++.....
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLEMS-WLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3455555555555567777777777777777773 6677777777777777777777777766554

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.61  E-value=0.0018  Score=63.15  Aligned_cols=133  Identities=13%  Similarity=0.137  Sum_probs=100.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA-CSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTD  509 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  509 (665)
                      .+|-.++...-+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.  +..+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            467788888888888999999999998543 2233344433333 33457777899999999984  5667888999999


Q ss_pred             HHHhcCChHHHHHHHHhC-CCCCCh----hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          510 LLGRVGLLVEAYDLLASM-PIEPRS----DTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      .+.+.|+.+.|..+|++. ..-|..    ..|...+..-...|+.+....+.+++.+.-|++
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~  140 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPED  140 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhh
Confidence            999999999999999998 333333    489999999999999999999999999988874

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.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.59  E-value=0.17  Score=54.86  Aligned_cols=123  Identities=13%  Similarity=0.092  Sum_probs=65.1

Q ss_pred             ccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHh--hcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCchHHHHH
Q 044628           75 KFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVY--VKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRR  152 (665)
Q Consensus        75 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~--~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~~~~~~~  152 (665)
                      ..+++..|.+....+.+..  |+. .|...+.++  .|.|+.++|..+++....+                         
T Consensus        21 d~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~-------------------------   72 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGL-------------------------   72 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccC-------------------------
Confidence            4456777777777766643  333 233333333  4677778887777665321                         


Q ss_pred             hhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChH----HHHHHHhccCCCCc
Q 044628          153 MLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVE----DARRVFDEVLCRDL  228 (665)
Q Consensus       153 m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~----~A~~~~~~~~~~~~  228 (665)
                          +.. |..|...+-.+|...+..++|..++++..+.  .|+......+..+|.|.+.+.    .|.+++...+++--
T Consensus        73 ----~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~y  145 (932)
T KOG2053|consen   73 ----KGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAY  145 (932)
T ss_pred             ----CCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccc
Confidence                111 4445555555555666666666666665553  344555555555555555443    34455554444333


Q ss_pred             hhHH
Q 044628          229 VLWN  232 (665)
Q Consensus       229 ~~~~  232 (665)
                      .-|+
T Consensus       146 yfWs  149 (932)
T KOG2053|consen  146 YFWS  149 (932)
T ss_pred             hHHH
Confidence            3343

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.59  E-value=0.099  Score=52.15  Aligned_cols=269  Identities=12%  Similarity=0.043  Sum_probs=139.9

Q ss_pred             CCCHhhHHHHHHHHhcc--CCcHHHHHHHHHHHHhCCCCchh-HHHHHHHHHHhcCCHHHHHHHHhccC--------CCC
Q 044628          260 KGDYFTFSSLVNSCGTL--GSSKLGRQIHGLVIKQSFDLDVL-VATSLVDMYAKNGNIDDACRVFDGMT--------AKN  328 (665)
Q Consensus       260 ~p~~~t~~~ll~~~~~~--~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~--------~~~  328 (665)
                      .|....+..++....-.  ..+.--.+++....+.-+.|+-. +...|+.-+.+  +.+++..+.+.+.        +.=
T Consensus       220 ~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~l  297 (549)
T PF07079_consen  220 IPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEEL  297 (549)
T ss_pred             CcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHH
Confidence            34444444444443222  23334445555555555555433 34445555544  4444444443332        234


Q ss_pred             chhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHH-------HHHhC-CCCc---hHhHHHHHHHHHHhCCCC
Q 044628          329 VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASI-------LSSCG-SLSI---SCETRQVHAYAIKNGVQA  397 (665)
Q Consensus       329 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-------l~~~~-~~~~---~~~a~~i~~~~~~~g~~~  397 (665)
                      +.++..++....+.++..+|-..+.-+.-  +.|+...-..+       -+..+ .-..   +..-..+|..+...++..
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~--ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr  375 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKI--LDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR  375 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHh--cCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH
Confidence            45788888888899999988888776654  23433211111       11111 1111   222223333333333322


Q ss_pred             chhHHHHHH---HHHHhcCC-HHHHHHHHhcCCC---CChhHHHHHHH----HHHhc---CChHHHHHHHHHHHHcCCCC
Q 044628          398 FLSIENALI---NAYSKCGS-IAGALQCFGSVKE---PDLVTWTSIIG----AYAFH---GLSKESIEVFEKMLSHAVRP  463 (665)
Q Consensus       398 ~~~~~~~li---~~~~~~g~-~~~A~~~~~~~~~---~~~~~~~~li~----~~~~~---g~~~~A~~~~~~m~~~g~~p  463 (665)
                      ..-+ .-|+   .-+-+.|. -++|.++++.+.+   -|...-|....    +|.+.   ....+-+.+-+-..+.|+.|
T Consensus       376 qQLv-h~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~  454 (549)
T PF07079_consen  376 QQLV-HYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTP  454 (549)
T ss_pred             HHHH-HHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCc
Confidence            1111 1122   22334444 7778888877653   45544443322    22211   22333444444455567776


Q ss_pred             CHH----HHHHHHHH--HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHH
Q 044628          464 DSI----AFLEVLSA--CSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLG  537 (665)
Q Consensus       464 ~~~----t~~~ll~a--~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~  537 (665)
                      -.+    .-+.|.+|  +...|++.++.-+-.-+.+   +.|++.+|.-+.-.+....+++||.+++...|  |+..+|.
T Consensus       455 i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~---iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~d  529 (549)
T PF07079_consen  455 ITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK---IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMRD  529 (549)
T ss_pred             ccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH---hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhHH
Confidence            332    23333333  4556888887766555554   77888888888888888888888888888874  4665655


Q ss_pred             H
Q 044628          538 A  538 (665)
Q Consensus       538 ~  538 (665)
                      +
T Consensus       530 s  530 (549)
T PF07079_consen  530 S  530 (549)
T ss_pred             H
Confidence            4

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=97.56  E-value=0.00084  Score=52.97  Aligned_cols=88  Identities=23%  Similarity=0.204  Sum_probs=40.6

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a  552 (665)
                      +...|++++|...++.+.+.  .+.+...+..+...+...|++++|.+.+++. ...| +..++..+...+...|+.+.|
T Consensus        10 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a   87 (100)
T cd00189          10 YYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEA   87 (100)
T ss_pred             HHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHHH
Confidence            33344444444444444331  1112233444444444455555555555443 2222 223455555555555666666


Q ss_pred             HHHHHHHHhcCC
Q 044628          553 KWAAEKLLELEP  564 (665)
Q Consensus       553 ~~~~~~~~~~~p  564 (665)
                      ...++++++..|
T Consensus        88 ~~~~~~~~~~~~   99 (100)
T cd00189          88 LEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHccCC
Confidence            666666555554

>PRK15331 chaperone protein SicA; Provisional

Probab=97.56  E-value=0.0018  Score=55.71  Aligned_cols=89  Identities=10%  Similarity=-0.030  Sum_probs=77.4

Q ss_pred             HHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHH
Q 044628          507 LTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWF  584 (665)
Q Consensus       507 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~  584 (665)
                      ...-+...|++++|..+|+-. -..| +...|..|...|...++++.|+..+..+..++++||..+...+.+|...|+.+
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~~~~  122 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHH
Confidence            344566889999999999887 2333 45678888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 044628          585 DVARLRKMMRD  595 (665)
Q Consensus       585 ~A~~~~~~m~~  595 (665)
                      +|+..|....+
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            99999998875

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.55  E-value=0.19  Score=54.46  Aligned_cols=62  Identities=16%  Similarity=0.051  Sum_probs=38.3

Q ss_pred             HHHHHHHHhcCCH---HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          537 GAFIGACKVHGSI---GLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       537 ~~ll~~~~~~g~~---~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      +.|+..|++.++.   -+|+-+++..+...|.|...-..|+.+|.-.|-...|.++++.+.-+.+
T Consensus       440 ~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~I  504 (932)
T KOG2053|consen  440 NHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNI  504 (932)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHh
Confidence            4455666665543   3455555666666666666666667777777777777777666654443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.52  E-value=0.00034  Score=51.07  Aligned_cols=61  Identities=23%  Similarity=0.204  Sum_probs=49.8

Q ss_pred             HHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          507 LTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       507 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      +...+.+.|++++|++.|++. ...| +...|..+..++...|++++|...++++++..|++|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            456788889999999999888 5566 466788888889999999999999999999999864

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.52  E-value=0.088  Score=52.02  Aligned_cols=111  Identities=13%  Similarity=0.055  Sum_probs=87.3

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVH  546 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~  546 (665)
                      +.+.-+.-|...|....|.++-...    .+ |+...|...+.+|+..|++++-.++...   +-.+.-|..++.+|...
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F----kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF----KV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLKY  250 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc----CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHHC
Confidence            4555566677788888887775544    44 8999999999999999999998887664   23457789999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          547 GSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       547 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      |+..+|..+..+         ..+..-..+|.++|+|.+|.+.--+.+
T Consensus       251 ~~~~eA~~yI~k---------~~~~~rv~~y~~~~~~~~A~~~A~~~k  289 (319)
T PF04840_consen  251 GNKKEASKYIPK---------IPDEERVEMYLKCGDYKEAAQEAFKEK  289 (319)
T ss_pred             CCHHHHHHHHHh---------CChHHHHHHHHHCCCHHHHHHHHHHcC
Confidence            999999888877         112567889999999999988754443

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.51  E-value=0.00014  Score=53.70  Aligned_cols=53  Identities=19%  Similarity=0.219  Sum_probs=43.9

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...|++++|+..++++++.+|+++.++..++.+|.+.|++++|..+++++...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            35688888899999988888988888888899999999999998888877654

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.51  E-value=0.00035  Score=52.45  Aligned_cols=57  Identities=12%  Similarity=0.010  Sum_probs=50.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          541 GACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       541 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ..+...++++.|.++++++++++|+++..+...+.+|...|++++|.+.+++..+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            567788999999999999999999999999999999999999999999998887654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.50  E-value=8.4e-05  Score=45.70  Aligned_cols=33  Identities=21%  Similarity=0.398  Sum_probs=31.0

Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHH
Q 044628          556 AEKLLELEPSKPVNYALVSNVYASERCWFDVAR  588 (665)
Q Consensus       556 ~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~  588 (665)
                      ++++++++|+++.+|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            688999999999999999999999999999863

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.48  E-value=0.018  Score=50.05  Aligned_cols=132  Identities=16%  Similarity=0.135  Sum_probs=103.7

Q ss_pred             CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC-CChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC---ChhH
Q 044628          461 VRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHIL-PDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP---RSDT  535 (665)
Q Consensus       461 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~  535 (665)
                      +.|....-..|..+....|+..+|...|++...  |+- -|....-.+..+....++..+|...+++. ...|   .+..
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qals--G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALS--GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc--cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc
Confidence            367776777788888899999999999998877  543 46667777888888889999999888887 2223   2334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ...+.+.+...|..+.|+..|+.++.--|. +..-...+.+++++|+.++|..-+..+.+
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            455668889999999999999999999886 77788889999999999888766555543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.46  E-value=0.004  Score=65.90  Aligned_cols=143  Identities=15%  Similarity=0.033  Sum_probs=105.4

Q ss_pred             CCCCChhHHHHHHHHHHhcC-----ChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcC--------CcHHHHHHHHHH
Q 044628          425 VKEPDLVTWTSIIGAYAFHG-----LSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHG--------GLVSEGLRYFNL  490 (665)
Q Consensus       425 ~~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~--------g~~~~a~~~~~~  490 (665)
                      ....|...|...+.|.....     +..+|..+|++..+.  .||.. .+..+..++...        +.+..+.+..+.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            33578899999998865432     367899999999985  78764 455544433221        123344444444


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 044628          491 MISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       491 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  569 (665)
                      .........+...|..+.-.....|++++|...++++ ...|+...|..+...+...|+.++|...+++++.++|.++..
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~  489 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTL  489 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchH
Confidence            3331123345577888877777889999999999999 778888889999999999999999999999999999998753

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.44  E-value=0.0034  Score=54.33  Aligned_cols=105  Identities=17%  Similarity=0.161  Sum_probs=92.4

Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC---CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CC
Q 044628          493 SDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM---PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS--KP  567 (665)
Q Consensus       493 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~  567 (665)
                      ++..+-|++..--.|...+.+.|+..||...|++.   .+.-|......+..+....++...|...++++.+.+|.  .|
T Consensus        81 ~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~p  160 (251)
T COG4700          81 EELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSP  160 (251)
T ss_pred             HHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCC
Confidence            33456788888889999999999999999999998   45557888888889999999999999999999999887  67


Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          568 VNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .....++..|...|++++|+..|+.....-
T Consensus       161 d~~Ll~aR~laa~g~~a~Aesafe~a~~~y  190 (251)
T COG4700         161 DGHLLFARTLAAQGKYADAESAFEVAISYY  190 (251)
T ss_pred             CchHHHHHHHHhcCCchhHHHHHHHHHHhC
Confidence            788899999999999999999999887654

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.37  E-value=0.0005  Score=53.27  Aligned_cols=80  Identities=20%  Similarity=0.299  Sum_probs=40.2

Q ss_pred             cCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHH
Q 044628          443 HGLSKESIEVFEKMLSHAVR-PDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEA  520 (665)
Q Consensus       443 ~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A  520 (665)
                      .|+++.|+.+|+++.+.... |+...+..+..++.+.|++++|.++++. .+   ..| +......+..++.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~---~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK---LDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT---HHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC---CCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            45666666666666664221 1233344455666666666666666655 11   112 223333345556666666666


Q ss_pred             HHHHHh
Q 044628          521 YDLLAS  526 (665)
Q Consensus       521 ~~~~~~  526 (665)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            666553

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.37  E-value=0.19  Score=50.19  Aligned_cols=409  Identities=11%  Similarity=0.094  Sum_probs=223.1

Q ss_pred             hcCCChHHHHHHHHHHHHhCCCC-----chHHHHHHHHHHHhCCChHHHHHHHhccCCC-CchhHHHHHHHH--HhcCCc
Q 044628          173 VQADDIEVGRRLHSFILKVGFGL-----NCFVSSALVDLYGKCGFVEDARRVFDEVLCR-DLVLWNVMVSCY--ALNCLG  244 (665)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~g~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~--~~~g~~  244 (665)
                      -+.+++.++..+|.++.+..-..     .....+.++++|.. .+++.....+.+..+. ....|-.+..++  -+.+.+
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k~~   95 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQKEY   95 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhhH
Confidence            36678889998888887653221     13445667777764 3444444444443221 133455555543  467888


Q ss_pred             hHHHHHHHHHHHC--CCCC------------CHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCC----CCchhHHHHHHH
Q 044628          245 DGAIAVFNLMRLE--GMKG------------DYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSF----DLDVLVATSLVD  306 (665)
Q Consensus       245 ~~A~~~~~~m~~~--g~~p------------~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~----~~~~~~~~~li~  306 (665)
                      .+|++.+..-.+.  +-.|            |-.-=+.....+...|.+.+|+.+++.++..=+    ..+..+|+.++-
T Consensus        96 ~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vl  175 (549)
T PF07079_consen   96 RKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVL  175 (549)
T ss_pred             HHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHH
Confidence            8888888776554  3222            111123455667888999999988888776544    478888888777


Q ss_pred             HHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcC-------------------------------CChHHHHHHHHHH
Q 044628          307 MYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQN-------------------------------GDGREAVKLLRDM  355 (665)
Q Consensus       307 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~-------------------------------g~~~~A~~~~~~m  355 (665)
                      ++++.=-++-    -+.+...=..-|--||..|.+.                               .+..--+++++..
T Consensus       176 mlsrSYfLEl----~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~W  251 (549)
T PF07079_consen  176 MLSRSYFLEL----KESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENW  251 (549)
T ss_pred             HHhHHHHHHH----HHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHH
Confidence            7766421111    0111110011122222222221                               1111122233333


Q ss_pred             hhCCCCCCHHH-HHHHHHHhCCCCchHhHHHHHHHHHHhCCCC----chhHHHHHHHHHHhcCCHHHHHHHHhcCC--CC
Q 044628          356 LQGSFCPDEVT-LASILSSCGSLSISCETRQVHAYAIKNGVQA----FLSIENALINAYSKCGSIAGALQCFGSVK--EP  428 (665)
Q Consensus       356 ~~~g~~p~~~t-~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~  428 (665)
                      ...-+.|+... ...+...+.+  +.+.+..+-+.+....+.+    -+..+..++....+.++...|...+.-+.  +|
T Consensus       252 e~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp  329 (549)
T PF07079_consen  252 ENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDP  329 (549)
T ss_pred             HhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCC
Confidence            33445565432 2333333333  4444444444443332111    23345556666677788888877766544  23


Q ss_pred             ChhH-------HHHHHHHHH----hcCChHHHHHHHHHHHHcCCCCCHHH-HHHHH---HHHhcCCc-HHHHHHHHHHHH
Q 044628          429 DLVT-------WTSIIGAYA----FHGLSKESIEVFEKMLSHAVRPDSIA-FLEVL---SACSHGGL-VSEGLRYFNLMI  492 (665)
Q Consensus       429 ~~~~-------~~~li~~~~----~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll---~a~~~~g~-~~~a~~~~~~~~  492 (665)
                      +...       -..+-+..+    .+-+...=+.+|+.....++  |..- ...++   .-+-+.|. -++|+++++.+.
T Consensus       330 ~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~Di--DrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il  407 (549)
T PF07079_consen  330 RISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDI--DRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLIL  407 (549)
T ss_pred             cchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            2221       111222222    12233444556666665433  3321 11122   22444554 788999998887


Q ss_pred             HhcCCCC-ChhhHHHHHH----HHHhc---C---ChHHHHHHHHhCCCCCC----hhHHHHHHHH--HHhcCCHHHHHHH
Q 044628          493 SDYHILP-DSEHYTCLTD----LLGRV---G---LLVEAYDLLASMPIEPR----SDTLGAFIGA--CKVHGSIGLAKWA  555 (665)
Q Consensus       493 ~~~~~~p-~~~~~~~l~~----~~~~~---g---~~~~A~~~~~~~~~~p~----~~~~~~ll~~--~~~~g~~~~a~~~  555 (665)
                      +   +.| |.++-+.+..    .|..+   .   ++-.-.+++++.++.|-    ...-+.|..|  ...+|++.++.-.
T Consensus       408 ~---ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~y  484 (549)
T PF07079_consen  408 Q---FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLY  484 (549)
T ss_pred             H---hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            6   333 3333332221    12111   1   12233445556666663    4455666655  5679999999999


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          556 AEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       556 ~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      ..-+.++.| ++.+|..+|-++....+++||..++..+.
T Consensus       485 s~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  485 SSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            999999999 69999999999999999999999998765

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=97.33  E-value=0.0039  Score=55.81  Aligned_cols=63  Identities=13%  Similarity=0.153  Sum_probs=35.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD--SIAFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                      ..|..+...+...|++++|+..|++.......|.  ..++..+...+.+.|++++|++.++....
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555566666666666666666655322221  12455555566666666666666666554

>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=97.29  E-value=0.00035  Score=51.55  Aligned_cols=48  Identities=19%  Similarity=0.180  Sum_probs=21.9

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          478 GGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      .|++++|+++|+.+...  .+-+...+..++.+|.+.|++++|.++++++
T Consensus         4 ~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44555555555555441  1123444444445555555555555555544

...

>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=97.29  E-value=0.00055  Score=50.68  Aligned_cols=65  Identities=22%  Similarity=0.219  Sum_probs=53.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCC
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHG-SIGLAKWAAEKLLELEP  564 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p  564 (665)
                      +...|..+...+.+.|++++|+..|++. ...|+ ...|..+..++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3566777888888888888888888887 45564 667888888888888 79999999999999887

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.26  E-value=0.051  Score=51.66  Aligned_cols=171  Identities=13%  Similarity=0.107  Sum_probs=99.3

Q ss_pred             HHHHhcCCHHHHHHHHhcCCC--CChh-H---HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--C
Q 044628          407 NAYSKCGSIAGALQCFGSVKE--PDLV-T---WTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSH--G  478 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~--~~~~-~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~--~  478 (665)
                      ..+.+.|++++|.+.|+++..  |+.. .   .-.++.+|.+.+++++|...|++..+....-...-+...+.+.+.  .
T Consensus        40 ~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~  119 (243)
T PRK10866         40 QQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMAL  119 (243)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhc
Confidence            344567788888888877763  3221 1   123456677778888888888888775222122333333333221  1


Q ss_pred             ---------------Cc---HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHH
Q 044628          479 ---------------GL---VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFI  540 (665)
Q Consensus       479 ---------------g~---~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll  540 (665)
                                     .+   ..+|++.|+.+++.+   |+.             .-..+|...+..+...--.. -..+.
T Consensus       120 ~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~y---P~S-------------~ya~~A~~rl~~l~~~la~~-e~~ia  182 (243)
T PRK10866        120 DDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGY---PNS-------------QYTTDATKRLVFLKDRLAKY-ELSVA  182 (243)
T ss_pred             chhhhhhccCCCccccCHHHHHHHHHHHHHHHHHC---cCC-------------hhHHHHHHHHHHHHHHHHHH-HHHHH
Confidence                           11   234445555555432   332             22333433333321000000 01334


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          541 GACKVHGSIGLAKWAAEKLLELEPSK---PVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       541 ~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      .-|.+.|.+.-|..-++.+++--|+.   ..+...++++|...|..++|..+.+...
T Consensus       183 ~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        183 EYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            55788899999999999999888874   4566788899999999999998877654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.25  E-value=0.0083  Score=58.80  Aligned_cols=33  Identities=12%  Similarity=0.203  Sum_probs=19.8

Q ss_pred             CHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHh
Q 044628          313 NIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDML  356 (665)
Q Consensus       313 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  356 (665)
                      ++++|..+|++           ....|-..|++++|.+.|.+..
T Consensus        30 ~~e~Aa~~y~~-----------Aa~~fk~~~~~~~A~~ay~kAa   62 (282)
T PF14938_consen   30 DYEEAADLYEK-----------AANCFKLAKDWEKAAEAYEKAA   62 (282)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHHTT-CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHH-----------HHHHHHHHhccchhHHHHHHHH
Confidence            56666666443           3556666777777777776653

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.24  E-value=0.18  Score=53.46  Aligned_cols=339  Identities=14%  Similarity=0.006  Sum_probs=169.1

Q ss_pred             hhhCCCCCCcchHHH-----HHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCC---hHHHHHHHhccC
Q 044628          153 MLLDNVRLDHITFNS-----LLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGF---VEDARRVFDEVL  224 (665)
Q Consensus       153 m~~~g~~p~~~t~~~-----ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~  224 (665)
                      +..-|++.+..-|..     +|.-+...+.+..|.++-..+...-..- ..++.....-+.+..+   -+.+..+-+++.
T Consensus       423 ~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls  501 (829)
T KOG2280|consen  423 DVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLS  501 (829)
T ss_pred             ccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhc
Confidence            344566666555543     5666677788888888877764322222 5666666666766632   333444444554


Q ss_pred             C--CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCC----CCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCch
Q 044628          225 C--RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMK----GDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDV  298 (665)
Q Consensus       225 ~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~----p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~  298 (665)
                      .  ...++|..+.+--.+.|+.+-|..+++.=...+-.    .+-.-+...+.-+...|+.+...+++-++.+.-   +.
T Consensus       502 ~~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~~  578 (829)
T KOG2280|consen  502 AKLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NR  578 (829)
T ss_pred             ccCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HH
Confidence            4  46678888888888899999888887643222110    122234445556666677766666665554431   11


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCC-CCchhHHHHHHHHHcCCChHHHHHHHHHH------hhCCCCCCHHHHHHHH
Q 044628          299 LVATSLVDMYAKNGNIDDACRVFDGMTA-KNVVSWNTMVVGFGQNGDGREAVKLLRDM------LQGSFCPDEVTLASIL  371 (665)
Q Consensus       299 ~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m------~~~g~~p~~~t~~~ll  371 (665)
                      ..+.      .-..+...|..+|.+..+ .|..+    +..+-+.++-.+++..|..=      ...|..|+.   ...-
T Consensus       579 s~l~------~~l~~~p~a~~lY~~~~r~~~~~~----l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~l---k~~a  645 (829)
T KOG2280|consen  579 SSLF------MTLRNQPLALSLYRQFMRHQDRAT----LYDFYNQDDNHQALASFHLQASYAAETIEGRIPAL---KTAA  645 (829)
T ss_pred             HHHH------HHHHhchhhhHHHHHHHHhhchhh----hhhhhhcccchhhhhhhhhhhhhhhhhhcccchhH---HHHH
Confidence            1111      111223334444443322 11111    11122222323333222110      011223332   2333


Q ss_pred             HHhCCCCchHhHHHHH----------HHH-HHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHH
Q 044628          372 SSCGSLSISCETRQVH----------AYA-IKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAY  440 (665)
Q Consensus       372 ~~~~~~~~~~~a~~i~----------~~~-~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  440 (665)
                      .+|++........+..          +.+ .+.|....--+.+--+.-+...|+..+|.++-.+..-||-..|---+.++
T Consensus       646 ~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aL  725 (829)
T KOG2280|consen  646 NAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTAL  725 (829)
T ss_pred             HHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHH
Confidence            3444433321111111          111 11222121222233333455566677777777666666777666667777


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHH
Q 044628          441 AFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEA  520 (665)
Q Consensus       441 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  520 (665)
                      +..+++++-.++-+.++.      +.-|.-...+|.+.|+.++|.+++-+...   .       .-.+.+|.+.|++.+|
T Consensus       726 a~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYiprv~~---l-------~ekv~ay~~~~~~~eA  789 (829)
T KOG2280|consen  726 ADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYIPRVGG---L-------QEKVKAYLRVGDVKEA  789 (829)
T ss_pred             HhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhhhccCC---h-------HHHHHHHHHhccHHHH
Confidence            777776666555444321      33444556667777777777766654421   1       1346666677776666


Q ss_pred             HHHH
Q 044628          521 YDLL  524 (665)
Q Consensus       521 ~~~~  524 (665)
                      .++-
T Consensus       790 ad~A  793 (829)
T KOG2280|consen  790 ADLA  793 (829)
T ss_pred             HHHH
Confidence            6553

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.22  E-value=0.0052  Score=50.66  Aligned_cols=86  Identities=14%  Similarity=-0.034  Sum_probs=56.8

Q ss_pred             HHHHHHhcCChHHHHHHHHhC---CCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CCchHHHHHHHHH
Q 044628          507 LTDLLGRVGLLVEAYDLLASM---PIEPR--SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS---KPVNYALVSNVYA  578 (665)
Q Consensus       507 l~~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~y~  578 (665)
                      +..++-..|+.++|+.+|++.   +....  ...+-.+.++++..|++++|..++++.++-.|+   +......++.++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            345566667777777777766   22221  234555667777778888888888877777676   5556666777777


Q ss_pred             hcCCHHHHHHHHHH
Q 044628          579 SERCWFDVARLRKM  592 (665)
Q Consensus       579 ~~g~~~~A~~~~~~  592 (665)
                      ..|+++||.+.+-.
T Consensus        87 ~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   87 NLGRPKEALEWLLE  100 (120)
T ss_pred             HCCCHHHHHHHHHH
Confidence            77888887776543

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.20  E-value=0.0046  Score=49.02  Aligned_cols=81  Identities=5%  Similarity=-0.075  Sum_probs=67.1

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHHHHCCC-CCCHhhHHHHHHHHhccC--------CcHHHHHHHHHHHHhCCCCchhH
Q 044628          230 LWNVMVSCYALNCLGDGAIAVFNLMRLEGM-KGDYFTFSSLVNSCGTLG--------SSKLGRQIHGLVIKQSFDLDVLV  300 (665)
Q Consensus       230 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~~~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~  300 (665)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-....+++.++..++.|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            334556677777999999999999999999 999999999999977553        23456788899999999999999


Q ss_pred             HHHHHHHHHh
Q 044628          301 ATSLVDMYAK  310 (665)
Q Consensus       301 ~~~li~~~~~  310 (665)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999887765

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 [, , ].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.18  E-value=0.42  Score=50.33  Aligned_cols=301  Identities=15%  Similarity=0.116  Sum_probs=145.9

Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCC-----chhHHHHHHHHHhcCCchHHHHH
Q 044628          176 DDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRD-----LVLWNVMVSCYALNCLGDGAIAV  250 (665)
Q Consensus       176 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~  250 (665)
                      |++++|++++-.+-+..         .-|.++.+.|++-...++++.-...+     ..+|+.+...++....|++|.+.
T Consensus       748 g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             cchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56666666666555442         23455666666666666665432221     23566666666666666666666


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCch
Q 044628          251 FNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVV  330 (665)
Q Consensus       251 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  330 (665)
                      |..-...      .   ..+.++-...++++-+.+-     ..++.+....-.+.+++.+.|.-++|.+.|-+-..|.  
T Consensus       819 Y~~~~~~------e---~~~ecly~le~f~~LE~la-----~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk--  882 (1189)
T KOG2041|consen  819 YSYCGDT------E---NQIECLYRLELFGELEVLA-----RTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK--  882 (1189)
T ss_pred             HHhccch------H---hHHHHHHHHHhhhhHHHHH-----HhcCcccchHHHHHHHHHhhchHHHHHHHHHhccCcH--
Confidence            6543211      0   1222222222222222211     1234455556666677777777777766665544332  


Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 044628          331 SWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYS  410 (665)
Q Consensus       331 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~  410 (665)
                         +-+..|...++|.+|.++-+...-    |...|+   |.-        .+-+++.   +...       ---|.++.
T Consensus       883 ---aAv~tCv~LnQW~~avelaq~~~l----~qv~tl---iak--------~aaqll~---~~~~-------~eaIe~~R  934 (1189)
T KOG2041|consen  883 ---AAVHTCVELNQWGEAVELAQRFQL----PQVQTL---IAK--------QAAQLLA---DANH-------MEAIEKDR  934 (1189)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHhccc----hhHHHH---HHH--------HHHHHHh---hcch-------HHHHHHhh
Confidence               234445555666666665544321    222222   110        1111111   1110       12356778


Q ss_pred             hcCCHHHHHHHHhcCCCCCh---hHHHHHHHHH----HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHH
Q 044628          411 KCGSIAGALQCFGSVKEPDL---VTWTSIIGAY----AFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSE  483 (665)
Q Consensus       411 ~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~----~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  483 (665)
                      +.|..-+|.+++.+|.+...   +.|..+-..|    .-..+..++++-.++...+|...|...       +...|...+
T Consensus       935 ka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~-------lles~~l~~ 1007 (1189)
T KOG2041|consen  935 KAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATD-------LLESGLLAE 1007 (1189)
T ss_pred             hcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhh-------hhhhhhhhh
Confidence            88888888888887763111   1111111111    112234455555555555554333221       223344444


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCChhHHHHHH
Q 044628          484 GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPRSDTLGAFI  540 (665)
Q Consensus       484 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~ll  540 (665)
                      +-++.+..-+  |  ....|+-.|..--...|+.+.|++.--.+    .+-|...+|..|.
T Consensus      1008 ~~ri~~n~Wr--g--AEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllA 1064 (1189)
T KOG2041|consen 1008 QSRILENTWR--G--AEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLA 1064 (1189)
T ss_pred             HHHHHHhhhh--h--HHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHH
Confidence            4444443322  1  23445555556667789999888754333    3445555665554

>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=0.006  Score=48.40  Aligned_cols=79  Identities=13%  Similarity=0.172  Sum_probs=64.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhcCC--------cHHHHHHHHHHHHHhcCCCCChhhH
Q 044628          434 TSIIGAYAFHGLSKESIEVFEKMLSHAV-RPDSIAFLEVLSACSHGG--------LVSEGLRYFNLMISDYHILPDSEHY  504 (665)
Q Consensus       434 ~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~g--------~~~~a~~~~~~~~~~~~~~p~~~~~  504 (665)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-+.+.+|+.|.. .+++|+.++|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~-~~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILS-NKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHH-hccCCcHHHH
Confidence            4456667777999999999999999999 899999999999876642        34567788888887 5899999999


Q ss_pred             HHHHHHHHh
Q 044628          505 TCLTDLLGR  513 (665)
Q Consensus       505 ~~l~~~~~~  513 (665)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            998887764

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.15  E-value=0.06  Score=51.18  Aligned_cols=56  Identities=13%  Similarity=0.126  Sum_probs=37.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhccCCC--Cc-hh---HHHHHHHHHcCCChHHHHHHHHHHhhCC
Q 044628          304 LVDMYAKNGNIDDACRVFDGMTAK--NV-VS---WNTMVVGFGQNGDGREAVKLLRDMLQGS  359 (665)
Q Consensus       304 li~~~~~~g~~~~A~~~~~~~~~~--~~-~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g  359 (665)
                      ....+.+.|++++|.+.|+.+...  +. ..   .-.++.+|.+.+++++|...|++..+..
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            344456678888888888877642  22 11   2345567778888888888888887753

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.14  E-value=0.0035  Score=59.99  Aligned_cols=92  Identities=10%  Similarity=-0.028  Sum_probs=51.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-CCCCCh----hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHHH
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASM-PIEPRS----DTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK---PVNYALVSN  575 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~  575 (665)
                      |..-+..+.+.|++++|+..|+.. ...|+.    ..+.-+..++...|+++.|...|+++++..|++   +.++..++.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            333344444456666666655555 223332    244445555666666666666666666655553   334445566


Q ss_pred             HHHhcCCHHHHHHHHHHHhh
Q 044628          576 VYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       576 ~y~~~g~~~~A~~~~~~m~~  595 (665)
                      +|...|++++|.++++.+.+
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.13  E-value=0.0014  Score=65.71  Aligned_cols=65  Identities=15%  Similarity=-0.021  Sum_probs=48.4

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch---HHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          532 RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN---YALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       532 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +...|..+..++...|++++|+..++++++++|++..+   |..++.+|...|+.++|...+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            35667777777777777777777777777777777643   777777777777777777777777654

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.12  E-value=0.0049  Score=62.58  Aligned_cols=118  Identities=11%  Similarity=-0.005  Sum_probs=90.6

Q ss_pred             CCchHHHHHHHHHHHhCCChHHHHHHHhccCCC------CchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHH
Q 044628          194 GLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR------DLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFS  267 (665)
Q Consensus       194 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  267 (665)
                      ..+......+++......+++.+..++-+....      -..+..++|+.|.+.|..++++.+++.=..-|+-||.+|++
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            445555666666666667777777776655321      12355688999999999999999999888899999999999


Q ss_pred             HHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 044628          268 SLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKN  311 (665)
Q Consensus       268 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  311 (665)
                      .|++.+.+.|++..|.++...|...+...+..++..-+..+.+.
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            99999999999999999999988887766766666666656555

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 [].

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.11  E-value=0.0052  Score=55.19  Aligned_cols=97  Identities=18%  Similarity=0.258  Sum_probs=76.1

Q ss_pred             HHHHhcC--CCCChhHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-------------
Q 044628          419 LQCFGSV--KEPDLVTWTSIIGAYAFH-----GLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHG-------------  478 (665)
Q Consensus       419 ~~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-------------  478 (665)
                      ...|+..  ..+|-.+|..++..|.+.     |..+=....++.|.+-|+.-|..+|+.||+.+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3445554  357777888888887654     67777788889999999999999999999887653             


Q ss_pred             ---CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 044628          479 ---GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL  516 (665)
Q Consensus       479 ---g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  516 (665)
                         .+.+-|++++++|.. +|+.||.+++..+++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMEN-NGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHH-cCCCCcHHHHHHHHHHhccccH
Confidence               234668889999977 7999999999999998887765

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.09  E-value=0.014  Score=57.19  Aligned_cols=148  Identities=18%  Similarity=0.211  Sum_probs=88.8

Q ss_pred             ChHHHHHHHHHHHH----cCCCCCH--HHHHHHHHHHhcC-CcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHh
Q 044628          445 LSKESIEVFEKMLS----HAVRPDS--IAFLEVLSACSHG-GLVSEGLRYFNLMISDYHILPD----SEHYTCLTDLLGR  513 (665)
Q Consensus       445 ~~~~A~~~~~~m~~----~g~~p~~--~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~  513 (665)
                      ++++|++.+++..+    .| .|+.  ..+..+...|... |++++|++.|++...-+.....    ..++..+..++.+
T Consensus        89 ~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~  167 (282)
T PF14938_consen   89 DPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYAR  167 (282)
T ss_dssp             THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHH
Confidence            66666666666554    22 3332  2455666778888 9999999999988764332222    3456777889999


Q ss_pred             cCChHHHHHHHHhC---CCCC-----Chh-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch--HH---HHHHHHHh
Q 044628          514 VGLLVEAYDLLASM---PIEP-----RSD-TLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN--YA---LVSNVYAS  579 (665)
Q Consensus       514 ~g~~~~A~~~~~~~---~~~p-----~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~--~~---~l~~~y~~  579 (665)
                      .|++++|.++|++.   ....     +.. .+...+-.+...||...|.+.+++..+.+|.-..+  +.   .|+.+|-.
T Consensus       168 l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  168 LGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             TT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             hCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence            99999999999987   1111     111 12222334566789999999999999998863222  22   34444432


Q ss_pred             c--CCHHHHHHHHHHH
Q 044628          580 E--RCWFDVARLRKMM  593 (665)
Q Consensus       580 ~--g~~~~A~~~~~~m  593 (665)
                      .  ..+++|..-|+.+
T Consensus       248 ~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  248 GDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             T-CCCHHHHCHHHTTS
T ss_pred             CCHHHHHHHHHHHccc
Confidence            2  3455555555444

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.07  E-value=0.0074  Score=61.31  Aligned_cols=120  Identities=16%  Similarity=0.103  Sum_probs=75.9

Q ss_pred             CCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHh--CCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC----CCchh
Q 044628          258 GMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQ--SFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA----KNVVS  331 (665)
Q Consensus       258 g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~  331 (665)
                      +.+.+...+..+++.+....+++.+..++......  ....-..+..++|+.|.+.|..+.+..+++.=..    +|..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33446666667777777777777777766666554  2222233445677777777777777776665443    56677


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCC
Q 044628          332 WNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSL  377 (665)
Q Consensus       332 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  377 (665)
                      +|.|+..+.+.|++..|.++..+|...+...+..|+...+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            7777777777777777777777776666666666666555555433

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 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.03  E-value=0.0062  Score=59.41  Aligned_cols=128  Identities=9%  Similarity=-0.005  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh-cCChHHHHHHHHhC--CCCCChhHHHHHHHH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR-VGLLVEAYDLLASM--PIEPRSDTLGAFIGA  542 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~  542 (665)
                      .+|..+++.+-+.+..+.|..+|..+.+.  -..+...|...+.+-.+ .++.+.|.++|+..  .+..+...|...+.-
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46778888888888899999999999862  22345667666666455 56666699999998  444577889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          543 CKVHGSIGLAKWAAEKLLELEPSKP---VNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       543 ~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ....|+.+.++.+|++++..-|.+.   ..|...++.=.+.|+++.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999999999998766643   4788888888999999999999988865

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.01  E-value=0.66  Score=49.53  Aligned_cols=113  Identities=14%  Similarity=0.042  Sum_probs=88.6

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 044628          465 SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACK  544 (665)
Q Consensus       465 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~  544 (665)
                      ..|.+--+.-+...|...+|.++-.+..-     ||...|.--+.+++..+++++-+++-+++.   .+.-|.-+..+|.
T Consensus       684 dlSl~dTv~~li~~g~~k~a~ql~~~Fki-----pdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PFVe~c~  755 (829)
T KOG2280|consen  684 DLSLHDTVTTLILIGQNKRAEQLKSDFKI-----PDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPFVEACL  755 (829)
T ss_pred             cCcHHHHHHHHHHccchHHHHHHHHhcCC-----cchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhHHHHHH
Confidence            34555556677788999999888766643     888888888999999999999999988872   1445777888999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      +.|+.++|.+++.+.-.+        .-...+|.+.|++.+|.++--+-
T Consensus       756 ~~~n~~EA~KYiprv~~l--------~ekv~ay~~~~~~~eAad~A~~~  796 (829)
T KOG2280|consen  756 KQGNKDEAKKYIPRVGGL--------QEKVKAYLRVGDVKEAADLAAEH  796 (829)
T ss_pred             hcccHHHHhhhhhccCCh--------HHHHHHHHHhccHHHHHHHHHHh
Confidence            999999999887654332        25788999999999999875443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.96  E-value=0.0035  Score=60.98  Aligned_cols=128  Identities=9%  Similarity=-0.004  Sum_probs=91.1

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHH---HhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-------CC-CCChh
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMI---SDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-------PI-EPRSD  534 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~---~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~-~p~~~  534 (665)
                      .|..|.+.|.-.|++++|+..++.-.   +.+|-.. ....+..+.+++.-.|+++.|.+.|+..       +. ....-
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            56666666777789999998876432   2344332 2456888889999999999999998875       21 11234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----cC--CCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          535 TLGAFIGACKVHGSIGLAKWAAEKLLE----LE--PSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       535 ~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~--p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      +-.+|..+|....+++.|+.++.+=+.    ++  -....++..|+++|...|.-+.|..+.+.-.
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            455677778777888999988776543    22  2245788999999999999999987765543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.95  E-value=0.092  Score=54.48  Aligned_cols=38  Identities=8%  Similarity=0.091  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHH
Q 044628          246 GAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIH  286 (665)
Q Consensus       246 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  286 (665)
                      +-+.-+++|++.|-.|+.....   ..|+-.|.+.+|-++|
T Consensus       618 ~li~EL~~~k~rge~P~~iLlA---~~~Ay~gKF~EAAklF  655 (1081)
T KOG1538|consen  618 ELISELEERKKRGETPNDLLLA---DVFAYQGKFHEAAKLF  655 (1081)
T ss_pred             HHHHHHHHHHhcCCCchHHHHH---HHHHhhhhHHHHHHHH
Confidence            3344456666666666654322   2344445555555444

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.95  E-value=0.0028  Score=47.43  Aligned_cols=64  Identities=22%  Similarity=0.176  Sum_probs=51.8

Q ss_pred             HHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHH
Q 044628          509 DLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYAL  572 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  572 (665)
                      ..|.+.+++++|++.++++ ...|+ ...|......+...|+++.|.+.++++++..|+++.....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~   68 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARAL   68 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            5678889999999999888 55564 5567777788889999999999999999999987655443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.94  E-value=0.021  Score=48.98  Aligned_cols=92  Identities=10%  Similarity=0.005  Sum_probs=66.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc
Q 044628          404 ALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGL  480 (665)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~  480 (665)
                      .+...+...|++++|.++|+-+..   .+..-|-.|..++-..|++++|+..|....... .-|...+-.+..++...|+
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            344455677888888888876652   455677777777888888888888888887753 2345677777778888888


Q ss_pred             HHHHHHHHHHHHHhcC
Q 044628          481 VSEGLRYFNLMISDYH  496 (665)
Q Consensus       481 ~~~a~~~~~~~~~~~~  496 (665)
                      .+.|++.|+..+...+
T Consensus       119 ~~~A~~aF~~Ai~~~~  134 (157)
T PRK15363        119 VCYAIKALKAVVRICG  134 (157)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            8888888887776433

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.93  E-value=0.15  Score=52.97  Aligned_cols=201  Identities=12%  Similarity=0.095  Sum_probs=100.9

Q ss_pred             chHHHHHHHHhcCCChHHHHH--HHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHh
Q 044628          163 ITFNSLLRACVQADDIEVGRR--LHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYAL  240 (665)
Q Consensus       163 ~t~~~ll~~~~~~~~~~~a~~--~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  240 (665)
                      ..|++.=++|.+.++..--+-  -++.+.+.|-.|+....   .+.++-.|++.+|.++|.+                  
T Consensus       599 L~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~------------------  657 (1081)
T KOG1538|consen  599 LDFETARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKR------------------  657 (1081)
T ss_pred             hhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHH------------------
Confidence            345555566666665543332  34556667766766543   3445667888888888765                  


Q ss_pred             cCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 044628          241 NCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRV  320 (665)
Q Consensus       241 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  320 (665)
                      +|.-..|+++|..|+--          -...-+...|+-++-+.+.+.-.+..  .++.--.+...++...|+.++|..+
T Consensus       658 ~G~enRAlEmyTDlRMF----------D~aQE~~~~g~~~eKKmL~RKRA~WA--r~~kePkaAAEmLiSaGe~~KAi~i  725 (1081)
T KOG1538|consen  658 SGHENRALEMYTDLRMF----------DYAQEFLGSGDPKEKKMLIRKRADWA--RNIKEPKAAAEMLISAGEHVKAIEI  725 (1081)
T ss_pred             cCchhhHHHHHHHHHHH----------HHHHHHhhcCChHHHHHHHHHHHHHh--hhcCCcHHHHHHhhcccchhhhhhh
Confidence            46666677777666421          01222334444444333333221110  0111112233444555555555544


Q ss_pred             HhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchh
Q 044628          321 FDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLS  400 (665)
Q Consensus       321 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~  400 (665)
                      .-                  .+|=.+-++++-+++-.    .+..+...+...+-+...+..|-+||..+-+.       
T Consensus       726 ~~------------------d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~-------  776 (1081)
T KOG1538|consen  726 CG------------------DHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL-------  776 (1081)
T ss_pred             hh------------------cccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchHHHHHHHhccH-------
Confidence            21                  12222222222222211    22233333333344455555666666655332       


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 044628          401 IENALINAYSKCGSIAGALQCFGSVKE  427 (665)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~~~~  427 (665)
                        .+++++....+++.+|..+-++.++
T Consensus       777 --ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  777 --KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             --HHHhhheeecccchHhHhhhhhCcc
Confidence              3577778888888888888887775

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.93  E-value=0.0016  Score=42.99  Aligned_cols=42  Identities=19%  Similarity=0.257  Sum_probs=37.5

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 044628          534 DTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSN  575 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  575 (665)
                      .+|..+..++...|++++|++.++++++.+|+++.++..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            367788899999999999999999999999999998888764

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.89  E-value=0.12  Score=54.11  Aligned_cols=130  Identities=17%  Similarity=0.087  Sum_probs=58.6

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCC-----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc
Q 044628          406 INAYSKCGSIAGALQCFGSVKE-----PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGL  480 (665)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~  480 (665)
                      |.++.+.|++-...++++.-..     .-...|+.+...++....+++|.+.|..-...         ...+.++.+..+
T Consensus       767 ielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~ecly~le~  837 (1189)
T KOG2041|consen  767 IELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQIECLYRLEL  837 (1189)
T ss_pred             HHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHHHHHHHHHh
Confidence            4555566666665555554321     11234555555555555555555555432211         112333333333


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          481 VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAA  556 (665)
Q Consensus       481 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  556 (665)
                      +++-..+-+.+      +-+....-.|.+++.+.|.-++|.+.+-+-+. |     .+-+.+|...+++.+|.++.
T Consensus       838 f~~LE~la~~L------pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~-p-----kaAv~tCv~LnQW~~avela  901 (1189)
T KOG2041|consen  838 FGELEVLARTL------PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL-P-----KAAVHTCVELNQWGEAVELA  901 (1189)
T ss_pred             hhhHHHHHHhc------CcccchHHHHHHHHHhhchHHHHHHHHHhccC-c-----HHHHHHHHHHHHHHHHHHHH
Confidence            33333322222      22344444555566666666666555544421 1     12233444444554444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.89  E-value=0.0076  Score=59.20  Aligned_cols=63  Identities=10%  Similarity=-0.121  Sum_probs=56.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          534 DTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      .++..|..++.+.+++..|++..+++++++|+|..+...-+.+|...|.++.|+..|+++.+.
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            356667778889999999999999999999999999999999999999999999999999753

>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=96.88  E-value=0.0087  Score=53.80  Aligned_cols=89  Identities=10%  Similarity=0.100  Sum_probs=56.5

Q ss_pred             CCCchhHHHHHHHHHhc-----CCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhcc----------------CCcHHHH
Q 044628          225 CRDLVLWNVMVSCYALN-----CLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTL----------------GSSKLGR  283 (665)
Q Consensus       225 ~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~----------------~~~~~a~  283 (665)
                      .+|-.+|..+|..|.+.     |..+=....+..|.+-|+.-|..+|+.||+.+-+.                .+-+.|.
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            34445555555555433     44444555556666666666666666666655432                1356678


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 044628          284 QIHGLVIKQSFDLDVLVATSLVDMYAKNGN  313 (665)
Q Consensus       284 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  313 (665)
                      +++++|...|+-||..++..|++.+++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            888888888888888888888888766554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.87  E-value=0.024  Score=46.77  Aligned_cols=92  Identities=17%  Similarity=0.182  Sum_probs=63.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHH
Q 044628          436 IIGAYAFHGLSKESIEVFEKMLSHAVRPDS--IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLG  512 (665)
Q Consensus       436 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~  512 (665)
                      +..++-..|+.++|+.+|++....|.....  ..+..+.+++...|++++|..+++.....+.-.+ +......+.-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            445667788899999999999888766553  3566777888888999999999988876421111 1222233345677


Q ss_pred             hcCChHHHHHHHHhC
Q 044628          513 RVGLLVEAYDLLASM  527 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~  527 (665)
                      ..|+.++|++.+-..
T Consensus        87 ~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   87 NLGRPKEALEWLLEA  101 (120)
T ss_pred             HCCCHHHHHHHHHHH
Confidence            888888888876543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.81  E-value=0.1  Score=48.11  Aligned_cols=137  Identities=9%  Similarity=-0.050  Sum_probs=99.1

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHH-----H
Q 044628          331 SWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENA-----L  405 (665)
Q Consensus       331 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~-----l  405 (665)
                      .-+.++..+...|.+.-.+.++++.++...+-+......+.+.-.+.|+.+.+...++.+.+..-..+....+.     .
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            44667777778888888888888888876666777777888888888999999888887766443333333333     3


Q ss_pred             HHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 044628          406 INAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFL  469 (665)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  469 (665)
                      ...|.-..++..|...|+++..   .|++.-|.-.-+....|+..+|++..+.|...  .|...+-.
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence            3445567788888888888764   56666676666677778899999999999885  45544433

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.80  E-value=0.17  Score=50.51  Aligned_cols=159  Identities=16%  Similarity=0.164  Sum_probs=102.4

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCC-------ChhHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044628          405 LINAYSKCGSIAGALQCFGSVKEP-------DLVTWTSIIGAYAF---HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA  474 (665)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  474 (665)
                      |+-.|-...+++...++.+.+...       ....--...-++.+   .|+.++|++++..+....-.++..||..+...
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRI  226 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRI  226 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            444577778888888888877642       11112223445555   78899999999886666667777787776655


Q ss_pred             Hhc---------CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHH----HHHH---HhC-----CCCCCh
Q 044628          475 CSH---------GGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEA----YDLL---ASM-----PIEPRS  533 (665)
Q Consensus       475 ~~~---------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A----~~~~---~~~-----~~~p~~  533 (665)
                      |-.         ....++|++.|.+.-+   +.|+..+--.++.++..+|...+.    .++-   ...     ...+..
T Consensus       227 yKD~~~~s~~~d~~~ldkAi~~Y~kgFe---~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  227 YKDLFLESNFTDRESLDKAIEWYRKGFE---IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHcCccchHHHHHHHHHHHHHHc---CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            422         2347788888886643   557665555555566655543222    2222   111     223333


Q ss_pred             hH--HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          534 DT--LGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       534 ~~--~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      .-  +.+++.++.-.|+.+.|.+++++++++.|..
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            33  4678899999999999999999999998764

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.77  E-value=0.29  Score=48.40  Aligned_cols=85  Identities=11%  Similarity=0.006  Sum_probs=42.2

Q ss_pred             HHhcCChHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcC
Q 044628          440 YAFHGLSKESIEVFEKMLSH---AVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRVG  515 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~---g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  515 (665)
                      ..++|++.+|.+.|.+.+..   .++|+...|.....+..+.|+.++|+.--+...+   +.|. +..|..-..++.-.+
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~---iD~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK---IDSSYIKALLRRANCHLALE  335 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh---cCHHHHHHHHHHHHHHHHHH
Confidence            34566666666666666552   1233333455555555666666666665555543   2221 111222222333445


Q ss_pred             ChHHHHHHHHhC
Q 044628          516 LLVEAYDLLASM  527 (665)
Q Consensus       516 ~~~~A~~~~~~~  527 (665)
                      ++++|.+-+++.
T Consensus       336 ~~e~AV~d~~~a  347 (486)
T KOG0550|consen  336 KWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHH
Confidence            566666666554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.62  E-value=0.031  Score=53.58  Aligned_cols=97  Identities=18%  Similarity=0.183  Sum_probs=61.9

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh----hhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----hhHHHH
Q 044628          468 FLEVLSACSHGGLVSEGLRYFNLMISDYHILPDS----EHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR----SDTLGA  538 (665)
Q Consensus       468 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~  538 (665)
                      |...+......|++++|+..|+.+.+.+   |+.    ..+--+..+|...|++++|...|+.+ ...|+    ...+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~y---P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKY---PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHC---cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            4333333344566777777777666632   332    34555666777777777777777766 22222    334555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      +...+...|+.+.|+..++++++..|++.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            56667788899999999999999888854

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.49  E-value=0.19  Score=46.43  Aligned_cols=165  Identities=10%  Similarity=-0.029  Sum_probs=110.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCC--CCC--------hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 044628          403 NALINAYSKCGSIAGALQCFGSVK--EPD--------LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVL  472 (665)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~~~--~~~--------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  472 (665)
                      ++|...+.-..-+++-...|+.-.  +..        ...-++++..+.-+|.+.-.+.++++.++...+-+......+.
T Consensus       140 esLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lg  219 (366)
T KOG2796|consen  140 ESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLG  219 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHH
Confidence            455555554444444444444322  122        2344667777778888999999999999976555777788888


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcC----CCCChhhHHHHHHHHHhcCChHHHHHHHHhCCC-CC-ChhHHHHHHHHHHhc
Q 044628          473 SACSHGGLVSEGLRYFNLMISDYH----ILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPI-EP-RSDTLGAFIGACKVH  546 (665)
Q Consensus       473 ~a~~~~g~~~~a~~~~~~~~~~~~----~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~ll~~~~~~  546 (665)
                      +.-.+.|+.+.|..+|+...+..+    +.-+..+...+...|.-++++.+|...+.+++. .| |+...+.-.-+..-.
T Consensus       220 r~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYl  299 (366)
T KOG2796|consen  220 RISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYL  299 (366)
T ss_pred             HHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHH
Confidence            888999999999999997766433    222233333444556677888888888888832 22 344444443344557


Q ss_pred             CCHHHHHHHHHHHHhcCCCCC
Q 044628          547 GSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       547 g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      |+...|.+..+.+++..|...
T Consensus       300 g~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  300 GKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             HHHHHHHHHHHHHhccCCccc
Confidence            888999999999999988743

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.48  E-value=0.026  Score=45.86  Aligned_cols=90  Identities=17%  Similarity=0.054  Sum_probs=73.7

Q ss_pred             HHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----chHHHHHHHHHhcCC
Q 044628          509 DLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP----VNYALVSNVYASERC  582 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~y~~~g~  582 (665)
                      -+++..|++++|++.|.+. .+-| ....|+.-..+++-+|+.++|..-+++++++.-+..    .+|+.-+.+|...|+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            3567889999999998887 4444 577899999999999999999999999998754322    457788889999999


Q ss_pred             HHHHHHHHHHHhhCCC
Q 044628          583 WFDVARLRKMMRDNCD  598 (665)
Q Consensus       583 ~~~A~~~~~~m~~~~~  598 (665)
                      -+.|+.-|+.....|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999999998887764

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.42  E-value=1.2  Score=44.67  Aligned_cols=132  Identities=17%  Similarity=0.163  Sum_probs=89.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhH-HHHH
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHA-VRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHY-TCLT  508 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-~~l~  508 (665)
                      ..|...++.-.+..-.+.|..+|-+..+.| +.++...+++.+.-++ .|+...|..+|+.-...   -||...| .-.+
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~---f~d~~~y~~kyl  473 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK---FPDSTLYKEKYL  473 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh---CCCchHHHHHHH
Confidence            355566666666666777888888888877 4566667777776554 36777788888776652   2443333 4556


Q ss_pred             HHHHhcCChHHHHHHHHhC--CCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          509 DLLGRVGLLVEAYDLLASM--PIEPR--SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      +-+.+.++-+.|..+|+..  .+..+  ..+|..++..-..-|+...+..+-+++.++-|+.
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            6677788888888888755  22233  5577777777777888877777777777777763

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.37  E-value=0.87  Score=42.55  Aligned_cols=195  Identities=20%  Similarity=0.128  Sum_probs=128.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC-----CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVK-----EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLS  473 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  473 (665)
                      ..........+...+++..+...+....     ......+......+...++...+.+.+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            3444556666677777777776666543     24445566666667777777888888887776533331 22222222


Q ss_pred             -HHhcCCcHHHHHHHHHHHHHhcCCCC----ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC--hhHHHHHHHHHHh
Q 044628          474 -ACSHGGLVSEGLRYFNLMISDYHILP----DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR--SDTLGAFIGACKV  545 (665)
Q Consensus       474 -a~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~ll~~~~~  545 (665)
                       ++...|+++.+...+.....   ..|    ....+......+...++.++|...+.+. ...++  ...+..+...+..
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  214 (291)
T COG0457         138 GALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLK  214 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHH
Confidence             67778888888888887744   222    2333444444466778888888888777 33333  5667777777777


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          546 HGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       546 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .++.+.+...+..+++..|.....+..++..+...|.++++...+.+.....
T Consensus       215 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         215 LGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             cccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8888888888888888888755666677777776777888888777766543

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.37  E-value=0.066  Score=46.50  Aligned_cols=61  Identities=20%  Similarity=0.200  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          535 TLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       535 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ....++..+...|+++.|...+++++..+|-+-..|..++.+|...|+..+|.++++++..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            4556677788999999999999999999999999999999999999999999999988864

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK11906 transcriptional regulator; Provisional

Probab=96.35  E-value=0.057  Score=54.66  Aligned_cols=158  Identities=9%  Similarity=0.060  Sum_probs=86.4

Q ss_pred             hHH--HHHHHHHHhc-----CChHHHHHHHHHHHH-cCCCCCHH-HHHHHHHHHhc---------CCcHHHHHHHHHHHH
Q 044628          431 VTW--TSIIGAYAFH-----GLSKESIEVFEKMLS-HAVRPDSI-AFLEVLSACSH---------GGLVSEGLRYFNLMI  492 (665)
Q Consensus       431 ~~~--~~li~~~~~~-----g~~~~A~~~~~~m~~-~g~~p~~~-t~~~ll~a~~~---------~g~~~~a~~~~~~~~  492 (665)
                      ..|  ...+.|....     ...+.|+.+|.+... +.+.|+.. .|..+..++..         .....+|.++-+...
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            445  4555554432     134567778888772 23566654 44444333221         123345555555555


Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 044628          493 SDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNY  570 (665)
Q Consensus       493 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  570 (665)
                      +  --+-|......+..++.-.|+++.|...|++. ...|| ..+|......+...|+.++|.+.++++++++|....+-
T Consensus       332 e--ld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~  409 (458)
T PRK11906        332 D--ITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAV  409 (458)
T ss_pred             h--cCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHH
Confidence            4  11234555555556666666677777777776 55565 44555555556666777777777777777777643332


Q ss_pred             H--HHHHHHHhcCCHHHHHHHHH
Q 044628          571 A--LVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       571 ~--~l~~~y~~~g~~~~A~~~~~  591 (665)
                      +  ..+++|...+ .++|++++-
T Consensus       410 ~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        410 VIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHcCCc-hhhhHHHHh
Confidence            2  3444565554 455555543

>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=96.20  E-value=0.0077  Score=45.72  Aligned_cols=61  Identities=10%  Similarity=0.024  Sum_probs=44.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCC---CCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          534 DTLGAFIGACKVHGSIGLAKWAAEKLLEL----EPS---KPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      .++..+...+...|++++|+..+++++++    .++   -..++..++.+|...|++++|.+.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45666777777888888888888777643    222   24567788889999999999998887764

...

>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=96.19  E-value=0.0079  Score=45.66  Aligned_cols=60  Identities=22%  Similarity=0.197  Sum_probs=31.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC-------C-CCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM-------P-IEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~-~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      +|+.+...|.+.|++++|++.+++.       + ..|+ ..++..+...+...|++++|++.+++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3444455555555555555554444       1 1122 344555666666677777777777666543

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.18  E-value=0.083  Score=50.20  Aligned_cols=110  Identities=15%  Similarity=0.134  Sum_probs=53.0

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh---cCCcHHHHHHHHHHHHHhcCCCCChhhH
Q 044628          428 PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS---HGGLVSEGLRYFNLMISDYHILPDSEHY  504 (665)
Q Consensus       428 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~---~~g~~~~a~~~~~~~~~~~~~~p~~~~~  504 (665)
                      .|...|-.|...|..+|+++.|..-|.+..+.. .+|...+..+..++.   ...+..++.++|+++.+  .-+-|+...
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~--~D~~~iral  230 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALA--LDPANIRAL  230 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHh--cCCccHHHH
Confidence            355566666666666666666666666665531 122233333333322   22234455566665554  122234444


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHH
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFI  540 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll  540 (665)
                      .-|.-.+...|++.+|...++.| ..-|....|..++
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~i  267 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLI  267 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHH
Confidence            44444555555555555555555 3333333344443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.17  E-value=0.028  Score=54.98  Aligned_cols=127  Identities=13%  Similarity=0.063  Sum_probs=88.2

Q ss_pred             HHHHHHHhCCCCchHhHHHHHHHHH----HhCCC-CchhHHHHHHHHHHhcCCHHHHHHHHhcCC-------CC--ChhH
Q 044628          367 LASILSSCGSLSISCETRQVHAYAI----KNGVQ-AFLSIENALINAYSKCGSIAGALQCFGSVK-------EP--DLVT  432 (665)
Q Consensus       367 ~~~ll~~~~~~~~~~~a~~i~~~~~----~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~--~~~~  432 (665)
                      |..+-..|.-.|+++.+...|+.-.    +.|-. .....+..|..++.-.|+++.|.+.|+...       ++  ...+
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            4444445556688999998887543    23322 223456677888888899999998887543       22  3456


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH----cC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          433 WTSIIGAYAFHGLSKESIEVFEKMLS----HA-VRPDSIAFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       433 ~~~li~~~~~~g~~~~A~~~~~~m~~----~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                      ..+|.+.|.-..++++|+..+.+-+.    .+ ..-....+.+|..++...|..++|+.+.+...+
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            77788888888899999988876443    11 112335788999999999999999887766544

>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=96.10  E-value=0.61  Score=38.39  Aligned_cols=141  Identities=13%  Similarity=0.082  Sum_probs=83.3

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHH
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  519 (665)
                      +.-.|..++..++..+...+   .+..-++-++.-....-+-+...+.++.+-+-+.+.              .+|++..
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis--------------~C~NlKr   74 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDIS--------------KCGNLKR   74 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GG--------------G-S-THH
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCch--------------hhcchHH
Confidence            34457777777877777663   233334444433333344455555666554432222              3344444


Q ss_pred             HHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 044628          520 AYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDH  599 (665)
Q Consensus       520 A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~  599 (665)
                      ....+-.++  .+......-+.+...+|+.++-.+++..+.+-+..+|....-++++|.+.|+..++.+++++.-++|++
T Consensus        75 Vi~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   75 VIECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            444444432  234455566788889999999999999998766567899999999999999999999999999999875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.08  E-value=0.2  Score=49.60  Aligned_cols=95  Identities=19%  Similarity=0.113  Sum_probs=76.6

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  579 (665)
                      .++..+.-++.+.+++.+|++.-++. ...| |.-..-.=..+|...|+++.|+..|+++++++|+|..+..-|+.+--+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            35667778888899999998887777 4444 455555666889999999999999999999999998888888888877


Q ss_pred             cCCHHHH-HHHHHHHhhC
Q 044628          580 ERCWFDV-ARLRKMMRDN  596 (665)
Q Consensus       580 ~g~~~~A-~~~~~~m~~~  596 (665)
                      ..+..+. .++|..|-.+
T Consensus       338 ~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHhhc
Confidence            7776665 7788888654

>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=95.83  E-value=0.083  Score=44.08  Aligned_cols=50  Identities=18%  Similarity=0.246  Sum_probs=32.5

Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCChhHHHHHHHHHHh
Q 044628          496 HILPDSEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPRSDTLGAFIGACKV  545 (665)
Q Consensus       496 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~ll~~~~~  545 (665)
                      .+.|+.....+++.+|+..|++..|+++++..    +++-+..+|..|+.-+..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            44566777777777777777777777766555    555556677777754433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK11906 transcriptional regulator; Provisional

Probab=95.78  E-value=0.41  Score=48.68  Aligned_cols=81  Identities=12%  Similarity=0.043  Sum_probs=42.3

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCChHHHHHHHH
Q 044628          447 KESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRVGLLVEAYDLLA  525 (665)
Q Consensus       447 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~  525 (665)
                      .+|.++-++..+.+ .-|......+..+....|+++.|...|++...   +.|| ...|......+.-+|+.++|.+.++
T Consensus       321 ~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~---L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        321 QKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKI---HSTDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhh---cCCccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            34555555555543 33445555555555555556666666666654   3444 3344444444555666666666666


Q ss_pred             hC-CCCC
Q 044628          526 SM-PIEP  531 (665)
Q Consensus       526 ~~-~~~p  531 (665)
                      +. ...|
T Consensus       397 ~alrLsP  403 (458)
T PRK11906        397 KSLQLEP  403 (458)
T ss_pred             HHhccCc
Confidence            63 3334

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.75  E-value=0.42  Score=44.14  Aligned_cols=142  Identities=16%  Similarity=0.108  Sum_probs=73.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 044628          435 SIIGAYAFHGLSKESIEVFEKMLSHAVRPD--SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLG  512 (665)
Q Consensus       435 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  512 (665)
                      .....+...|++.+|.+.|+++...-....  ......+..++.+.|++++|...++...+.+.-.|... +.....+.+
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~-~A~Y~~g~~   88 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-YALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-HHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-hHHHHHHHH
Confidence            344455666777777777777766421111  12344556666677777777777777666443333221 111111111


Q ss_pred             hcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-----------------hHHHHHH
Q 044628          513 RVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV-----------------NYALVSN  575 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----------------~~~~l~~  575 (665)
                      .........                   ......+....|...++.+++.-|+++-                 .-..++.
T Consensus        89 ~~~~~~~~~-------------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~  149 (203)
T PF13525_consen   89 YYKQIPGIL-------------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIAR  149 (203)
T ss_dssp             HHHHHHHHH--------------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCccch-------------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            100000000                   0112223445666677777777776542                 2346788


Q ss_pred             HHHhcCCHHHHHHHHHHHhhC
Q 044628          576 VYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       576 ~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      .|.+.|+|..|..-++.+.+.
T Consensus       150 ~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen  150 FYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHHCTT-HHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH
Confidence            899999999999999988764

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.75  E-value=0.19  Score=48.69  Aligned_cols=161  Identities=14%  Similarity=0.077  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHH-cCCCCCH---HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC----Chhh
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLS-HAVRPDS---IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP----DSEH  503 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~---~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~  503 (665)
                      .|..+..++.+.-++.+++.+-+.-.. .|..|..   ....++..|....+.++++++.|+...+-..-..    ...+
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            455555565555555666555444333 1233311   2334455566666777888888877765211111    2346


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-------CCCCChhHHHH-----HHHHHHhcCCHHHHHHHHHHHHhc--CCC----
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASM-------PIEPRSDTLGA-----FIGACKVHGSIGLAKWAAEKLLEL--EPS----  565 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~-----ll~~~~~~g~~~~a~~~~~~~~~~--~p~----  565 (665)
                      +..|...|++..++++|.-+..++       +++-=..-|..     +.-+++..|....|.+..+++.++  ...    
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            777778888888877776655544       22211222332     234677778777777777776543  222    


Q ss_pred             CCchHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          566 KPVNYALVSNVYASERCWFDVARLRKM  592 (665)
Q Consensus       566 ~~~~~~~l~~~y~~~g~~~~A~~~~~~  592 (665)
                      .+.....++++|...|+.|.|..-++.
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHH
Confidence            233344778888888877776655544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.69  E-value=0.25  Score=41.74  Aligned_cols=89  Identities=17%  Similarity=0.123  Sum_probs=57.3

Q ss_pred             HHHHHhcCChHHHHHHHHhC----CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc---hHHHHHHHHHh
Q 044628          508 TDLLGRVGLLVEAYDLLASM----PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV---NYALVSNVYAS  579 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~y~~  579 (665)
                      .....+.|++++|.+.|+.+    |..| ....-..|+.++.+.++++.|...+++.++++|.++.   ++...|-++.+
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            34455677788888777777    3333 2334556677888888888888888888888888654   33444444555


Q ss_pred             cCC---------------HHHHHHHHHHHhhC
Q 044628          580 ERC---------------WFDVARLRKMMRDN  596 (665)
Q Consensus       580 ~g~---------------~~~A~~~~~~m~~~  596 (665)
                      ...               ..+|...|+.+..+
T Consensus        97 ~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~  128 (142)
T PF13512_consen   97 QDEGSLQSFFRSDRDPTPARQAFRDFEQLVRR  128 (142)
T ss_pred             HhhhHHhhhcccccCcHHHHHHHHHHHHHHHH
Confidence            443               55666666665543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.67  E-value=0.06  Score=54.43  Aligned_cols=62  Identities=13%  Similarity=-0.038  Sum_probs=36.7

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCCh----hHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRS----DTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      ...++.+..+|.+.|++++|+..|++. .+.|+.    .+|..+..+|...|+.++|+..+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            445555666666666666666666654 455542    23566666666666666666666666655

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.67  E-value=0.91  Score=41.92  Aligned_cols=164  Identities=16%  Similarity=0.108  Sum_probs=101.0

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCC--CC----hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHh
Q 044628          405 LINAYSKCGSIAGALQCFGSVKE--PD----LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS--IAFLEVLSACS  476 (665)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~  476 (665)
                      ....+...|++++|.+.|+.+..  |+    ....-.++.++.+.|++++|...+++.++.  -|+.  .-+...+.+.+
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g~~   88 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLGLS   88 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHHHH
Confidence            44566788999999999999873  22    235566788999999999999999999986  4443  33333333332


Q ss_pred             cCCcH-------------HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHH
Q 044628          477 HGGLV-------------SEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGAC  543 (665)
Q Consensus       477 ~~g~~-------------~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~  543 (665)
                      .-...             .+|...|+                .++.-|-......+|...+..+...- ..--..+...|
T Consensus        89 ~~~~~~~~~~~~~D~~~~~~A~~~~~----------------~li~~yP~S~y~~~A~~~l~~l~~~l-a~~e~~ia~~Y  151 (203)
T PF13525_consen   89 YYKQIPGILRSDRDQTSTRKAIEEFE----------------ELIKRYPNSEYAEEAKKRLAELRNRL-AEHELYIARFY  151 (203)
T ss_dssp             HHHHHHHHH-TT---HHHHHHHHHHH----------------HHHHH-TTSTTHHHHHHHHHHHHHHH-HHHHHHHHHHH
T ss_pred             HHHhCccchhcccChHHHHHHHHHHH----------------HHHHHCcCchHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence            22111             23333333                34444444455555555554441000 00111244668


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCCHHHHH
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKP---VNYALVSNVYASERCWFDVA  587 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~g~~~~A~  587 (665)
                      .+.|.+..|..-++.+++.-|+.+   .+...++..|.+.|..+.|.
T Consensus       152 ~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  152 YKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            889999999999999999999854   34568889999999888544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.64  E-value=1.9  Score=40.17  Aligned_cols=163  Identities=23%  Similarity=0.176  Sum_probs=115.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CC-hhHHHHHHH-HHHhcCChHHHHHHHHHHHHcCCCC----CHHHHHH
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVKE--PD-LVTWTSIIG-AYAFHGLSKESIEVFEKMLSHAVRP----DSIAFLE  470 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~-~~~~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~  470 (665)
                      ...+..+...+...++...+.+.+.....  ++ ...+..... .+...|+.++|...+.+...  ..|    ....+..
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~  172 (291)
T COG0457          95 AEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLA  172 (291)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHH
Confidence            33444455566666667777777776653  22 122333333 68889999999999999865  343    2234444


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcC
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHG  547 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g  547 (665)
                      ....+...++.+.+...+.....  .... ....+..+...+...|++++|...+... ...|+ ...+..+...+...+
T Consensus       173 ~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (291)
T COG0457         173 LGALLEALGRYEEALELLEKALK--LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELG  250 (291)
T ss_pred             hhhHHHHhcCHHHHHHHHHHHHh--hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcC
Confidence            44556778899999999999987  2333 4677888888999999999999999888 44554 445555555555777


Q ss_pred             CHHHHHHHHHHHHhcCCC
Q 044628          548 SIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       548 ~~~~a~~~~~~~~~~~p~  565 (665)
                      ..+.+...+++.++..|.
T Consensus       251 ~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         251 RYEEALEALEKALELDPD  268 (291)
T ss_pred             CHHHHHHHHHHHHHhCcc
Confidence            899999999999999987

>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=95.53  E-value=0.17  Score=42.28  Aligned_cols=97  Identities=16%  Similarity=0.181  Sum_probs=66.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHG  478 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  478 (665)
                      ..++.+++.++++.|+++....+.+..=..|+.       +-...+.         --......|+..+..+++.+++..
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~-------~~~~~~~---------~~~~spl~Pt~~lL~AIv~sf~~n   65 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVN-------GKKKEGD---------YPPSSPLYPTSRLLIAIVHSFGYN   65 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCC-------CccccCc---------cCCCCCCCCCHHHHHHHHHHHHhc
Confidence            345566666777777777766666554321111       1011111         112234678899999999999999


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 044628          479 GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLL  511 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  511 (665)
                      |++..|+++.+...+.|+++-+...|..|+.-.
T Consensus        66 ~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   66 GDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            999999999999999999888888998887643

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.43  E-value=3.1  Score=41.19  Aligned_cols=285  Identities=13%  Similarity=0.049  Sum_probs=148.9

Q ss_pred             hHHHHHHHHHhc--CCchHHHHHHHHHHHCCCCCCHhhHHHHHHHH--hccCCcHHHHHHHHHHHHhCCCCchhH--HHH
Q 044628          230 LWNVMVSCYALN--CLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSC--GTLGSSKLGRQIHGLVIKQSFDLDVLV--ATS  303 (665)
Q Consensus       230 ~~~~li~~~~~~--g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~--~~~~~~~~a~~~~~~~~~~g~~~~~~~--~~~  303 (665)
                      .|.+|-.|+...  |+-..|.++-.+-.+. +..|...+..++.+-  .-.|+.+.|.+-|+.|..   .|....  ...
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~---dPEtRllGLRg  159 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD---DPETRLLGLRG  159 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc---ChHHHHHhHHH
Confidence            344444444333  3333444433332211 333444555555442  234666666666666653   222221  112


Q ss_pred             HHHHHHhcCCHHHHHHHHhccCC--C-CchhHHHHHHHHHcCCChHHHHHHHHHHhhCC-CCCCHH--HHHHHHHHhCC-
Q 044628          304 LVDMYAKNGNIDDACRVFDGMTA--K-NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGS-FCPDEV--TLASILSSCGS-  376 (665)
Q Consensus       304 li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~--t~~~ll~~~~~-  376 (665)
                      |.-.--+.|+.+.|...-++.-+  | -...|.+.+...+..|+++.|+++++.-+... +.++..  .-..||.+-+. 
T Consensus       160 LyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         160 LYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            22222356677776666655543  1 23467777888888888888888887665432 334432  22223332111 


Q ss_pred             --CCchHhHHHHHHHHHHhCCCCchhHH-HHHHHHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHH
Q 044628          377 --LSISCETRQVHAYAIKNGVQAFLSIE-NALINAYSKCGSIAGALQCFGSVKE--PDLVTWTSIIGAYAFHGLSKESIE  451 (665)
Q Consensus       377 --~~~~~~a~~i~~~~~~~g~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~  451 (665)
                        ..+...++..-.+..+  +.|+..-. -.-...+.+.|++.++-.+++.+-+  |....|.    .|....-.+.++.
T Consensus       240 ~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~----lY~~ar~gdta~d  313 (531)
T COG3898         240 LLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIAL----LYVRARSGDTALD  313 (531)
T ss_pred             HhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHH----HHHHhcCCCcHHH
Confidence              1223334433333333  23332211 1123567778888888888777653  4444433    3333333344444


Q ss_pred             HHHHHHH-cCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh-cCChHHHHHHHHhC
Q 044628          452 VFEKMLS-HAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR-VGLLVEAYDLLASM  527 (665)
Q Consensus       452 ~~~~m~~-~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~  527 (665)
                      -+++..+ ..++||. .....+..+-...|++..|..--+...+   ..|....|..|.+.-.. .|+-.++...+-+.
T Consensus       314 RlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r---~~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         314 RLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR---EAPRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh---hCchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            4444433 2245654 4566667777777877777766666544   56777777777776544 37777777777766

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.39  E-value=0.054  Score=47.76  Aligned_cols=89  Identities=16%  Similarity=-0.002  Sum_probs=65.2

Q ss_pred             HHHhcCChHHHHHHHHhC-CCCC-C-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          510 LLGRVGLLVEAYDLLASM-PIEP-R-----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~-~~~p-~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      -+.+.|++++|..-|..+ ..-| .     .+.|..-..+..+.+.++.|+....++++++|.+..+...-+.+|.+..+
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEK  183 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhh
Confidence            455667777777766665 2112 1     33344444566778888999999999999999888888888889999999


Q ss_pred             HHHHHHHHHHHhhCCC
Q 044628          583 WFDVARLRKMMRDNCD  598 (665)
Q Consensus       583 ~~~A~~~~~~m~~~~~  598 (665)
                      +++|..-++++.+..+
T Consensus       184 ~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  184 YEEALEDYKKILESDP  199 (271)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999998888876543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.37  E-value=1.8  Score=44.37  Aligned_cols=98  Identities=18%  Similarity=0.215  Sum_probs=46.7

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCC-C-CCC--hhHHHHHHHHHHhc
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMP-I-EPR--SDTLGAFIGACKVH  546 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~p~--~~~~~~ll~~~~~~  546 (665)
                      +..++-+.|+.++|++.|+++.+++....+......|+..|...+++.++..++.+.. + -|.  ...|++.+-..+..
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaRav  344 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKARAV  344 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHHhh
Confidence            3334444555555555555555432211122334445555555555555555555541 1 122  22333333222222


Q ss_pred             CC---------------HHHHHHHHHHHHhcCCCCCc
Q 044628          547 GS---------------IGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       547 g~---------------~~~a~~~~~~~~~~~p~~~~  568 (665)
                      ++               ...|.++..++++.+|.-+.
T Consensus       345 ~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~  381 (539)
T PF04184_consen  345 GDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPK  381 (539)
T ss_pred             ccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCch
Confidence            22               23466788888888887543

The molecular function of this protein is uncertain.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.24  E-value=0.72  Score=43.86  Aligned_cols=120  Identities=11%  Similarity=0.039  Sum_probs=81.7

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHH---HHHHHhcCCHH
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAF---IGACKVHGSIG  550 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l---l~~~~~~g~~~  550 (665)
                      .....|+..+|...|......  .+-+...-..|+.+|...|+.++|..++..+|.+-...-|..+   +....+..+..
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            456678888888888888762  2334566677888888999999999999988655444444441   22222222222


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          551 LAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       551 ~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +. ..+++-+..+|+|...-..++..|...|+.++|.+.+-.+.++
T Consensus       221 ~~-~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         221 EI-QDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CH-HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            21 2244556778999999999999999999999998876555544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.21  E-value=0.13  Score=48.21  Aligned_cols=82  Identities=10%  Similarity=0.043  Sum_probs=44.4

Q ss_pred             hcCChHHHHHHHHhC-------CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHHHHHHhcCC
Q 044628          513 RVGLLVEAYDLLASM-------PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK---PVNYALVSNVYASERC  582 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~-------~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~y~~~g~  582 (665)
                      +.|++.+|.+.|...       ...|+...|  |..++...|+++.|..+|..+.+-.|++   |..+.-|+.+..+.|+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~  230 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGN  230 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcC
Confidence            344455555554444       122333333  4455566666666666666666544443   3445566666666666


Q ss_pred             HHHHHHHHHHHhhC
Q 044628          583 WFDVARLRKMMRDN  596 (665)
Q Consensus       583 ~~~A~~~~~~m~~~  596 (665)
                      -++|..+++++.++
T Consensus       231 ~d~A~atl~qv~k~  244 (262)
T COG1729         231 TDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHHHH
Confidence            66666666666543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.16  E-value=0.2  Score=46.80  Aligned_cols=100  Identities=14%  Similarity=0.173  Sum_probs=81.2

Q ss_pred             HHHHHhcCC--CCChhHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC-----------
Q 044628          418 ALQCFGSVK--EPDLVTWTSIIGAYAFH-----GLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGG-----------  479 (665)
Q Consensus       418 A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-----------  479 (665)
                      .++.|....  +.|-.+|-+++..+..+     +..+-....++.|.+-|+.-|..+|..||+.+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            345666666  57888898888888654     566777778899999999999999999999876643           


Q ss_pred             -----cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChH
Q 044628          480 -----LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLV  518 (665)
Q Consensus       480 -----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  518 (665)
                           .-+-++.++++|.. +|+.||-++-..|+++++|.|..-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             hhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccccH
Confidence                 23457899999987 899999999999999999988743

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.12  E-value=1.1  Score=47.32  Aligned_cols=162  Identities=12%  Similarity=0.037  Sum_probs=111.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCH-----HHHHHHHHHHhc----CCcHHHHHHHHHHHHHhcCCCCCh
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHA-VRPDS-----IAFLEVLSACSH----GGLVSEGLRYFNLMISDYHILPDS  501 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-----~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~  501 (665)
                      ....+++...-.|+-+.+++.+.+..+.+ +.-..     .+|..++..++.    ....+.|.++++.+.+.   -|+.
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s  266 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNS  266 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCc
Confidence            34456666677788888888887766532 22111     133444443332    45788999999999874   3776


Q ss_pred             hhHHHH-HHHHHhcCChHHHHHHHHhCC-CCC-----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH-HH
Q 044628          502 EHYTCL-TDLLGRVGLLVEAYDLLASMP-IEP-----RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYA-LV  573 (665)
Q Consensus       502 ~~~~~l-~~~~~~~g~~~~A~~~~~~~~-~~p-----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~-~l  573 (665)
                      ..|... ...+...|++++|++.|+++- .+.     ....+--+...+....++++|...+.++.+.+.-+...|. ..
T Consensus       267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~  346 (468)
T PF10300_consen  267 ALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            655433 456778899999999999761 111     2333444556677889999999999999997766555554 56


Q ss_pred             HHHHHhcCCH-------HHHHHHHHHHhhC
Q 044628          574 SNVYASERCW-------FDVARLRKMMRDN  596 (665)
Q Consensus       574 ~~~y~~~g~~-------~~A~~~~~~m~~~  596 (665)
                      +-+|...|+.       ++|.++++++...
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            7778888998       8888888887653

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.04  E-value=0.35  Score=49.29  Aligned_cols=151  Identities=13%  Similarity=0.059  Sum_probs=92.5

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHH
Q 044628          444 GLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL  523 (665)
Q Consensus       444 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  523 (665)
                      .+...-+++-++..+  +.||..+-..++ +-..+..+.++.++|++..+. |    ...+..- ......|.   ..+.
T Consensus       182 Rnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkA-g----E~~lg~s-~~~~~~g~---~~e~  249 (539)
T PF04184_consen  182 RNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKA-G----EASLGKS-QFLQHHGH---FWEA  249 (539)
T ss_pred             CCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHH-H----HHhhchh-hhhhcccc---hhhh
Confidence            445555566666665  467765544333 233455678899999888762 1    1011000 00011111   1111


Q ss_pred             HHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccC
Q 044628          524 LASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS--KPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKV  601 (665)
Q Consensus       524 ~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~  601 (665)
                      +.+-..+|-..+=..|..++++.|+.++|++.++.+++..|.  +..+...|++.|...+++.|+..++.+-.+....|.
T Consensus       250 ~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkS  329 (539)
T PF04184_consen  250 WHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKS  329 (539)
T ss_pred             hhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCch
Confidence            111122333444456777888999999999999999987775  456778999999999999999999988766555555


Q ss_pred             CceeE
Q 044628          602 PGCSW  606 (665)
Q Consensus       602 ~~~s~  606 (665)
                      ..++|
T Consensus       330 Ati~Y  334 (539)
T PF04184_consen  330 ATICY  334 (539)
T ss_pred             HHHHH
Confidence            54444

The molecular function of this protein is uncertain.

>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=94.89  E-value=0.25  Score=42.85  Aligned_cols=68  Identities=21%  Similarity=0.265  Sum_probs=32.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH----hcCCCCChh
Q 044628          434 TSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMIS----DYHILPDSE  502 (665)
Q Consensus       434 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~  502 (665)
                      ..++..+...|++++|+.+.+.+.... +-|...+..++.++...|+..+|.+.|+.+.+    +.|+.|+..
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~  137 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPE  137 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHH
Confidence            334445555566666666666555541 22444555556666666666666655554432    235555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.85  E-value=1.7  Score=37.18  Aligned_cols=87  Identities=13%  Similarity=0.072  Sum_probs=57.4

Q ss_pred             hHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCC
Q 044628          164 TFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCL  243 (665)
Q Consensus       164 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~  243 (665)
                      ....++..+...+.......+++.+.+.+ ..+....|.++..|++.+. .+....++.  ..+......+++.|.+.+.
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~--~~~~yd~~~~~~~c~~~~l   84 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN--KSNHYDIEKVGKLCEKAKL   84 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh--ccccCCHHHHHHHHHHcCc
Confidence            34567777777778888888888888877 3677888888888887643 344444442  2233444456666666666


Q ss_pred             chHHHHHHHHH
Q 044628          244 GDGAIAVFNLM  254 (665)
Q Consensus       244 ~~~A~~~~~~m  254 (665)
                      ++++.-++.++
T Consensus        85 ~~~~~~l~~k~   95 (140)
T smart00299       85 YEEAVELYKKD   95 (140)
T ss_pred             HHHHHHHHHhh
Confidence            66666666554

>PRK15331 chaperone protein SicA; Provisional

Probab=94.78  E-value=0.43  Score=41.32  Aligned_cols=91  Identities=13%  Similarity=0.054  Sum_probs=62.9

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCC-CChhHHHHHHHHHHhcCCH
Q 044628          472 LSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIE-PRSDTLGAFIGACKVHGSI  549 (665)
Q Consensus       472 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~~  549 (665)
                      ..-+.+.|++++|..+|+-+.. ++ .-+..-|..|..++-..|++++|++.|..+ -+. -|+...--...++...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~-~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCI-YD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH-hC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            3345567888888888888776 22 234556677777888888888888888776 111 2333344455677788889


Q ss_pred             HHHHHHHHHHHhcCCC
Q 044628          550 GLAKWAAEKLLELEPS  565 (665)
Q Consensus       550 ~~a~~~~~~~~~~~p~  565 (665)
                      +.|+..|+.+++ .|.
T Consensus       122 ~~A~~~f~~a~~-~~~  136 (165)
T PRK15331        122 AKARQCFELVNE-RTE  136 (165)
T ss_pred             HHHHHHHHHHHh-Ccc
Confidence            999988888887 344

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.69  E-value=0.059  Score=32.92  Aligned_cols=32  Identities=22%  Similarity=0.128  Sum_probs=24.7

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          534 DTLGAFIGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      .+|..+..++...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            45777777888888888888888888888886

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 ....

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.65  E-value=0.27  Score=45.97  Aligned_cols=98  Identities=12%  Similarity=0.096  Sum_probs=72.5

Q ss_pred             HHHHHhccC--CCCchhHHHHHHHHHhc-----CCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccC-----------
Q 044628          216 ARRVFDEVL--CRDLVLWNVMVSCYALN-----CLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLG-----------  277 (665)
Q Consensus       216 A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~-----------  277 (665)
                      .++.|...+  ++|-.+|-+++..|...     +..+-....++.|.+-|+.-|..+|..||+.+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            345566665  56777777777777654     455666677788888899999999999988865543           


Q ss_pred             -----CcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 044628          278 -----SSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGN  313 (665)
Q Consensus       278 -----~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  313 (665)
                           +-+.+..++++|...|+-||..+-..|++++.+.|-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                 234577888888888888888888888888877665

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.64  E-value=0.074  Score=50.85  Aligned_cols=114  Identities=14%  Similarity=0.066  Sum_probs=81.7

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCC
Q 044628          472 LSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGS  548 (665)
Q Consensus       472 l~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~  548 (665)
                      .+-|.++|.+++|+.+|.....   +.| |.+.+..-..+|.+..++..|+.-.+.+ .+.- -...|..-..+-...|+
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 GNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            5668889999999999988765   456 8888888888999999998887766655 2111 12344444455556788


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKM  592 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~  592 (665)
                      ..+|.+-++.+++++|++.    -|-..|++..-..|+.-+.+.
T Consensus       181 ~~EAKkD~E~vL~LEP~~~----ELkK~~a~i~Sl~E~~I~~Ks  220 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNI----ELKKSLARINSLRERKIATKS  220 (536)
T ss_pred             HHHHHHhHHHHHhhCcccH----HHHHHHHHhcchHhhhHHhhc
Confidence            9999999999999999953    455555555556665555443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.61  E-value=0.088  Score=32.05  Aligned_cols=32  Identities=28%  Similarity=0.112  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          535 TLGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       535 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      .|..+...+...|++++|++.++++++++|++
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            45666677777778888888888887777764

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 ....

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.58  E-value=0.25  Score=40.39  Aligned_cols=90  Identities=17%  Similarity=0.083  Sum_probs=57.0

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCC-C-Chh---HHHHHHHHHHhcC
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIE-P-RSD---TLGAFIGACKVHG  547 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p-~~~---~~~~ll~~~~~~g  547 (665)
                      +.+..|+++.|++.|.+...  -.+-....||.-..++--+|+.++|++-+++. ... | .-.   .|..-...|+..|
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 ALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            45667777777777777765  23345667777777777777777777777766 111 1 111   2222334567788


Q ss_pred             CHHHHHHHHHHHHhcCCC
Q 044628          548 SIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       548 ~~~~a~~~~~~~~~~~p~  565 (665)
                      +.+.|+.-|+.+-++...
T Consensus       130 ~dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGSK  147 (175)
T ss_pred             chHHHHHhHHHHHHhCCH
Confidence            888888887777665544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.53  E-value=1.3  Score=37.93  Aligned_cols=63  Identities=13%  Similarity=0.117  Sum_probs=29.0

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc-CChHHHHHHHHhCCCCCChhHHHHHHHHH
Q 044628          468 FLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRV-GLLVEAYDLLASMPIEPRSDTLGAFIGAC  543 (665)
Q Consensus       468 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~p~~~~~~~ll~~~  543 (665)
                      ...+++.|.+.+.++++.-++..+..          |...++.+... ++.+.|.+++.+-   .+...|..++..|
T Consensus        72 ~~~~~~~c~~~~l~~~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~~---~~~~lw~~~~~~~  135 (140)
T smart00299       72 IEKVGKLCEKAKLYEEAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVKQ---NNPELWAEVLKAL  135 (140)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHhC---CCHHHHHHHHHHH
Confidence            33345555555555555555544422          12223333333 5555555555542   1344555555444

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.37  E-value=1.2  Score=42.97  Aligned_cols=112  Identities=13%  Similarity=0.095  Sum_probs=53.7

Q ss_pred             cCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH----HHHHHHhcCCcHHHH
Q 044628          412 CGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFL----EVLSACSHGGLVSEG  484 (665)
Q Consensus       412 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~----~ll~a~~~~g~~~~a  484 (665)
                      .|+.-+|...++++.+   .|..+|+--=.+|..+|+.+.-...+++.... ..||...|.    .+.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            3455555555554442   45555555555666666655555555555543 233332211    111233445555666


Q ss_pred             HHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          485 LRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       485 ~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      .+.-++..+   +.| |.-.-.++...+.-.|+..|+.++..+-
T Consensus       195 Ek~A~ralq---iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  195 EKQADRALQ---INRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             HHHHHhhcc---CCCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            555555443   222 2223334444455556666666655544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.32  E-value=1.4  Score=37.23  Aligned_cols=112  Identities=15%  Similarity=0.060  Sum_probs=51.4

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCh
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRP--DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLL  517 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p--~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  517 (665)
                      ..+.|++++|.+.|+.+...-...  ....-..++.++.+.|++++|...+++.++-+--.|+ ..|.....+++.-...
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~~~~~   98 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSYYEQD   98 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHHHHHh
Confidence            344555555555555555531100  1123444555555555555555555555553222222 2233333333322221


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          518 VEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       518 ~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      +..+.-+-  ..+             +..+....|...|+++++.-|++.
T Consensus        99 ~~~~~~~~--~~d-------------rD~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   99 EGSLQSFF--RSD-------------RDPTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             hhHHhhhc--ccc-------------cCcHHHHHHHHHHHHHHHHCcCCh
Confidence            11111111  111             112235678888999999999853

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.29  E-value=3.4  Score=39.45  Aligned_cols=175  Identities=13%  Similarity=0.005  Sum_probs=113.3

Q ss_pred             HHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 044628          417 GALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYH  496 (665)
Q Consensus       417 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  496 (665)
                      ...+.+++...+....--.-.......|+..+|..+|....... .-+...-..+..++...|+++.|..++..+..+. 
T Consensus       121 qlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~-  198 (304)
T COG3118         121 QLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQA-  198 (304)
T ss_pred             HHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccc-
Confidence            33444455444322222223345677889999999999888853 2234566677888899999999999998875521 


Q ss_pred             CCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCCchHHHH
Q 044628          497 ILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELE--PSKPVNYALV  573 (665)
Q Consensus       497 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l  573 (665)
                      -.........-+..+.++....+..++-.+..-.| |...-..+...+...|+.+.|...+-.+++.+  -++..+-..|
T Consensus       199 ~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~l  278 (304)
T COG3118         199 QDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTL  278 (304)
T ss_pred             hhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHH
Confidence            11111122234567777777777777777775566 45556667777888899999888877777654  3466777788


Q ss_pred             HHHHHhcCCHHH-HHHHHHHH
Q 044628          574 SNVYASERCWFD-VARLRKMM  593 (665)
Q Consensus       574 ~~~y~~~g~~~~-A~~~~~~m  593 (665)
                      ..++...|.-+. +.+.++++
T Consensus       279 le~f~~~g~~Dp~~~~~RRkL  299 (304)
T COG3118         279 LELFEAFGPADPLVLAYRRKL  299 (304)
T ss_pred             HHHHHhcCCCCHHHHHHHHHH
Confidence            888888875444 44445554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.29  E-value=4.4  Score=37.46  Aligned_cols=85  Identities=11%  Similarity=-0.018  Sum_probs=43.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC-------CCCCh-hHHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCCCchHHH
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASMP-------IEPRS-DTLGAFIGACKVHGSIGLAKWAAEKLLEL----EPSKPVNYAL  572 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~~-------~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~p~~~~~~~~  572 (665)
                      .....+|.|..+++||-..|.+-.       ..|+. ..+.+.+-.+....++..|++.++.--++    .|++..+...
T Consensus       154 gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~len  233 (308)
T KOG1585|consen  154 GKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLEN  233 (308)
T ss_pred             HHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHH
Confidence            334445666666666665554431       11221 12333333444455777777777765442    3445555555


Q ss_pred             HHHHHHhcCCHHHHHHHH
Q 044628          573 VSNVYASERCWFDVARLR  590 (665)
Q Consensus       573 l~~~y~~~g~~~~A~~~~  590 (665)
                      |...| ..|+.+++.++.
T Consensus       234 LL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  234 LLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHh-ccCCHHHHHHHH
Confidence            55555 456666665553

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.24  E-value=0.48  Score=45.51  Aligned_cols=160  Identities=14%  Similarity=-0.046  Sum_probs=114.8

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH----HHHHHHHhcCC
Q 044628          441 AFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYT----CLTDLLGRVGL  516 (665)
Q Consensus       441 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~  516 (665)
                      --+|+..+|...++++.+. .+.|...+.-.=.+|...|..+.-...++++...  -.|+...|.    .+.-++..+|-
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            3578888899999999886 4557778888888999999999999999888763  345554443    33445668999


Q ss_pred             hHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCchHHHHHHHHHhcCCHHHHHHHH
Q 044628          517 LVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS----KPVNYALVSNVYASERCWFDVARLR  590 (665)
Q Consensus       517 ~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~y~~~g~~~~A~~~~  590 (665)
                      +++|++.-++. .++| |.=.-.++.......|+..+|.+...+--..=.+    -.-.|-..+-.|.+.+.++.|.+++
T Consensus       191 y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  191 YDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             chhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999998888 5555 3444455666777888999998887765432221    1234556777788889999999999


Q ss_pred             HHHhhCCCccCCc
Q 044628          591 KMMRDNCDHKVPG  603 (665)
Q Consensus       591 ~~m~~~~~~~~~~  603 (665)
                      +.-.-+...|..+
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            7765555555544

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.16  E-value=4.8  Score=37.72  Aligned_cols=58  Identities=17%  Similarity=0.085  Sum_probs=43.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLELEPSKP---VNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +..-|.+.|.+..|..-++.+++--|+.+   .++..+..+|...|..++|.+.-+-+...
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            34667888888888888888888766543   44567777888889888888887766544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.90  E-value=0.49  Score=44.50  Aligned_cols=92  Identities=21%  Similarity=0.258  Sum_probs=50.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-hhHHHH
Q 044628          433 WTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS----IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDS-EHYTCL  507 (665)
Q Consensus       433 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l  507 (665)
                      |+.-+.. .+.|++.+|...|...++..  |+.    ..+--|..++...|+++.|..+|..+.++++-.|.. +.+--|
T Consensus       145 Y~~A~~~-~ksgdy~~A~~~F~~fi~~Y--P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         145 YNAALDL-YKSGDYAEAEQAFQAFIKKY--PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHH-HHcCCHHHHHHHHHHHHHcC--CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            4444433 34555667777776666642  221    133445666666666666666666666655444432 445555


Q ss_pred             HHHHHhcCChHHHHHHHHhC
Q 044628          508 TDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~  527 (665)
                      .....+.|+.++|...+++.
T Consensus       222 g~~~~~l~~~d~A~atl~qv  241 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQV  241 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHH
Confidence            55555555555555555554

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=93.55  E-value=7.9  Score=37.77  Aligned_cols=61  Identities=8%  Similarity=-0.022  Sum_probs=30.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC-C--ChhHHHHHHHHH---HhcCChHHHHHHHHHHHHcCCCCCH
Q 044628          404 ALINAYSKCGSIAGALQCFGSVKE-P--DLVTWTSIIGAY---AFHGLSKESIEVFEKMLSHAVRPDS  465 (665)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~~~~-~--~~~~~~~li~~~---~~~g~~~~A~~~~~~m~~~g~~p~~  465 (665)
                      .-++.+.+.++.+.+.+++.+|.. .  ....+..++..+   ..+ ....|...+..+....+.|..
T Consensus       126 L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  126 LKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHHIKQLAEK-SPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHHHHHHHhh-CcHHHHHHHHHHHHHHhCCCh
Confidence            334455556666666666666652 1  223444444433   332 234555555555554444443

It is also involved in sporulation [].

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.51  E-value=8.7  Score=38.95  Aligned_cols=151  Identities=13%  Similarity=0.003  Sum_probs=83.0

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--h
Q 044628          427 EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP---DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD--S  501 (665)
Q Consensus       427 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~  501 (665)
                      .....+|..++..+.+.|+++.|...+.++...+..+   +......-....-..|+.++|+..++..... .+..+  .
T Consensus       143 ~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~  221 (352)
T PF02259_consen  143 EELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDS  221 (352)
T ss_pred             hHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhcccc
Confidence            3455678888888899999999999888887743221   2233333445556678888888888777661 11111  1


Q ss_pred             hhHHHHHHHHHhcCChHHHHHH-HHhCCCCCChhHHHHHHHHHHhc------CCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDL-LASMPIEPRSDTLGAFIGACKVH------GSIGLAKWAAEKLLELEPSKPVNYALVS  574 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~ll~~~~~~------g~~~~a~~~~~~~~~~~p~~~~~~~~l~  574 (665)
                      .....+...+..  ..+..... ........-...+..+...+...      ++.+.+...++.+.++.|.....|..++
T Consensus       222 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a  299 (352)
T PF02259_consen  222 ISNAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWA  299 (352)
T ss_pred             ccHHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHH
Confidence            111111111100  00000000 00000000012233333333344      7889999999999999999888888777


Q ss_pred             HHHHhc
Q 044628          575 NVYASE  580 (665)
Q Consensus       575 ~~y~~~  580 (665)
                      ..+.+.
T Consensus       300 ~~~~~~  305 (352)
T PF02259_consen  300 LFNDKL  305 (352)
T ss_pred             HHHHHH
Confidence            776543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=93.48  E-value=12  Score=39.56  Aligned_cols=120  Identities=13%  Similarity=-0.036  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHH-HH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFI-GA  542 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll-~~  542 (665)
                      .+|...+.--...|+.+...-+|+...-  -+.--.+.|-..+.-....|+.+-|..++.+.  -..|+......+- ..
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli--~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLI--PCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHh--HHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            4666666666777777777777776654  12223455666666666667777777766665  1122222222222 23


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHH
Q 044628          543 CKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVA  587 (665)
Q Consensus       543 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~  587 (665)
                      +-..|+...|..+++.+.+--|....+-..-+++..+.|+.+.+.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhh
Confidence            455678888888888877655775555556666777777777777

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=93.48  E-value=7.1  Score=39.31  Aligned_cols=68  Identities=21%  Similarity=0.258  Sum_probs=35.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhccCCC---Cc----hhHHHHHHHHHc---CCChHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 044628          304 LVDMYAKNGNIDDACRVFDGMTAK---NV----VSWNTMVVGFGQ---NGDGREAVKLLRDMLQGSFCPDEVTLASIL  371 (665)
Q Consensus       304 li~~~~~~g~~~~A~~~~~~~~~~---~~----~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  371 (665)
                      |+-.|-...+++...++.+.+...   +.    ..--...-++-+   .|+.++|++++..+....-.++..|+..+-
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            333455666666666666666542   11    111122334444   667777777777754444455555554443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.31  E-value=7.2  Score=36.61  Aligned_cols=170  Identities=16%  Similarity=0.165  Sum_probs=107.8

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC------ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCH--HH
Q 044628          397 AFLSIENALINAYSKCGSIAGALQCFGSVKEP------DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV-RPDS--IA  467 (665)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~t  467 (665)
                      |-...|+--+ .-.+.|++++|.+.|+.+...      ...+--.++-++-+.+++++|+..+++....-. .||.  +.
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 PASELYNEGL-TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY  111 (254)
T ss_pred             CHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence            4444555444 345679999999999999742      223444566678899999999999999988532 3333  34


Q ss_pred             HHHHHHHHhcC----Cc---HHHHHHHHHHHHHhcCC---CCChh------------hHHHHHHHHHhcCChHHHHHHHH
Q 044628          468 FLEVLSACSHG----GL---VSEGLRYFNLMISDYHI---LPDSE------------HYTCLTDLLGRVGLLVEAYDLLA  525 (665)
Q Consensus       468 ~~~ll~a~~~~----g~---~~~a~~~~~~~~~~~~~---~p~~~------------~~~~l~~~~~~~g~~~~A~~~~~  525 (665)
                      |...+..+...    .+   ..+|..-|+..+.++.-   .||+.            +=..+.+.|.+.|.+..|..-++
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~  191 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFE  191 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHH
Confidence            44444433332    22   34566666666664311   12221            11234456889999999999888


Q ss_pred             hC-CCCCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          526 SM-PIEPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       526 ~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      +| ..-|+    ...+-.+..+|...|-.++|....+-+-..-|+++
T Consensus       192 ~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s~  238 (254)
T COG4105         192 EVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDSQ  238 (254)
T ss_pred             HHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCc
Confidence            88 22222    33445566889999999999888776655556653

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=93.21  E-value=28  Score=43.18  Aligned_cols=63  Identities=8%  Similarity=-0.065  Sum_probs=55.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ..+|....+.++..|.++.|..+.-.+.+..+  +.++.-.+..+...|+-..|..+.+...+..
T Consensus      1670 ge~wLqsAriaR~aG~~q~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1670 GECWLQSARIARLAGHLQRAQNALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            56799999999999999999999888888775  5789999999999999999999999887654

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.18  E-value=1.2  Score=47.01  Aligned_cols=143  Identities=20%  Similarity=0.168  Sum_probs=100.9

Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-----hhHHHHHHHHH----hcCChHHH
Q 044628          450 IEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDS-----EHYTCLTDLLG----RVGLLVEA  520 (665)
Q Consensus       450 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~----~~g~~~~A  520 (665)
                      .-+|.-+... ++|   .+..+++...-.|+-+.|++.+....+..++.-..     -.|..++..+.    .....+.|
T Consensus       177 ~G~f~L~lSl-LPp---~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPP---KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCH---HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            4455555553 333   34556666777899999999999877643333221     12333333332    35678899


Q ss_pred             HHHHHhC-CCCCChhHHHHHH-HHHHhcCCHHHHHHHHHHHHhcCCC----CCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          521 YDLLASM-PIEPRSDTLGAFI-GACKVHGSIGLAKWAAEKLLELEPS----KPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       521 ~~~~~~~-~~~p~~~~~~~ll-~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      .++++.+ ..-|+...|.-.- +.++..|+.+.|++.++++++....    ..-.+.-+++.+.-.++|++|.+.+..+.
T Consensus       253 ~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~  332 (468)
T PF10300_consen  253 EELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLL  332 (468)
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence            9999999 6678888776655 5578899999999999988753322    23456688999999999999999999998


Q ss_pred             hC
Q 044628          595 DN  596 (665)
Q Consensus       595 ~~  596 (665)
                      +.
T Consensus       333 ~~  334 (468)
T PF10300_consen  333 KE  334 (468)
T ss_pred             hc
Confidence            75

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.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.01  E-value=16  Score=39.80  Aligned_cols=101  Identities=10%  Similarity=-0.012  Sum_probs=66.6

Q ss_pred             HHHhcCCChHHHHHHHHHHHHhCCCC---chHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchH
Q 044628          170 RACVQADDIEVGRRLHSFILKVGFGL---NCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDG  246 (665)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  246 (665)
                      +.+.+.+.+++|...-+...  |..+   -..++..+|+.+.-.|++++|-...-.|...+..-|.-.+..+...++...
T Consensus       364 ~Wll~~k~yeeAl~~~k~~~--~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~  441 (846)
T KOG2066|consen  364 DWLLEKKKYEEALDAAKASI--GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTD  441 (846)
T ss_pred             HHHHHhhHHHHHHHHHHhcc--CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccch
Confidence            34445556666665544332  2333   356788889999999999999999999988888889888888888887765


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHhc
Q 044628          247 AIAVFNLMRLEGMKGDYFTFSSLVNSCGT  275 (665)
Q Consensus       247 A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  275 (665)
                      ...++   ....-+.+...|-.+|-.+..
T Consensus       442 Ia~~l---Pt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  442 IAPYL---PTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hhccC---CCCCcccCchHHHHHHHHHHH
Confidence            44432   222112344556666666554

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.73  E-value=2.1  Score=44.62  Aligned_cols=102  Identities=12%  Similarity=0.071  Sum_probs=56.7

Q ss_pred             HHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHH
Q 044628          204 VDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGR  283 (665)
Q Consensus       204 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  283 (665)
                      .+...++|+++.|.++.++..  +...|..|.....++|+++-|.+.|.+..+         |..|+-.+...|+.+.-.
T Consensus       325 FeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~  393 (443)
T PF04053_consen  325 FELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLS  393 (443)
T ss_dssp             HHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHH
T ss_pred             hHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHH
Confidence            444566677777777665544  445677777777777777777777766532         444555555566666666


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHh
Q 044628          284 QIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFD  322 (665)
Q Consensus       284 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  322 (665)
                      ++.+.....|-      +|....++.-.|++++..+++.
T Consensus       394 kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  394 KLAKIAEERGD------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHH
Confidence            66655555541      2333333444455555544443

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.

>PRK09687 putative lyase; Provisional

Probab=92.69  E-value=10  Score=36.86  Aligned_cols=78  Identities=15%  Similarity=0.119  Sum_probs=33.3

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCCh----HHHHHHHHHHhhCCCCCCHHHHHHHH
Q 044628          296 LDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDG----REAVKLLRDMLQGSFCPDEVTLASIL  371 (665)
Q Consensus       296 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~g~~p~~~t~~~ll  371 (665)
                      +|..+.-..+..+.+.|..+....+..-+..+|...=..-+.++.+.|+.    ++++..+..+...  .|+...-...+
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~  112 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAI  112 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHH
Confidence            34444444444444444433222222222333444444445555555542    3455555555332  24444444444


Q ss_pred             HHhC
Q 044628          372 SSCG  375 (665)
Q Consensus       372 ~~~~  375 (665)
                      .++.
T Consensus       113 ~aLG  116 (280)
T PRK09687        113 NATG  116 (280)
T ss_pred             HHHh
Confidence            4433

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.69  E-value=2.9  Score=43.53  Aligned_cols=104  Identities=16%  Similarity=0.103  Sum_probs=61.1

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 044628          407 NAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLR  486 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  486 (665)
                      +...++|+++.|.++.++..  +...|..|.......|+.+-|.+.|++...         |..|+--|.-.|+.+.-.+
T Consensus       326 eLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~k  394 (443)
T PF04053_consen  326 ELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSK  394 (443)
T ss_dssp             HHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHH
Confidence            45567788888877776654  566788888888888888888877776543         3344444555666655555


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCC
Q 044628          487 YFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMP  528 (665)
Q Consensus       487 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  528 (665)
                      +-+..... |      -++....++.-.|+.++..+++.+.+
T Consensus       395 l~~~a~~~-~------~~n~af~~~~~lgd~~~cv~lL~~~~  429 (443)
T PF04053_consen  395 LAKIAEER-G------DINIAFQAALLLGDVEECVDLLIETG  429 (443)
T ss_dssp             HHHHHHHT-T-------HHHHHHHHHHHT-HHHHHHHHHHTT
T ss_pred             HHHHHHHc-c------CHHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            55544431 1      13333344445566666666666553

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.

>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=92.68  E-value=4.6  Score=34.97  Aligned_cols=91  Identities=16%  Similarity=0.039  Sum_probs=60.8

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCH
Q 044628          472 LSACSHGGLVSEGLRYFNLMISDYHILPDSE-HYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSI  549 (665)
Q Consensus       472 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~  549 (665)
                      ++.-.+.++.+++..++..+..   +.|... .-..-...+.+.|++.+|+.+|+++ .-.|....-.+|+..|.....-
T Consensus        17 ~~~al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            3444566788888888888865   556533 3333455678889999999999998 4445555667777777665544


Q ss_pred             HHHHHHHHHHHhcCCC
Q 044628          550 GLAKWAAEKLLELEPS  565 (665)
Q Consensus       550 ~~a~~~~~~~~~~~p~  565 (665)
                      ..=....+++++..++
T Consensus        94 ~~Wr~~A~evle~~~d  109 (160)
T PF09613_consen   94 PSWRRYADEVLESGAD  109 (160)
T ss_pred             hHHHHHHHHHHhcCCC
Confidence            4445556667777664

>PRK11619 lytic murein transglycosylase; Provisional

Probab=92.68  E-value=19  Score=39.77  Aligned_cols=73  Identities=11%  Similarity=0.006  Sum_probs=38.2

Q ss_pred             HHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCC
Q 044628          304 LVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLS  378 (665)
Q Consensus       304 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~  378 (665)
                      -+..+.+.+++++..+++.. ...+...-.....+....|+.++|....+.+-..|. ........++..+.+.|
T Consensus       105 ~l~~La~~~~w~~~~~~~~~-~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~-~~p~~cd~l~~~~~~~g  177 (644)
T PRK11619        105 FVNELARREDWRGLLAFSPE-KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGK-SLPNACDKLFSVWQQSG  177 (644)
T ss_pred             HHHHHHHccCHHHHHHhcCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC-CCChHHHHHHHHHHHcC
Confidence            34444566677766663322 223444445566667777777667666666544442 22334444554444333

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.63  E-value=0.23  Score=30.80  Aligned_cols=26  Identities=4%  Similarity=0.038  Sum_probs=21.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          569 NYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       569 ~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      +|..|+++|.+.|+|++|++++++..
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            46789999999999999999998844

>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=92.41  E-value=1  Score=38.94  Aligned_cols=54  Identities=19%  Similarity=0.120  Sum_probs=35.9

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ...++.+.++.++..+.-+.|+.+..-..-++++...|+|++|.++++.+.+..
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~   74 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA   74 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC
Confidence            445566666666666666777766666666667777777777777776665543

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.41  E-value=19  Score=39.23  Aligned_cols=164  Identities=9%  Similarity=0.074  Sum_probs=91.6

Q ss_pred             hccCChHHHHHHHHHHHHhCCCC---ChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCchHHH
Q 044628           74 AKFGFLQQGKQLHSHIMKLGLCN---KLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYF  150 (665)
Q Consensus        74 ~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~~~~~  150 (665)
                      .+.+.+++|..+-....  |..+   -..++...|+.|.-.|++++|-.+.-.|-..+..-|..-+.-++..++.. .++
T Consensus       367 l~~k~yeeAl~~~k~~~--~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~-~Ia  443 (846)
T KOG2066|consen  367 LEKKKYEEALDAAKASI--GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLT-DIA  443 (846)
T ss_pred             HHhhHHHHHHHHHHhcc--CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccc-hhh
Confidence            34455555555443322  3333   34578889999999999999999998888888888888887777666543 333


Q ss_pred             HHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchh
Q 044628          151 RRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVL  230 (665)
Q Consensus       151 ~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  230 (665)
                      .-++...-+.+...|..+|..+..    ..-..+++...+.  +++...-...+++         ...-+++-.+ +...
T Consensus       444 ~~lPt~~~rL~p~vYemvLve~L~----~~~~~F~e~i~~W--p~~Lys~l~iisa---------~~~q~~q~Se-~~~L  507 (846)
T KOG2066|consen  444 PYLPTGPPRLKPLVYEMVLVEFLA----SDVKGFLELIKEW--PGHLYSVLTIISA---------TEPQIKQNSE-STAL  507 (846)
T ss_pred             ccCCCCCcccCchHHHHHHHHHHH----HHHHHHHHHHHhC--ChhhhhhhHHHhh---------cchHHHhhcc-chhH
Confidence            334433334566778888877766    2222333333221  2222222222111         0111111111 1112


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHH
Q 044628          231 WNVMVSCYALNCLGDGAIAVFNLMRL  256 (665)
Q Consensus       231 ~~~li~~~~~~g~~~~A~~~~~~m~~  256 (665)
                      -..|..-|...+++..|+.++-..++
T Consensus       508 ~e~La~LYl~d~~Y~~Al~~ylklk~  533 (846)
T KOG2066|consen  508 LEVLAHLYLYDNKYEKALPIYLKLQD  533 (846)
T ss_pred             HHHHHHHHHHccChHHHHHHHHhccC
Confidence            22377777788888888887766543

>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=92.40  E-value=5.5  Score=33.04  Aligned_cols=118  Identities=8%  Similarity=0.024  Sum_probs=55.9

Q ss_pred             HhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccC---------------------CCCchh
Q 044628          172 CVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL---------------------CRDLVL  230 (665)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---------------------~~~~~~  230 (665)
                      ..-.|.++++.++.....++.   +..-+|-+|--....-+-+...++++.+-                     ..+...
T Consensus        12 ~ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~   88 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEY   88 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HH
T ss_pred             HHHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHH
Confidence            345678888888888887764   33333333221222222222333333221                     112223


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhC
Q 044628          231 WNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQS  293 (665)
Q Consensus       231 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  293 (665)
                      .+..+..++..|+-++-.+++.++.+. -.++......+..||.+.|+..++.+++.++-+.|
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            344455566666666666666665532 24555566666666666666666666666666655

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.03  E-value=27  Score=40.12  Aligned_cols=84  Identities=19%  Similarity=0.259  Sum_probs=48.8

Q ss_pred             HHHHHcCCChHHHHHHHHHHhhCCCCCCHH--HHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 044628          336 VVGFGQNGDGREAVKLLRDMLQGSFCPDEV--TLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCG  413 (665)
Q Consensus       336 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g  413 (665)
                      +.+|..+|+|++|+.+-.+|...   -|..  +--.|.+-+...+..-+|-++..+....   +     .-.+..|++..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~ 1040 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAK 1040 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHh
Confidence            34456678888888887776431   1221  1134555566666666665555443321   1     23455677888


Q ss_pred             CHHHHHHHHhcCCCCCh
Q 044628          414 SIAGALQCFGSVKEPDL  430 (665)
Q Consensus       414 ~~~~A~~~~~~~~~~~~  430 (665)
                      .+++|.++-......|.
T Consensus      1041 ~~~eAlrva~~~~~~d~ 1057 (1265)
T KOG1920|consen 1041 EWEEALRVASKAKRDDI 1057 (1265)
T ss_pred             HHHHHHHHHHhcccchH
Confidence            88888877766554333

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.01  E-value=19  Score=38.15  Aligned_cols=181  Identities=14%  Similarity=0.062  Sum_probs=122.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA  474 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  474 (665)
                      +...|+..++.-.+.|+.+.+.-+|++..-   .-...|-..+.-.-..|+.+-|..++....+--++-.+.+-..-..-
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            456777778888888999999988888763   23345555555555558888888877776664333222322222233


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCChHHHH---HHHHhC-CCCCChhHHHHHH----H-HHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDS-EHYTCLTDLLGRVGLLVEAY---DLLASM-PIEPRSDTLGAFI----G-ACK  544 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~---~~~~~~-~~~p~~~~~~~ll----~-~~~  544 (665)
                      +-..|+.+.|..+++.+..+  . |+. ..-..-+....|.|..+.+.   +++... +..-+..+...+.    . -+.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            56678999999999999885  3 553 33334456677889888888   555554 2222333333322    1 234


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER  581 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  581 (665)
                      ..++.+.|..++.++.+..|++...|..+++.....+
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            5678999999999999999999999999988877665

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.96  E-value=1.2  Score=37.86  Aligned_cols=54  Identities=11%  Similarity=-0.013  Sum_probs=43.8

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ...++.+.++.++..+.-+.|+.+..-..-+.++...|+|+||.++++...+.+
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            347788888888888888888888888888888888888888888888887665

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.56  E-value=0.34  Score=31.69  Aligned_cols=32  Identities=13%  Similarity=0.043  Sum_probs=28.1

Q ss_pred             CchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          567 PVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       567 ~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      |.++..++..|.+.|++++|++++++..+...
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            45788999999999999999999999987643

>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=91.54  E-value=0.33  Score=29.47  Aligned_cols=31  Identities=26%  Similarity=0.107  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          535 TLGAFIGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       535 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      +|..+...+...|+.++|...++++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4556666777777777777777777777774

...

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.49  E-value=25  Score=38.68  Aligned_cols=87  Identities=16%  Similarity=0.080  Sum_probs=41.7

Q ss_pred             HHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCC-CCchhHHHHHHHHHHh---
Q 044628          235 VSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSF-DLDVLVATSLVDMYAK---  310 (665)
Q Consensus       235 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~~~---  310 (665)
                      ...+.-.|+++.|++.+-+  ..+...|.+.+...+.-+.-.+-.+...   ..+....- .+...-+..||..|.+   
T Consensus       265 f~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            4556678999999998877  3334567777777776654433222211   22222110 1111446677777776   


Q ss_pred             cCCHHHHHHHHhccCC
Q 044628          311 NGNIDDACRVFDGMTA  326 (665)
Q Consensus       311 ~g~~~~A~~~~~~~~~  326 (665)
                      ..+..+|.+.|--+..
T Consensus       340 ~td~~~Al~Y~~li~~  355 (613)
T PF04097_consen  340 ITDPREALQYLYLICL  355 (613)
T ss_dssp             TT-HHHHHHHHHGGGG
T ss_pred             ccCHHHHHHHHHHHHH
Confidence            3567777777766543

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.44  E-value=7.9  Score=39.26  Aligned_cols=64  Identities=17%  Similarity=0.176  Sum_probs=54.5

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          532 RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS----KPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       532 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ...+|..+...|+++|+++.|...+.++.+.++.    .+.....-+..+...|+-++|...++...+
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            4668999999999999999999999999886522    456777789999999999999999887776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.39  E-value=4.7  Score=39.50  Aligned_cols=93  Identities=13%  Similarity=0.212  Sum_probs=55.1

Q ss_pred             HHHHHHHHhcCCC-------CChhHHHHHHHHHHhcCC----hHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhcCCc-
Q 044628          415 IAGALQCFGSVKE-------PDLVTWTSIIGAYAFHGL----SKESIEVFEKMLSHAVRPDSI--AFLEVLSACSHGGL-  480 (665)
Q Consensus       415 ~~~A~~~~~~~~~-------~~~~~~~~li~~~~~~g~----~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~-  480 (665)
                      ..+|..+|+.|++       ++-..+..|+..  ..++    .+.+..+|+.+.+.|+..+..  ....+|..+..... 
T Consensus       119 ~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~  196 (297)
T PF13170_consen  119 IQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQE  196 (297)
T ss_pred             HHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchH
Confidence            3445556666653       333444444433  2222    356777888888888877543  34444443333222 


Q ss_pred             -HHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 044628          481 -VSEGLRYFNLMISDYHILPDSEHYTCLTDL  510 (665)
Q Consensus       481 -~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  510 (665)
                       +..+.++++.+.+ .|+++...+|..+.-+
T Consensus       197 ~v~r~~~l~~~l~~-~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  197 KVARVIELYNALKK-NGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHH-cCCccccccccHHHHH
Confidence             4578888888887 5999888888765433

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.25  E-value=27  Score=38.53  Aligned_cols=53  Identities=13%  Similarity=-0.065  Sum_probs=36.8

Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044628          507 LTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLL  560 (665)
Q Consensus       507 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  560 (665)
                      ++..+....+.+++..+.+..+-. |+..|..++..+.+.+.++.-.+...+++
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g~~-~p~l~~~~L~yF~~~~~i~~~~~~v~~vl  763 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLGKE-DPSLWLHALKYFVSEESIEDCYEIVYKVL  763 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhCcc-ChHHHHHHHHHHhhhcchhhHHHHHHHHH
Confidence            445566677788888888877533 77888888888888886665555555444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.13  E-value=34  Score=39.43  Aligned_cols=126  Identities=17%  Similarity=0.153  Sum_probs=65.9

Q ss_pred             CCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhC----CCCchHhHHHHH
Q 044628          312 GNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCG----SLSISCETRQVH  387 (665)
Q Consensus       312 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~----~~~~~~~a~~i~  387 (665)
                      +++++|+.-+..+.   ...|.-.+.---++|.+.+|+.++        +|+...+..+..+|+    ..+.++.|--.|
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Y  962 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADHLREELMSDEAALMY  962 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            56777777776665   334555555566788888888775        467666665554433    333444443333


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-ChhH--HHHHHHHHHhcCChHHHHHHHHHHH
Q 044628          388 AYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEP-DLVT--WTSIIGAYAFHGLSKESIEVFEKML  457 (665)
Q Consensus       388 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~--~~~li~~~~~~g~~~~A~~~~~~m~  457 (665)
                      ...-+.         .--+.+|..||+|.+|..+-.++... |...  -..|+.-+...++.-+|-++..+..
T Consensus       963 e~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen  963 ERCGKL---------EKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHh
Confidence            322111         01233444555555555555544432 2211  1445555556666666655555544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.11  E-value=28  Score=38.43  Aligned_cols=152  Identities=11%  Similarity=0.106  Sum_probs=88.5

Q ss_pred             cCCChHHHHHHHHHhh----ccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCC---Cccc
Q 044628           59 THSAHSFYSQALKVSA----KFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVR---NIVT  131 (665)
Q Consensus        59 ~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~---~~~~  131 (665)
                      -..+..+...+.+.|+    +.|+++.|.+-+-+.+  |+.-..    .+|.-|....+...--..++.+.+.   +...
T Consensus       360 ~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI--~~le~s----~Vi~kfLdaq~IknLt~YLe~L~~~gla~~dh  433 (933)
T KOG2114|consen  360 QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETI--GFLEPS----EVIKKFLDAQRIKNLTSYLEALHKKGLANSDH  433 (933)
T ss_pred             cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHc--ccCChH----HHHHHhcCHHHHHHHHHHHHHHHHcccccchh
Confidence            3345556666666554    5788888766554443  332222    2344454444455555555555432   3334


Q ss_pred             HHHHHHHHHhCCCCc-hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhC
Q 044628          132 WNTLISGIINCGGNV-TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKC  210 (665)
Q Consensus       132 ~~~li~~~~~~~~~~-~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  210 (665)
                      -+.|+.+|.+.++.+ +.-|-.-...|..  .+-+...+..|.+.+-.++|..+-.....     ...+...+   +-..
T Consensus       434 ttlLLncYiKlkd~~kL~efI~~~~~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il---le~~  503 (933)
T KOG2114|consen  434 TTLLLNCYIKLKDVEKLTEFISKCDKGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL---LEDL  503 (933)
T ss_pred             HHHHHHHHHHhcchHHHHHHHhcCCCcce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH---HHHh
Confidence            567889999988877 5444433334432  23356677777777777777665444332     33333344   3456


Q ss_pred             CChHHHHHHHhccCCC
Q 044628          211 GFVEDARRVFDEVLCR  226 (665)
Q Consensus       211 g~~~~A~~~~~~~~~~  226 (665)
                      |++++|.+.+..++-+
T Consensus       504 ~ny~eAl~yi~slp~~  519 (933)
T KOG2114|consen  504 HNYEEALRYISSLPIS  519 (933)
T ss_pred             cCHHHHHHHHhcCCHH
Confidence            8899999999998754

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.02  E-value=12  Score=34.07  Aligned_cols=180  Identities=17%  Similarity=0.042  Sum_probs=104.6

Q ss_pred             HhcCCHHHHHHHHhcCC--CC-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHH
Q 044628          410 SKCGSIAGALQCFGSVK--EP-DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGL  485 (665)
Q Consensus       410 ~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~  485 (665)
                      -..|-+.-|+--|....  .| -...||-+.--+...|+++.|.+.|+...+.  .|. ..++..-.-++.-.|++.-|.
T Consensus        76 DSlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL--Dp~y~Ya~lNRgi~~YY~gR~~LAq  153 (297)
T COG4785          76 DSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRYKLAQ  153 (297)
T ss_pred             hhhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhcc--CCcchHHHhccceeeeecCchHhhH
Confidence            33444444554454433  23 3456787877788889999999999988875  332 233333333456678888888


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHH-HHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044628          486 RYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL-LASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEP  564 (665)
Q Consensus       486 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  564 (665)
                      +=|...-++-.-.|-...|-   ..-.+.-++.+|..- .++. ...|..-|+..+-.+.- |++. -+.+++++.+-..
T Consensus       154 ~d~~~fYQ~D~~DPfR~LWL---Yl~E~k~dP~~A~tnL~qR~-~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~  227 (297)
T COG4785         154 DDLLAFYQDDPNDPFRSLWL---YLNEQKLDPKQAKTNLKQRA-EKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADAT  227 (297)
T ss_pred             HHHHHHHhcCCCChHHHHHH---HHHHhhCCHHHHHHHHHHHH-HhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhcc
Confidence            77766654322222222222   222344456666643 4444 23455667766544322 2211 1223333333222


Q ss_pred             CC-------CchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          565 SK-------PVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       565 ~~-------~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ++       +.+|..|+.-|...|..++|..+|+......
T Consensus       228 ~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         228 DNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             chHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            22       4678899999999999999999999876543

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=90.75  E-value=6.9  Score=34.38  Aligned_cols=134  Identities=7%  Similarity=0.035  Sum_probs=83.9

Q ss_pred             hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCC--ChHHHHHHHhccC
Q 044628          147 TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCG--FVEDARRVFDEVL  224 (665)
Q Consensus       147 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~  224 (665)
                      ++.++.+.+.|++|+...+..++..+.+.|++..    +.++++.++-+|.......+-.+....  -..-|...+.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            4455666778899999999999999999887654    444556666666554443332222211  1334444444433


Q ss_pred             CCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHh
Q 044628          225 CRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQ  292 (665)
Q Consensus       225 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  292 (665)
                          ..+..++..+...|++-+|+++.+.....    +......++.+..+.+|...--.++......
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                35677788899999999999988775332    2233345666666666666666666655554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.52  E-value=1.7  Score=41.58  Aligned_cols=75  Identities=15%  Similarity=0.235  Sum_probs=60.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCCHHHHHHH
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLS-----HAVRPDSIAFLEV  471 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t~~~l  471 (665)
                      .++..++..+..+|+.+.+...++++..   -|...|..+|.+|.+.|+...|+..|+++.+     .|+.|...+....
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            4556788889999999999988888763   5778999999999999999999999988876     5777777665555


Q ss_pred             HHH
Q 044628          472 LSA  474 (665)
Q Consensus       472 l~a  474 (665)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=90.49  E-value=4.7  Score=39.47  Aligned_cols=218  Identities=13%  Similarity=0.095  Sum_probs=101.9

Q ss_pred             hcCCHHHHHHHHhccCCC------CchhHHHHHHHHHcCCChHHHHHHHHHHhhC--CCCCCH---HHHHHHHHHhCCCC
Q 044628          310 KNGNIDDACRVFDGMTAK------NVVSWNTMVVGFGQNGDGREAVKLLRDMLQG--SFCPDE---VTLASILSSCGSLS  378 (665)
Q Consensus       310 ~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~---~t~~~ll~~~~~~~  378 (665)
                      ...+.++|+..+.+..++      ...++..+..+.++.|.+++++..--.-+..  ...-..   ..|..+-+++.+..
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666666666554432      2245666667777777777665532211110  001111   11222222222222


Q ss_pred             chHhHHHHHHHHHH-hCCCC---chhHHHHHHHHHHhcCCHHHHHHHHhcCCC---------CChhHHHHHHHHHHhcCC
Q 044628          379 ISCETRQVHAYAIK-NGVQA---FLSIENALINAYSKCGSIAGALQCFGSVKE---------PDLVTWTSIIGAYAFHGL  445 (665)
Q Consensus       379 ~~~~a~~i~~~~~~-~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~  445 (665)
                      ++.+++++-..-.. .|..+   ...+.-.+..+..-.+.++++++.|+...+         -....+-.|-+.|.+..+
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D  177 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKD  177 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHh
Confidence            22222222221111 11111   112223344555555666666666665431         123456666777777777


Q ss_pred             hHHHHHHHHHHHHc--CCCCCH--H-----HHHHHHHHHhcCCcHHHHHHHHHHHHHh---cCCCC-ChhhHHHHHHHHH
Q 044628          446 SKESIEVFEKMLSH--AVRPDS--I-----AFLEVLSACSHGGLVSEGLRYFNLMISD---YHILP-DSEHYTCLTDLLG  512 (665)
Q Consensus       446 ~~~A~~~~~~m~~~--g~~p~~--~-----t~~~ll~a~~~~g~~~~a~~~~~~~~~~---~~~~p-~~~~~~~l~~~~~  512 (665)
                      +++|+-+..+..+.  .+..+.  .     ....+.-++...|.+..|.+.-++..+-   .|-.+ ......++.|.|-
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR  257 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYR  257 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHH
Confidence            77777666555441  112111  1     1222334555666666666666655441   12211 1334456667777


Q ss_pred             hcCChHHHHHHHHhC
Q 044628          513 RVGLLVEAYDLLASM  527 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~  527 (665)
                      ..|+.|.|..-|+.+
T Consensus       258 ~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  258 SRGDLERAFRRYEQA  272 (518)
T ss_pred             hcccHhHHHHHHHHH
Confidence            777777776666654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.48  E-value=0.81  Score=44.09  Aligned_cols=87  Identities=17%  Similarity=0.209  Sum_probs=61.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc-
Q 044628          437 IGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRV-  514 (665)
Q Consensus       437 i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-  514 (665)
                      .+-|.+.|.+++|+..|..-..  +.| |.+++..-..||.+...+..|..=....+.     .|    ...+.+|.|. 
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia-----Ld----~~Y~KAYSRR~  172 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA-----LD----KLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH-----hh----HHHHHHHHHHH
Confidence            4579999999999999998876  467 889999999999999888877776665554     11    2335556554 


Q ss_pred             ------CChHHHHHHHHhC-CCCCChh
Q 044628          515 ------GLLVEAYDLLASM-PIEPRSD  534 (665)
Q Consensus       515 ------g~~~~A~~~~~~~-~~~p~~~  534 (665)
                            |...||.+-++.. .++|+..
T Consensus       173 ~AR~~Lg~~~EAKkD~E~vL~LEP~~~  199 (536)
T KOG4648|consen  173 QARESLGNNMEAKKDCETVLALEPKNI  199 (536)
T ss_pred             HHHHHHhhHHHHHHhHHHHHhhCcccH
Confidence                  5555665555555 5677643

>PRK09687 putative lyase; Provisional

Probab=90.47  E-value=18  Score=35.21  Aligned_cols=74  Identities=14%  Similarity=-0.006  Sum_probs=39.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS  476 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  476 (665)
                      +..+-...+.++++.|+..-.-.+.+.+..++  ..-..+.++...|.. +|+..+.++.+.  .||...-...+.+|.
T Consensus       205 ~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        205 NEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             ChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            44444555556666666432223333333333  233566677777764 677777777664  446555555555543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.02  E-value=5.6  Score=40.45  Aligned_cols=88  Identities=17%  Similarity=0.133  Sum_probs=38.3

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCC-CChhHHHHHHHHHHhcCCHHHHH
Q 044628          476 SHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIE-PRSDTLGAFIGACKVHGSIGLAK  553 (665)
Q Consensus       476 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~~~~a~  553 (665)
                      .+.|+++.+.+.+....+  -+.....+..+++..+.+.|++++|..+-+.| +.+ .++.+...-..+....|-++++.
T Consensus       334 ~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~  411 (831)
T PRK15180        334 SHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSY  411 (831)
T ss_pred             HHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHH
Confidence            444555555555544433  22333444445555555555555555554444 111 12222222222333444445555


Q ss_pred             HHHHHHHhcCCC
Q 044628          554 WAAEKLLELEPS  565 (665)
Q Consensus       554 ~~~~~~~~~~p~  565 (665)
                      ..+++++.++|.
T Consensus       412 ~~wk~~~~~~~~  423 (831)
T PRK15180        412 HYWKRVLLLNPE  423 (831)
T ss_pred             HHHHHHhccCCh
Confidence            555555554443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.96  E-value=15  Score=33.97  Aligned_cols=95  Identities=9%  Similarity=-0.026  Sum_probs=53.4

Q ss_pred             hHHHHHHHHHhc-CChHHHHHHHHhC-----CCCCChhHHHHHHH---HHHhcCCHHHHHHHHHHHHhcCCCCCc-----
Q 044628          503 HYTCLTDLLGRV-GLLVEAYDLLASM-----PIEPRSDTLGAFIG---ACKVHGSIGLAKWAAEKLLELEPSKPV-----  568 (665)
Q Consensus       503 ~~~~l~~~~~~~-g~~~~A~~~~~~~-----~~~p~~~~~~~ll~---~~~~~g~~~~a~~~~~~~~~~~p~~~~-----  568 (665)
                      ++-.+...|... .+++.|+..|+..     +-+.+...-.+++.   .-...+++.+|+.+|+++....-+++-     
T Consensus       115 ~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~  194 (288)
T KOG1586|consen  115 HHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSA  194 (288)
T ss_pred             hhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHH
Confidence            344455555544 5667777777666     22333334444443   345678899999999998765544432     


Q ss_pred             -hHHHHHH-HHHhcCCHHHHHHHHHHHhhCC
Q 044628          569 -NYALVSN-VYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       569 -~~~~l~~-~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                       -|..-+- ++.-.++.-.+...+++-.+..
T Consensus       195 KdyflkAgLChl~~~D~v~a~~ALeky~~~d  225 (288)
T KOG1586|consen  195 KDYFLKAGLCHLCKADEVNAQRALEKYQELD  225 (288)
T ss_pred             HHHHHHHHHHhHhcccHHHHHHHHHHHHhcC
Confidence             2222222 3333366666666666665543

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.51  E-value=6.4  Score=34.37  Aligned_cols=23  Identities=22%  Similarity=0.127  Sum_probs=10.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhccC
Q 044628          303 SLVDMYAKNGNIDDACRVFDGMT  325 (665)
Q Consensus       303 ~li~~~~~~g~~~~A~~~~~~~~  325 (665)
                      +|.-+-.|.|++.+|.+.|..+.
T Consensus       172 ALglAa~kagd~a~A~~~F~qia  194 (221)
T COG4649         172 ALGLAAYKAGDFAKAKSWFVQIA  194 (221)
T ss_pred             HHhHHHHhccchHHHHHHHHHHH
Confidence            33333444455555555554443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=89.44  E-value=14  Score=32.46  Aligned_cols=133  Identities=15%  Similarity=0.103  Sum_probs=80.6

Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCchHHHHHhhhCCCCCCcc
Q 044628           84 QLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHI  163 (665)
Q Consensus        84 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~~~~~~~m~~~g~~p~~~  163 (665)
                      +..+.+.+.|++++..++..+|+.+.+.|.+.....++..                                 ++-||..
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~---------------------------------~Vi~DSk   61 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQY---------------------------------HVIPDSK   61 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhh---------------------------------cccCCcH
Confidence            3344455667888888888888888888877666555443                                 3444444


Q ss_pred             hHHHHHHHHhcCCChHHHHHHHHHHHHh-CCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcC
Q 044628          164 TFNSLLRACVQADDIEVGRRLHSFILKV-GFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNC  242 (665)
Q Consensus       164 t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  242 (665)
                      .....+-.+..  ....+.++=-.|.+. |     ..+..++..+...|++-+|.++.+....-+...-..++.+-.+.+
T Consensus        62 ~lA~~LLs~~~--~~~~~~Ql~lDMLkRL~-----~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~  134 (167)
T PF07035_consen   62 PLACQLLSLGN--QYPPAYQLGLDMLKRLG-----TAYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSN  134 (167)
T ss_pred             HHHHHHHHhHc--cChHHHHHHHHHHHHhh-----hhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcC
Confidence            44444433322  223344443333332 1     134566777888999999999988865555556667777777777


Q ss_pred             CchHHHHHHHHHHH
Q 044628          243 LGDGAIAVFNLMRL  256 (665)
Q Consensus       243 ~~~~A~~~~~~m~~  256 (665)
                      +...=..+|+-..+
T Consensus       135 D~~lf~~V~~ff~~  148 (167)
T PF07035_consen  135 DDQLFYAVFRFFEE  148 (167)
T ss_pred             CHHHHHHHHHHHHH
Confidence            76655555554444

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.39  E-value=0.63  Score=28.81  Aligned_cols=28  Identities=21%  Similarity=0.113  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          535 TLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       535 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      +|..|...|...|++++|+.++++++++
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3667777788888888888888875543

>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=89.33  E-value=0.53  Score=26.61  Aligned_cols=24  Identities=8%  Similarity=-0.043  Sum_probs=19.9

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHH
Q 044628          568 VNYALVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~  591 (665)
                      .....++.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456788999999999999988775

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.16  E-value=16  Score=32.74  Aligned_cols=110  Identities=17%  Similarity=0.117  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHH--HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH-----HHHHHhcCChHHH
Q 044628          448 ESIEVFEKMLSHAVRPDSIAFL--EVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCL-----TDLLGRVGLLVEA  520 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~~t~~--~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l-----~~~~~~~g~~~~A  520 (665)
                      +.....+++....-.....++.  .+...+...|++++|...++....    .|..+.+..+     .......|.+++|
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~----~t~De~lk~l~~lRLArvq~q~~k~D~A  145 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALA----QTKDENLKALAALRLARVQLQQKKADAA  145 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc----cchhHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            5555556666542111112222  234567788999999988887765    2444444444     4567788999999


Q ss_pred             HHHHHhCCCCCChhHHHHH-----HHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          521 YDLLASMPIEPRSDTLGAF-----IGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       521 ~~~~~~~~~~p~~~~~~~l-----l~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      +..++...    ...|.++     ...+...|+.++|+..|+++++.+++
T Consensus       146 L~~L~t~~----~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         146 LKTLDTIK----EESWAAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHHhccc----cccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence            99998762    2223332     36688889999999999999988754

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.80  E-value=9.2  Score=37.52  Aligned_cols=61  Identities=15%  Similarity=0.062  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHhhCCCCCCH--HHHHHHHHHhCCCCc--hHhHHHHHHHHHHhCCCCchhHHHHHH
Q 044628          346 REAVKLLRDMLQGSFCPDE--VTLASILSSCGSLSI--SCETRQVHAYAIKNGVQAFLSIENALI  406 (665)
Q Consensus       346 ~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~--~~~a~~i~~~~~~~g~~~~~~~~~~li  406 (665)
                      +.+...|+.+.+.|...+.  ...+.+|..+.....  ...+..++..+.+.|++.....|..+.
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence            4455667777766655432  334444444433333  335666777777777776666655443

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=87.88  E-value=6.8  Score=39.70  Aligned_cols=64  Identities=19%  Similarity=0.174  Sum_probs=51.3

Q ss_pred             ChhHHHHHH---HHHHhcCCHHHHHHHHHHHHhcCCC-CCchHHHHHHHHH-hcCCHHHHHHHHHHHhh
Q 044628          532 RSDTLGAFI---GACKVHGSIGLAKWAAEKLLELEPS-KPVNYALVSNVYA-SERCWFDVARLRKMMRD  595 (665)
Q Consensus       532 ~~~~~~~ll---~~~~~~g~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~y~-~~g~~~~A~~~~~~m~~  595 (665)
                      |...|.++.   ....+.|-+..|.+..+-++.++|. ||-.-...++.|+ ++++++--.++.+....
T Consensus        99 NR~fflal~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~  167 (360)
T PF04910_consen   99 NRQFFLALFRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLA  167 (360)
T ss_pred             chHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhh
Confidence            344455554   5677889999999999999999999 8888888889888 77888888888776654

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 [].

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.84  E-value=0.83  Score=27.53  Aligned_cols=29  Identities=3%  Similarity=-0.010  Sum_probs=24.8

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          568 VNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ..+..++.+|...|++++|++.+++....
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            46789999999999999999999988754

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=87.58  E-value=36  Score=34.78  Aligned_cols=144  Identities=16%  Similarity=0.181  Sum_probs=103.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH-HHHHH
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVKE-----PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIA-FLEVL  472 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll  472 (665)
                      ..++..++..-.+..-++.|+.+|-+..+     +++..++++|.-++. |+...|..+|+--...  -||... ..-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            44566677777777788889999987764     677888888887764 6778888898876654  455543 34455


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcC
Q 044628          473 SACSHGGLVSEGLRYFNLMISDYHILPD--SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACKVHG  547 (665)
Q Consensus       473 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g  547 (665)
                      .-+...++-+.|..+|+..+.  .+..+  ...|..|++-=..-|++..|..+=+++ ..-|...+...+.+-|....
T Consensus       474 ~fLi~inde~naraLFetsv~--r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~Sry~ik~  549 (660)
T COG5107         474 LFLIRINDEENARALFETSVE--RLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTSRYAIKA  549 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHH--HHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHHHHhhhc
Confidence            666778888999999997665  23334  567889999888999999998887777 45566655555555554443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=87.47  E-value=12  Score=33.44  Aligned_cols=60  Identities=15%  Similarity=0.167  Sum_probs=28.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHH
Q 044628          433 WTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI--AFLEVLSACSHGGLVSEGLRYFNLMI  492 (665)
Q Consensus       433 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~  492 (665)
                      +..+..-|++.|+.++|++.|.++.+....|...  .+..++..+...|++..+.....++.
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3344444555555555555555555443333332  23444444455555555555444443

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=87.35  E-value=2.6  Score=40.40  Aligned_cols=59  Identities=17%  Similarity=0.181  Sum_probs=33.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          537 GAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       537 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ..++.++...|+.+.+...++++++.+|-+-..|..+...|.+.|+...|+..++++.+
T Consensus       157 ~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         157 TKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            33444445555555555555555666655555555566666666666666555555543

>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=87.31  E-value=2.1  Score=37.72  Aligned_cols=34  Identities=26%  Similarity=0.206  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      +++|+.-+++++.++|+...++..++++|...|.
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~   84 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHh
Confidence            4566677777888888888888888888876653

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=87.28  E-value=5.2  Score=35.84  Aligned_cols=94  Identities=19%  Similarity=0.163  Sum_probs=63.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCCC------ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH---HHHHH
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVKEP------DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS---IAFLE  470 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~t~~~  470 (665)
                      ..+..+.+.|.+.|+.+.|.+.|.++.+.      -+..+-.+|......|++..+.....+....--.+..   ..-..
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            45677889999999999999999998753      2346777888888999999999888877663222221   11111


Q ss_pred             HHH--HHhcCCcHHHHHHHHHHHHH
Q 044628          471 VLS--ACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       471 ll~--a~~~~g~~~~a~~~~~~~~~  493 (665)
                      +..  ++...+++.+|-+.|-....
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            111  23345666666666665544

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.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.14  E-value=25  Score=32.55  Aligned_cols=90  Identities=19%  Similarity=0.254  Sum_probs=53.0

Q ss_pred             CcHHHHHHHHHHHHHhcC-CCCChhhHHHHH---HHHHhcCChHHHHHHHHhC---CCCCChhHHHH---HH--HHHHhc
Q 044628          479 GLVSEGLRYFNLMISDYH-ILPDSEHYTCLT---DLLGRVGLLVEAYDLLASM---PIEPRSDTLGA---FI--GACKVH  546 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~-~~p~~~~~~~l~---~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~---ll--~~~~~~  546 (665)
                      .++++|+..|+..-+=+. -..+...--|++   +.-+..|++.+|+++|++.   ....+..-|..   ++  ..|...
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~  207 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLC  207 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHh
Confidence            455666666665544111 112222223443   3446788999999999887   33333333432   22  234444


Q ss_pred             -CCHHHHHHHHHHHHhcCCCCCc
Q 044628          547 -GSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       547 -g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                       .+.-.+...+++-.+++|.-..
T Consensus       208 ~~D~v~a~~ALeky~~~dP~F~d  230 (288)
T KOG1586|consen  208 KADEVNAQRALEKYQELDPAFTD  230 (288)
T ss_pred             cccHHHHHHHHHHHHhcCCcccc
Confidence             6888888999999999998443

>PRK10941 hypothetical protein; Provisional

Probab=87.05  E-value=4.8  Score=38.74  Aligned_cols=62  Identities=23%  Similarity=0.297  Sum_probs=54.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .+.|-.++...++++.|.++.+.++.+.|+++.-+.-.|-+|.+.|.+..|..-++...++.
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            45566788999999999999999999999999888889999999999999999888776654

>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=86.63  E-value=0.45  Score=45.96  Aligned_cols=90  Identities=12%  Similarity=0.061  Sum_probs=68.9

Q ss_pred             hcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHH
Q 044628          513 RVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLR  590 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~  590 (665)
                      ..|.+++|++.|... +..|. ...+..-.+++.+.++...|++-+..+++++|+.+.-|-.-+.+....|+|++|...+
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl  205 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDL  205 (377)
T ss_pred             cCcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHH
Confidence            356678888877776 55554 4445555567778888888888889999999998888888888888889999999988


Q ss_pred             HHHhhCCCccCC
Q 044628          591 KMMRDNCDHKVP  602 (665)
Q Consensus       591 ~~m~~~~~~~~~  602 (665)
                      ....+.+.....
T Consensus       206 ~~a~kld~dE~~  217 (377)
T KOG1308|consen  206 ALACKLDYDEAN  217 (377)
T ss_pred             HHHHhccccHHH
Confidence            888877765443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.49  E-value=0.97  Score=27.34  Aligned_cols=30  Identities=10%  Similarity=-0.009  Sum_probs=25.5

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          568 VNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .+|..++.+|...|++++|...+++..+..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            468899999999999999999999887643

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=85.71  E-value=2.6  Score=38.78  Aligned_cols=83  Identities=12%  Similarity=0.063  Sum_probs=38.3

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHH-HhcCCHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDSE-HYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGAC-KVHGSIGL  551 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~-~~~g~~~~  551 (665)
                      |.....++.|+..|.+.+.   +.|+.. .|..=+-.+.+..+++.+.+--.+. .+.|+.+--..+++.+ .....++.
T Consensus        20 ~f~~k~y~~ai~~y~raI~---~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~e   96 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAIC---INPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDE   96 (284)
T ss_pred             ccchhhhchHHHHHHHHHh---cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccH
Confidence            4444455555555555443   345442 2333344444555555554433333 4445544433333332 33344555


Q ss_pred             HHHHHHHHH
Q 044628          552 AKWAAEKLL  560 (665)
Q Consensus       552 a~~~~~~~~  560 (665)
                      |+..+.++.
T Consensus        97 aI~~Lqra~  105 (284)
T KOG4642|consen   97 AIKVLQRAY  105 (284)
T ss_pred             HHHHHHHHH
Confidence            555555553

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=85.32  E-value=29  Score=37.76  Aligned_cols=100  Identities=23%  Similarity=0.269  Sum_probs=62.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRPDSI---AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL  516 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p~~~---t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  516 (665)
                      |...+..+.|.+.|++.-+  +.|+..   .+..|+.+-.+  .++...++-.             .--.|-.+++|.|.
T Consensus       297 ytDa~s~~~a~~WyrkaFe--veP~~~sGIN~atLL~aaG~--~Fens~Elq~-------------IgmkLn~LlgrKG~  359 (1226)
T KOG4279|consen  297 YTDAESLNHAIEWYRKAFE--VEPLEYSGINLATLLRAAGE--HFENSLELQQ-------------IGMKLNSLLGRKGA  359 (1226)
T ss_pred             CcchhhHHHHHHHHHHHhc--cCchhhccccHHHHHHHhhh--hccchHHHHH-------------HHHHHHHHhhccch
Confidence            4445556778888888776  477664   35555544322  1222222111             11134456789998


Q ss_pred             hHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          517 LVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       517 ~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      ++.-.+.++-.          ..+.+..-.+++.+|.++.++++++.|..
T Consensus       360 leklq~YWdV~----------~y~~asVLAnd~~kaiqAae~mfKLk~P~  399 (1226)
T KOG4279|consen  360 LEKLQEYWDVA----------TYFEASVLANDYQKAIQAAEMMFKLKPPV  399 (1226)
T ss_pred             HHHHHHHHhHH----------HhhhhhhhccCHHHHHHHHHHHhccCCce
Confidence            88877776643          34556667789999999999999998863

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.23  E-value=15  Score=34.08  Aligned_cols=20  Identities=10%  Similarity=-0.041  Sum_probs=9.1

Q ss_pred             HHHHhcCChHHHHHHHHHHH
Q 044628          438 GAYAFHGLSKESIEVFEKML  457 (665)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~m~  457 (665)
                      .+|...+++++|...+.+..
T Consensus        39 vafRnAk~feKakdcLlkA~   58 (308)
T KOG1585|consen   39 VAFRNAKKFEKAKDCLLKAS   58 (308)
T ss_pred             HHHHhhccHHHHHHHHHHHH
Confidence            34444444555544444443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=84.85  E-value=68  Score=35.45  Aligned_cols=185  Identities=12%  Similarity=0.092  Sum_probs=89.4

Q ss_pred             HhcCCHHHHHHHHhcCCC-----CC-----hhHHHHHHHH--HHhcCChHHHHHHHH--------HHHHcCCCCCHHHHH
Q 044628          410 SKCGSIAGALQCFGSVKE-----PD-----LVTWTSIIGA--YAFHGLSKESIEVFE--------KMLSHAVRPDSIAFL  469 (665)
Q Consensus       410 ~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~~--~~~~g~~~~A~~~~~--------~m~~~g~~p~~~t~~  469 (665)
                      +-.|++..|...++.+.+     ++     ...+...+.|  +...|+.+.|+..|.        .....+...+...+.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila  451 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILA  451 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHH
Confidence            345667677776666542     11     2233333333  334588888888887        444444444444443


Q ss_pred             HHHHH--HhcC--CcHHH--HHHHHHHHHHhcCCCCC--hhhHHHHH-HHHHh---------cCChHHHHHHH-HhCCCC
Q 044628          470 EVLSA--CSHG--GLVSE--GLRYFNLMISDYHILPD--SEHYTCLT-DLLGR---------VGLLVEAYDLL-ASMPIE  530 (665)
Q Consensus       470 ~ll~a--~~~~--g~~~~--a~~~~~~~~~~~~~~p~--~~~~~~l~-~~~~~---------~g~~~~A~~~~-~~~~~~  530 (665)
                      .+=.+  +...  ...++  ..++++.+.....-.|+  ..++.+++ .++..         ...+.++++.. +..+..
T Consensus       452 ~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~~~L~~~~~~~~n~  531 (608)
T PF10345_consen  452 ALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQEALKMANNKLGNS  531 (608)
T ss_pred             HHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHHHHHHhhccc
Confidence            32111  1111  12222  66677666543233332  23333433 23321         11233444444 333211


Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC---CCCC-chH-----HHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          531 PRSDTLGAFIGACKVHGSIGLAKWAAEKLLELE---PSKP-VNY-----ALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       531 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---p~~~-~~~-----~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      --.....++++.-.-.|+..+..........+-   |+.. ..|     ..+.+.|...|+.++|...+.+..
T Consensus       532 ~l~~~~L~lm~~~lf~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  532 QLLAILLNLMGHRLFEGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            112223334444333677777666555554322   3322 233     255666888999999999887764

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 [].

>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=84.75  E-value=1.9  Score=25.96  Aligned_cols=28  Identities=7%  Similarity=0.075  Sum_probs=25.2

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          568 VNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .+|..++.+|...|++++|.+.+++..+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4688999999999999999999998765

...

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.74  E-value=7.1  Score=37.55  Aligned_cols=97  Identities=13%  Similarity=0.183  Sum_probs=71.7

Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-C--------ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 044628          393 NGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-P--------DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP  463 (665)
Q Consensus       393 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  463 (665)
                      .|......+...++..-....+++++...+-++.. +        ...+|   ++.+. .-++++++.++..=+.-|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~---irlll-ky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTW---IRLLL-KYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHH---HHHHH-ccChHHHHHHHhCcchhcccc
Confidence            45555556666677777777788888888777652 2        22333   33322 336779999998888999999


Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          464 DSIAFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       464 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                      |..|+..+++.+.+.+++.+|.++...|..
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            999999999999999999999888777765

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=84.36  E-value=1.9  Score=27.42  Aligned_cols=28  Identities=11%  Similarity=0.145  Sum_probs=23.3

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          568 VNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .++..|+.+|...|++++|..++++...
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            4678899999999999999999988765

>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=84.30  E-value=2.4  Score=29.04  Aligned_cols=33  Identities=21%  Similarity=0.215  Sum_probs=25.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLELEPSKPVNYA  571 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  571 (665)
                      +.-++.+.|+++.|++..+.+++++|+|..+-.
T Consensus         7 lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~   39 (53)
T PF14853_consen    7 LAIGHYKLGEYEKARRYCDALLEIEPDNRQAQS   39 (53)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHH
Confidence            445788999999999999999999999755433

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=84.29  E-value=1.7  Score=37.45  Aligned_cols=50  Identities=8%  Similarity=-0.033  Sum_probs=20.7

Q ss_pred             HHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHH
Q 044628          236 SCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQI  285 (665)
Q Consensus       236 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~  285 (665)
                      ..+.+.+.+.....+++.+...+...+....+.++..|++.++.+....+
T Consensus        15 ~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~   64 (143)
T PF00637_consen   15 SAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEF   64 (143)
T ss_dssp             HHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHT
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHH
Confidence            33334444444444444444433333344444444444444443333333

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=84.19  E-value=38  Score=31.99  Aligned_cols=239  Identities=15%  Similarity=0.176  Sum_probs=132.2

Q ss_pred             CCHHHHHHHHhccCC--C-----CchhHHHHHHHHHcCCChHHHHHHHHHHhh---CCCC--CCHHHHHHHHHHhCCCCc
Q 044628          312 GNIDDACRVFDGMTA--K-----NVVSWNTMVVGFGQNGDGREAVKLLRDMLQ---GSFC--PDEVTLASILSSCGSLSI  379 (665)
Q Consensus       312 g~~~~A~~~~~~~~~--~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~--p~~~t~~~ll~~~~~~~~  379 (665)
                      .+.++|+.-|..+.+  +     .....-.||..+.+.|++++.++.+.+|..   ..+.  -...+.++++...+...+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            355556665555432  1     112334567777777777777777777643   1111  234556677776666666


Q ss_pred             hHhHHHHHHHHHHh-----CCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---------------CChhHHHHHHHH
Q 044628          380 SCETRQVHAYAIKN-----GVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---------------PDLVTWTSIIGA  439 (665)
Q Consensus       380 ~~~a~~i~~~~~~~-----g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------------~~~~~~~~li~~  439 (665)
                      .+.-..+++.-.+.     +-..-..+-.-|...|...|++.+-.++++++..               .-...|..-|..
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence            66655555532221     1111112224566777778888888777776641               113467777888


Q ss_pred             HHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHh-----cCCcHHHHHHHHHHHHHhcCCC--CC---hhhHHHHH
Q 044628          440 YAFHGLSKESIEVFEKMLSHA-VRPDSIAFLEVLSACS-----HGGLVSEGLRYFNLMISDYHIL--PD---SEHYTCLT  508 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~-----~~g~~~~a~~~~~~~~~~~~~~--p~---~~~~~~l~  508 (665)
                      |....+-.+-..+|++...-. --|-+ ....+++-|.     +.|.+++|..-|-++-+.+.-.  |.   .--|-.|.
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHP-lImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHP-LIMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCch-HHHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            888888888888888776532 23333 3445566554     4578887765443333323222  22   22356667


Q ss_pred             HHHHhcCC----hHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          509 DLLGRVGL----LVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAA  556 (665)
Q Consensus       509 ~~~~~~g~----~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  556 (665)
                      +++.+.|-    .+||.    -....|.......|+.+|... +..+-++++
T Consensus       280 NMLmkS~iNPFDsQEAK----PyKNdPEIlAMTnlv~aYQ~N-dI~eFE~Il  326 (440)
T KOG1464|consen  280 NMLMKSGINPFDSQEAK----PYKNDPEILAMTNLVAAYQNN-DIIEFERIL  326 (440)
T ss_pred             HHHHHcCCCCCcccccC----CCCCCHHHHHHHHHHHHHhcc-cHHHHHHHH
Confidence            77777662    11211    012345566778888887654 444433333

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.13  E-value=6.6  Score=30.53  Aligned_cols=62  Identities=13%  Similarity=0.166  Sum_probs=47.1

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 044628          445 LSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLT  508 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  508 (665)
                      +.-++.+-++.+....+.|++....+.|+||.+.+++..|.++|+.++.+.+  .+...|..++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~l   83 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYIL   83 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHH
Confidence            3445666677777778899999999999999999999999999998875433  3444566554

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.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=84.10  E-value=17  Score=28.50  Aligned_cols=87  Identities=15%  Similarity=0.109  Sum_probs=61.4

Q ss_pred             ChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHH
Q 044628          177 DIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRL  256 (665)
Q Consensus       177 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  256 (665)
                      ..++|.-+-+.+...+-. ...+--.-+..+...|++++|..+.+.+..||+..|-+|-..  +.|..+++..-+.+|..
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~   96 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAA   96 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHh
Confidence            467777777777766522 333333334567789999999999999999999999887654  56767777777777777


Q ss_pred             CCCCCCHhhHH
Q 044628          257 EGMKGDYFTFS  267 (665)
Q Consensus       257 ~g~~p~~~t~~  267 (665)
                      .| .|...+|.
T Consensus        97 sg-~p~lq~Fa  106 (115)
T TIGR02508        97 SG-DPRLQTFV  106 (115)
T ss_pred             CC-CHHHHHHH
Confidence            66 34444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=83.97  E-value=12  Score=33.51  Aligned_cols=97  Identities=15%  Similarity=0.088  Sum_probs=56.2

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCC
Q 044628          476 SHGGLVSEGLRYFNLMISDYHILPD-----SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGS  548 (665)
Q Consensus       476 ~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~  548 (665)
                      ...|++++|..-|..++.  -+++.     ...|..-..++.+.+.++.|++-..+. .+.|. ......-..+|.+...
T Consensus       106 F~ngdyeeA~skY~~Ale--~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  106 FKNGDYEEANSKYQEALE--SCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEK  183 (271)
T ss_pred             hhcccHHHHHHHHHHHHH--hCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhh
Confidence            344555555555555554  12221     223444445666777777777666555 44442 2222222346777788


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHH
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVS  574 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~  574 (665)
                      ++.|+.-|+++++++|....+--..+
T Consensus       184 ~eealeDyKki~E~dPs~~ear~~i~  209 (271)
T KOG4234|consen  184 YEEALEDYKKILESDPSRREAREAIA  209 (271)
T ss_pred             HHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            99999999999999998644433333

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.95  E-value=28  Score=31.30  Aligned_cols=89  Identities=9%  Similarity=-0.042  Sum_probs=64.5

Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCCChhHHHHHH-----HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          508 TDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFI-----GACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll-----~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      ...+..+|++++|+.-++..--.|....+.+++     +.....|.++.|...++...+-.-. +.....-++++...|+
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~-~~~~elrGDill~kg~  174 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA-AIVAELRGDILLAKGD  174 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH-HHHHHHhhhHHHHcCc
Confidence            355788999999999998763244444444443     5566788889888887765433221 2334578999999999


Q ss_pred             HHHHHHHHHHHhhCC
Q 044628          583 WFDVARLRKMMRDNC  597 (665)
Q Consensus       583 ~~~A~~~~~~m~~~~  597 (665)
                      -++|+.-|++....+
T Consensus       175 k~~Ar~ay~kAl~~~  189 (207)
T COG2976         175 KQEARAAYEKALESD  189 (207)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            999999999988764

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.78  E-value=23  Score=37.43  Aligned_cols=150  Identities=13%  Similarity=0.031  Sum_probs=103.0

Q ss_pred             HhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHH
Q 044628          410 SKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYF  488 (665)
Q Consensus       410 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~  488 (665)
                      .-.|+++.|..++-.+++   ..-+.++.-+...|..++|+++         .+|.. -|-..    .+.|+++.|.++.
T Consensus       597 vmrrd~~~a~~vLp~I~k---~~rt~va~Fle~~g~~e~AL~~---------s~D~d~rFela----l~lgrl~iA~~la  660 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPK---EIRTKVAHFLESQGMKEQALEL---------STDPDQRFELA----LKLGRLDIAFDLA  660 (794)
T ss_pred             hhhccccccccccccCch---hhhhhHHhHhhhccchHhhhhc---------CCChhhhhhhh----hhcCcHHHHHHHH
Confidence            345788888877766663   2345566667777887777765         34432 23322    4578888888876


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044628          489 NLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       489 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                      .+.       .+..-|..|.++....|++..|.+.|.+..      -|..|+-.+...|+.+.-..+....-+-..+|  
T Consensus       661 ~e~-------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N--  725 (794)
T KOG0276|consen  661 VEA-------NSEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNN--  725 (794)
T ss_pred             Hhh-------cchHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhcccc--
Confidence            554       345678999999999999999999998863      26777777778888776666655555555443  


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          569 NYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       569 ~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                         .--.+|...|++++..+++..-
T Consensus       726 ---~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  726 ---LAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             ---hHHHHHHHcCCHHHHHHHHHhc
Confidence               3334677889998888876543

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=83.77  E-value=0.66  Score=39.96  Aligned_cols=85  Identities=13%  Similarity=0.043  Sum_probs=62.4

Q ss_pred             HHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchH
Q 044628          167 SLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDG  246 (665)
Q Consensus       167 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  246 (665)
                      .++..+.+.+.++....+++.+.+.+...+....+.++..|++.++.+...++++....   .-...++..+.+.|.+++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHH
Confidence            35667777788888888888888877667789999999999999888888888874332   334556666777777777


Q ss_pred             HHHHHHHH
Q 044628          247 AIAVFNLM  254 (665)
Q Consensus       247 A~~~~~~m  254 (665)
                      |.-++.++
T Consensus        89 a~~Ly~~~   96 (143)
T PF00637_consen   89 AVYLYSKL   96 (143)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHHHc
Confidence            77776665

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=83.40  E-value=6.8  Score=30.45  Aligned_cols=55  Identities=16%  Similarity=0.236  Sum_probs=40.2

Q ss_pred             HHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          519 EAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       519 ~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      .++.-+-.+.+-|++.+..+-+.||++.+|+..|.++++-+...-..+...|-.+
T Consensus        28 r~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~   82 (103)
T cd00923          28 RGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYI   82 (103)
T ss_pred             HHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHH
Confidence            3444444557889999999999999999999999999997764433333444433

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=83.30  E-value=1.4  Score=26.25  Aligned_cols=26  Identities=4%  Similarity=-0.036  Sum_probs=14.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          570 YALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       570 ~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      +..++.+|.+.|++++|.+.++++.+
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            34455555555666666665555543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=83.15  E-value=2.2  Score=25.95  Aligned_cols=30  Identities=17%  Similarity=0.330  Sum_probs=19.1

Q ss_pred             HHHHhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 044628          288 LVIKQSFDLDVLVATSLVDMYAKNGNIDDAC  318 (665)
Q Consensus       288 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  318 (665)
                      +.++.. +.+..+|+.|...|...|++++|+
T Consensus         4 kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    4 KAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            334433 556667777777777777777764

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.60  E-value=8  Score=30.44  Aligned_cols=56  Identities=18%  Similarity=0.226  Sum_probs=37.8

Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          518 VEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       518 ~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      ..++.-+-.+.+-|++.+..+.+.||++.+++..|.++++-+...-.+....|-.+
T Consensus        30 rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~   85 (108)
T PF02284_consen   30 RRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYI   85 (108)
T ss_dssp             HHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHH
T ss_pred             HHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHH
Confidence            34444445557889999999999999999999999999998875544434355544

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=82.24  E-value=2.6  Score=25.02  Aligned_cols=29  Identities=14%  Similarity=0.058  Sum_probs=23.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          538 AFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       538 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      .+..++...|+.++|...++++++..|++
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            45566777889999999999998888863

>smart00028 TPR Tetratricopeptide repeats

Probab=82.07  E-value=3  Score=23.90  Aligned_cols=28  Identities=32%  Similarity=0.152  Sum_probs=13.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044628          537 GAFIGACKVHGSIGLAKWAAEKLLELEP  564 (665)
Q Consensus       537 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p  564 (665)
                      ..+...+...|+.+.|...+++.+++.|
T Consensus         5 ~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        5 YNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            3333444444445555555544444444

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.03  E-value=6.5  Score=30.93  Aligned_cols=60  Identities=13%  Similarity=0.187  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 044628          448 ESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTD  509 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  509 (665)
                      +..+-++.+....+.|++....+.|.||.+.+++..|.++|+.++.+.+  +....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            5555666666677889999999999999999999999999999887544  33436766653

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 ....

>PRK12798 chemotaxis protein; Reviewed

Probab=81.54  E-value=66  Score=32.82  Aligned_cols=179  Identities=14%  Similarity=0.158  Sum_probs=120.5

Q ss_pred             cCCHHHHHHHHhcCCC----CChhHHHHHHHH-HHhcCChHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHhcCCcHH
Q 044628          412 CGSIAGALQCFGSVKE----PDLVTWTSIIGA-YAFHGLSKESIEVFEKMLSHAVRPDSI----AFLEVLSACSHGGLVS  482 (665)
Q Consensus       412 ~g~~~~A~~~~~~~~~----~~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~a~~~~g~~~  482 (665)
                      .|+.++|.+.+..+..    +....+-.|+.+ .....+..+|+++|++.+-.  -|...    ..-.-+....+.|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHH
Confidence            6889999999988873    555677777766 44567899999999998764  55442    3344455577889999


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHH-HHHHHHhcC---ChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          483 EGLRYFNLMISDYHILPDSEHYTC-LTDLLGRVG---LLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEK  558 (665)
Q Consensus       483 ~a~~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~g---~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  558 (665)
                      ++..+-.+....+...|-...|.. ++.++.+.+   ..+.-.+++..|.-.-....|..+...-...|+.+.|....++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            998888888776666665544433 333444333   3445555666663222356788888889999999999999999


Q ss_pred             HHhcCCCCCchHHHHHHHHH-----hcCCHHHHHHHHHHH
Q 044628          559 LLELEPSKPVNYALVSNVYA-----SERCWFDVARLRKMM  593 (665)
Q Consensus       559 ~~~~~p~~~~~~~~l~~~y~-----~~g~~~~A~~~~~~m  593 (665)
                      +..+... ...-...+.+|.     -..+.++|.+.+..+
T Consensus       283 A~~L~~~-~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I  321 (421)
T PRK12798        283 ALKLADP-DSADAARARLYRGAALVASDDAESALEELSQI  321 (421)
T ss_pred             HHHhccC-CCcchHHHHHHHHHHccCcccHHHHHHHHhcC
Confidence            9987644 333334444444     234566666666554

>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]

Probab=81.40  E-value=63  Score=32.49  Aligned_cols=109  Identities=23%  Similarity=0.320  Sum_probs=79.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHH------------HHHHHHhcCCHHHHHHHHHHHHhcCCCC------
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGA------------FIGACKVHGSIGLAKWAAEKLLELEPSK------  566 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~------------ll~~~~~~g~~~~a~~~~~~~~~~~p~~------  566 (665)
                      ..|.+.+-.+|+.++|.+++.+.+++    ||++            -++.|...+|+-.|.-+.+++...--+.      
T Consensus       135 k~L~~ike~~Gdi~~Aa~il~el~VE----Tygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~~~~~l  210 (439)
T KOG1498|consen  135 KMLAKIKEEQGDIAEAADILCELQVE----TYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKPDVQEL  210 (439)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhcchh----hhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHHH
Confidence            34556778899999999999988533    3332            2467888999999998888876432222      


Q ss_pred             -CchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeEEEECCEEEEEE
Q 044628          567 -PVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFV  617 (665)
Q Consensus       567 -~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~i~~~~~~~~f~  617 (665)
                       ...|..+.......+.+-++-+.++..-..|..+....-|+++-..+-.|.
T Consensus       211 KlkyY~lmI~l~lh~~~Yl~v~~~Yraiy~t~~vk~d~~kw~~vL~~iv~f~  262 (439)
T KOG1498|consen  211 KLKYYELMIRLGLHDRAYLNVCRSYRAIYDTGNVKEDPEKWIEVLRSIVSFC  262 (439)
T ss_pred             HHHHHHHHHHhcccccchhhHHHHHHHHhcccccccChhhhhhhhhhheeEE
Confidence             246888999999999999999999999888766665556876654444454

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=81.25  E-value=6.8  Score=36.29  Aligned_cols=89  Identities=10%  Similarity=-0.059  Sum_probs=64.6

Q ss_pred             HHHHhcCChHHHHHHHHhC---------CCCCChhHHHHH-----------HHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044628          509 DLLGRVGLLVEAYDLLASM---------PIEPRSDTLGAF-----------IGACKVHGSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~---------~~~p~~~~~~~l-----------l~~~~~~g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                      +-+.+.|++.||..-|+++         .-+|...-|.-|           -.++...|++-++++....++...|.+..
T Consensus       186 N~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~yevleh~seiL~~~~~nvK  265 (329)
T KOG0545|consen  186 NRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVK  265 (329)
T ss_pred             hhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHH
Confidence            3455666666666555543         334554445332           23445678888999999999999999999


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          569 NYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       569 ~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +|..-+.+.+..=+.++|..-+..+.+..
T Consensus       266 A~frRakAhaa~Wn~~eA~~D~~~vL~ld  294 (329)
T KOG0545|consen  266 AYFRRAKAHAAVWNEAEAKADLQKVLELD  294 (329)
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHhcC
Confidence            99999999999989999998888887543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=81.21  E-value=14  Score=31.54  Aligned_cols=70  Identities=13%  Similarity=-0.002  Sum_probs=45.5

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCChHHHHHHHHhCCCC-CChhHHHHHHHHHHh
Q 044628          473 SACSHGGLVSEGLRYFNLMISDYHILPDSE-HYTCLTDLLGRVGLLVEAYDLLASMPIE-PRSDTLGAFIGACKV  545 (665)
Q Consensus       473 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~ll~~~~~  545 (665)
                      +.-...++.+++..++..|.-   +.|+.. .-..-...+.+.|++++|+.+|++..-. +....-..|+..|..
T Consensus        18 ~~aL~~~d~~D~e~lLdALrv---LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~   89 (153)
T TIGR02561        18 MYALRSADPYDAQAMLDALRV---LRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLN   89 (153)
T ss_pred             HHHHhcCCHHHHHHHHHHHHH---hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHH
Confidence            334457888999999988865   556532 2233355678889999999999998333 343444455555544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=81.00  E-value=1.2e+02  Score=35.45  Aligned_cols=254  Identities=8%  Similarity=-0.088  Sum_probs=118.0

Q ss_pred             HHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCc
Q 044628          319 RVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAF  398 (665)
Q Consensus       319 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~  398 (665)
                      .+...+.++|...-..-+..+.+.+. +++...+.+....   +|...-...+.++...+........+..+.+.   ++
T Consensus       625 ~L~~~L~D~d~~VR~~Av~~L~~~~~-~~~~~~L~~aL~D---~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~---~d  697 (897)
T PRK13800        625 ELAPYLADPDPGVRRTAVAVLTETTP-PGFGPALVAALGD---GAAAVRRAAAEGLRELVEVLPPAPALRDHLGS---PD  697 (897)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHhhhcc-hhHHHHHHHHHcC---CCHHHHHHHHHHHHHHHhccCchHHHHHHhcC---CC
Confidence            44444455666555555666655554 3344444444432   23332233333332222111111122222221   44


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHG  478 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  478 (665)
                      ..+-...++.+...+.- ....+...+..+|...-...+.++.+.+..+.    +....   -.+|...-.....++...
T Consensus       698 ~~VR~~A~~aL~~~~~~-~~~~l~~~L~D~d~~VR~~Av~aL~~~~~~~~----l~~~l---~D~~~~VR~~aa~aL~~~  769 (897)
T PRK13800        698 PVVRAAALDVLRALRAG-DAALFAAALGDPDHRVRIEAVRALVSVDDVES----VAGAA---TDENREVRIAVAKGLATL  769 (897)
T ss_pred             HHHHHHHHHHHHhhccC-CHHHHHHHhcCCCHHHHHHHHHHHhcccCcHH----HHHHh---cCCCHHHHHHHHHHHHHh
Confidence            45545555555543311 12234445556666666666666666554322    12222   245555555555566555


Q ss_pred             CcHHH-HHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 044628          479 GLVSE-GLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAE  557 (665)
Q Consensus       479 g~~~~-a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  557 (665)
                      +..+. +...+..+.+    .++...-...+.++++.|..+.+...+..+-..+|..+-...+.++...+. +++...+.
T Consensus       770 ~~~~~~~~~~L~~ll~----D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~d~d~~VR~~Aa~aL~~l~~-~~a~~~L~  844 (897)
T PRK13800        770 GAGGAPAGDAVRALTG----DPDPLVRAAALAALAELGCPPDDVAAATAALRASAWQVRQGAARALAGAAA-DVAVPALV  844 (897)
T ss_pred             ccccchhHHHHHHHhc----CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhcCCChHHHHHHHHHHHhccc-cchHHHHH
Confidence            54332 3344444444    256666677777777777765554444444234455444555556655554 33444444


Q ss_pred             HHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          558 KLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       558 ~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      .+++ +| +..+-...+.++.+.+.-.++...+....
T Consensus       845 ~~L~-D~-~~~VR~~A~~aL~~~~~~~~a~~~L~~al  879 (897)
T PRK13800        845 EALT-DP-HLDVRKAAVLALTRWPGDPAARDALTTAL  879 (897)
T ss_pred             HHhc-CC-CHHHHHHHHHHHhccCCCHHHHHHHHHHH
Confidence            4442 23 23444445555555422234554544443

>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=80.94  E-value=9.5  Score=34.46  Aligned_cols=75  Identities=15%  Similarity=0.128  Sum_probs=52.9

Q ss_pred             HhcCChHHHHHHHHhCCCCC--ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCchHHHHHHHHHhcCCHHH
Q 044628          512 GRVGLLVEAYDLLASMPIEP--RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS----KPVNYALVSNVYASERCWFD  585 (665)
Q Consensus       512 ~~~g~~~~A~~~~~~~~~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~y~~~g~~~~  585 (665)
                      .|.|+ ++|.+.|-.+.-.|  +.......+..|....|.++++.++-+++++.+.    |+..+..|+.+|.+.|+++.
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~  196 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQ  196 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhh
Confidence            44454 67777777773233  3333444445556677899999999999886533    57889999999999999988


Q ss_pred             HH
Q 044628          586 VA  587 (665)
Q Consensus       586 A~  587 (665)
                      |-
T Consensus       197 AY  198 (203)
T PF11207_consen  197 AY  198 (203)
T ss_pred             hh
Confidence            75

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=80.88  E-value=11  Score=38.32  Aligned_cols=134  Identities=16%  Similarity=0.198  Sum_probs=84.6

Q ss_pred             HHHHhcCCHHHHH-HHHhcCCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcH
Q 044628          407 NAYSKCGSIAGAL-QCFGSVKE----PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLV  481 (665)
Q Consensus       407 ~~~~~~g~~~~A~-~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  481 (665)
                      .--...|++..|. ++|..+..    |+.+...+.  .+...|+++.+.+.+...... +.....+...+++..-..|++
T Consensus       297 ~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~--i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~  373 (831)
T PRK15180        297 TKQLADGDIIAASQQLFAALRNQQQDPVLIQLRSV--IFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARW  373 (831)
T ss_pred             HHHhhccCHHHHHHHHHHHHHhCCCCchhhHHHHH--HHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhH
Confidence            3334567776654 44444442    444443333  356779999999988776653 445667888888888899999


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CC-CCChhHHHHHHHHHHh
Q 044628          482 SEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PI-EPRSDTLGAFIGACKV  545 (665)
Q Consensus       482 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~  545 (665)
                      ++|...-+.|..+ .++ +.+....-...--..|-++++.-.+++. .+ .|...-|..+++.-.-
T Consensus       374 ~~a~s~a~~~l~~-eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~~~~~~~  437 (831)
T PRK15180        374 REALSTAEMMLSN-EIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNFLSSTQY  437 (831)
T ss_pred             HHHHHHHHHHhcc-ccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceeeecccee
Confidence            9999998888763 232 2332222222233457788898888887 33 3455567777765433

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.82  E-value=39  Score=29.76  Aligned_cols=122  Identities=15%  Similarity=0.117  Sum_probs=79.8

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH--HHHHHhcCC
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCL--TDLLGRVGL  516 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l--~~~~~~~g~  516 (665)
                      +++.|..++|+.-|.++.+.|...=++ ..........+.|+...|...|.++-.+..++--..-..-|  .-++...|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            456677888888888888876543222 22233344677888999999999887753322111111111  234567888


Q ss_pred             hHHHHHHHHhC--CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044628          517 LVEAYDLLASM--PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLE  561 (665)
Q Consensus       517 ~~~A~~~~~~~--~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  561 (665)
                      +++.....+.+  +-.| ....-.+|.-+-.+.|++..|...|+++..
T Consensus       148 y~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         148 YDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            88888888877  2223 244455676777889999999999988876

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=80.74  E-value=26  Score=27.60  Aligned_cols=62  Identities=19%  Similarity=0.259  Sum_probs=47.6

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 044628          407 NAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEV  471 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  471 (665)
                      ..+...|++++|..+.+.+..||...|-+|-..  +.|..+++..-+.+|-.+| .|...+|..=
T Consensus        47 sSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~sg-~p~lq~Faag  108 (115)
T TIGR02508        47 SSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAASG-DPRLQTFVAG  108 (115)
T ss_pred             HHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHhCC-CHHHHHHHHH
Confidence            345678999999999999988999999887554  5677777777788888776 6666666543

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.44  E-value=52  Score=35.78  Aligned_cols=150  Identities=13%  Similarity=-0.026  Sum_probs=74.8

Q ss_pred             hcCChHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHhcCC-----cHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 044628          442 FHGLSKESIEVFEKMLS-------HAVRPDSIAFLEVLSACSHGG-----LVSEGLRYFNLMISDYHILPDSEHYTCLTD  509 (665)
Q Consensus       442 ~~g~~~~A~~~~~~m~~-------~g~~p~~~t~~~ll~a~~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  509 (665)
                      ...+.+.|+.+|+.+.+       .|   +......+..+|.+..     +.+.|..++....+ .| .|+....-....
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~-~g-~~~a~~~lg~~~  335 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAE-LG-NPDAQYLLGVLY  335 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHh-cC-CchHHHHHHHHH
Confidence            34455555555555544       33   2223344444444432     44557777766655 22 233333322222


Q ss_pred             HHHh-cCChHHHHHHHHhCC--CCCChhHHHHHHHHHH--hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc-CCH
Q 044628          510 LLGR-VGLLVEAYDLLASMP--IEPRSDTLGAFIGACK--VHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASE-RCW  583 (665)
Q Consensus       510 ~~~~-~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~-g~~  583 (665)
                      ..+. ..+...|.++|..+.  -.++...+.++...+.  ...+.+.|...++++-+.++  +.+...++..|.-. +++
T Consensus       336 ~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g~--~~A~~~~~~~~~~g~~~~  413 (552)
T KOG1550|consen  336 ETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKGN--PSAAYLLGAFYEYGVGRY  413 (552)
T ss_pred             HcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHccC--hhhHHHHHHHHHHccccc
Confidence            2222 234567777777662  2223333332221111  23367788888888877773  34444454444433 777


Q ss_pred             HHHHHHHHHHhhCCC
Q 044628          584 FDVARLRKMMRDNCD  598 (665)
Q Consensus       584 ~~A~~~~~~m~~~~~  598 (665)
                      +.+.-.+..+.+.|.
T Consensus       414 ~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  414 DTALALYLYLAELGY  428 (552)
T ss_pred             cHHHHHHHHHHHhhh
Confidence            777777766666554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	665
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-04
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.6 bits (132), Expect = 4e-08
 Identities = 24/196 (12%), Positives = 52/196 (26%), Gaps = 7/196 (3%)

Query: 344 DGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIEN 403
             + A  L     Q    P E  LA +L            +       +  +        
Sbjct: 72  SKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLL 131

Query: 404 ALINAYSKCGSIAGALQCFGSVKE-------PDLVTWTSIIGAYAFHGLSKESIEVFEKM 456
           A          +  A                  L  + +++  +A  G  KE + V   +
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191

Query: 457 LSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL 516
               + PD +++   L         +  +      +S   +   +     L     R  +
Sbjct: 192 KDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATV 251

Query: 517 LVEAYDLLASMPIEPR 532
           L   + +  +  + P+
Sbjct: 252 LKAVHKVKPTFSLPPQ 267

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.6 bits (132), Expect = 5e-08
 Identities = 18/147 (12%), Positives = 45/147 (30%), Gaps = 8/147 (5%)

Query: 249 AVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQI---HGLVIKQSFDLDVLVATSLV 305
           A         + G      +    C       L   +   H    ++   L + +  +++
Sbjct: 113 APSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVM 172

Query: 306 DMYAKNGNIDDACRVFDGMTAK----NVVSWNTMVVGFGQNGDGREAV-KLLRDMLQGSF 360
             +A+ G   +   V   +       +++S+   +   G+       + + L  M Q   
Sbjct: 173 LGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGL 232

Query: 361 CPDEVTLASILSSCGSLSISCETRQVH 387
               +  A +LS     ++     +V 
Sbjct: 233 KLQALFTAVLLSEEDRATVLKAVHKVK 259

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 53.3 bits (126), Expect = 2e-07
 Identities = 15/120 (12%), Positives = 37/120 (30%), Gaps = 7/120 (5%)

Query: 263 YFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFD 322
               + L+       S  + +   G   +           +          +  A  +  
Sbjct: 92  EEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLV 151

Query: 323 GMTAK-------NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCG 375
               +        +  +N +++G+ + G  +E V +L  +      PD ++ A+ L   G
Sbjct: 152 VHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMG 211

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 44.0 bits (102), Expect = 2e-04
 Identities = 16/167 (9%), Positives = 49/167 (29%), Gaps = 8/167 (4%)

Query: 167 SLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR 226
            LL+       ++V +       +           A          +  A  +      +
Sbjct: 97  RLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQ 156

Query: 227 -------DLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLG-S 278
                   L ++N ++  +A        + V  +++  G+  D  ++++ +   G     
Sbjct: 157 RQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQD 216

Query: 279 SKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMT 325
           +    +    + ++   L  L    L+    +   +    +V    +
Sbjct: 217 AGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFS 263

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 43.3 bits (100), Expect = 3e-04
 Identities = 25/180 (13%), Positives = 56/180 (31%), Gaps = 20/180 (11%)

Query: 17  RPLSYLTPALYQNQTTTITNAQKHDRSVLSSQLRNSGTIHESTHSAHSFYSQALKVSAKF 76
            P       L Q     ++   +   S   SQ + SG                 K     
Sbjct: 89  SPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQR--------LLAFFKCCLLT 140

Query: 77  GFLQQGKQL----HSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVR----N 128
             L     L    H    K  L   L + N V+  + +  AF ++  +   ++      +
Sbjct: 141 DQLPLAHHLLVVHHGQRQKRKLLT-LDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPD 199

Query: 129 IVTWNTLISGIINCG---GNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLH 185
           ++++   +  +       G +     +M  + ++L  +    LL    +A  ++   ++ 
Sbjct: 200 LLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVK 259

>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 = 54.1 bits (129), Expect = 1e-07
 Identities = 89/600 (14%), Positives = 156/600 (26%), Gaps = 220/600 (36%)

Query: 86  HSHIMKLGLCNKLSLQNQ-VLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGG 144
           H H M      +   Q + +L V+      D     FD    +++               
Sbjct: 3   HHHHMDFET-GEHQYQYKDILSVFE-----DAFVDNFD---CKDV--------------- 38

Query: 145 NVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGF-GLNCFVSSAL 203
                  + +L    +DHI         +  D +    RL   +L      +  FV   L
Sbjct: 39  ---QDMPKSILSKEEIDHII--------MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL 87

Query: 204 VDLYG--------KCGFVEDARRVFDEVLCRDLVLWNV--MVSCY-------------AL 240
              Y         +        R++ E   RD  L+N   + + Y             AL
Sbjct: 88  RINYKFLMSPIKTEQRQPSMMTRMYIE--QRD-RLYNDNQVFAKYNVSRLQPYLKLRQAL 144

Query: 241 NCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLV 300
             L      +     ++G+ G            G                K       + 
Sbjct: 145 LELRPAKNVL-----IDGVLG-----------SG----------------KT-----WVA 167

Query: 301 ATSLVDMYAKNGNIDDACRVFDGMTAKNV-VSWNTMVVGFGQNGDGREAVKLLRDMLQGS 359
                          D C  +      +  + W    +          + + + +MLQ  
Sbjct: 168 L--------------DVCLSYKVQCKMDFKIFW----LNLKN----CNSPETVLEMLQ-- 203

Query: 360 FCPDEVTLASILSS--CGSLSISCETRQVHAYAIKNGVQAFLSIE---NALI---NAYSK 411
                  L   +          S   +    ++I+  ++  L  +   N L+   N  + 
Sbjct: 204 ------KLLYQIDPNWTSRSDHSSNIKL-RIHSIQAELRRLLKSKPYENCLLVLLNVQNA 256

Query: 412 CGSIAGA--LQCFGSVKEPDLVTWT-------SIIGAYAFH--------GLSK-ESIEVF 453
                 A  L C        L+T T        +  A   H         L+  E   + 
Sbjct: 257 --KAWNAFNLSC------KILLT-TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307

Query: 454 EKMLSHAVRPDSIAFLEVLSACSHG----GLVSEGLRYFNLMISDY---------HILPD 500
            K L    RP  +         +       +++E +R       ++          I+  
Sbjct: 308 LKYLD--CRPQDLP----REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361

Query: 501 SEHYTCLTDLLGRVGLLVEAYDLLA----SMPIEPRSDTLGAF----------IGACKVH 546
           S     L     R     + +D L+    S  I P +  L             +   K+H
Sbjct: 362 S--LNVLEPAEYR-----KMFDRLSVFPPSAHI-P-TILLSLIWFDVIKSDVMVVVNKLH 412

Query: 547 GSIGLAKWAAEK-------LLELEPSKPVNYAL---VSNVYASERCWFDVARLRKMMRDN 596
               + K   E         LEL+      YAL   + + Y   +  FD   L     D 
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT-FDSDDLIPPYLDQ 471

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	665
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	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.84
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.79
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.78
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.75
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.74
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.74
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.73
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.69
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.69
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.69
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.66
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.66
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.65
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.6
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.57
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.54
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.52
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.5
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.47
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.47
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.47
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.47
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.46
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.45
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.45
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.44
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.44
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.44
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.43
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.43
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.43
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.43
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.42
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.42
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.39
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.37
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.35
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.34
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.34
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.33
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.32
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.3
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.28
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.27
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.26
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.25
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.25
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.24
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.22
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.17
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.14
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.1
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.09
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.07
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.05
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.04
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.02
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.0
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.99
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.99
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.99
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.97
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.97
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.96
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.93
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.91
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.9
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.9
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.9
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.87
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.85
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.84
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.81
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.8
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.8
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.79
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.77
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.76
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.76
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.75
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.74
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.73
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.7
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.7
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.7
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.69
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.69
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.69
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.67
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.65
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.64
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.64
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.64
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.63
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.62
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.61
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.58
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.58
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.58
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.55
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.53
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.53
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.49
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.49
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.48
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.47
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.46
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.46
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.45
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.45
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.44
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.43
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.43
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.42
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.42
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.41
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.41
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.4
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.39
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.39
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.38
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.38
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.37
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.37
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.37
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.36
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.34
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.34
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.34
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.3
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.29
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.27
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.26
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.26
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.24
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.23
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.22
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.2
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.19
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.18
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.18
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.17
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.17
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.16
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.16
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.16
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.15
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.13
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.12
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.11
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.11
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.09
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.09
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.07
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.04
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.03
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.01
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.0
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.98
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.98
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.95
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.91
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.91
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.9
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.88
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.87
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.74
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.68
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.62
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.57
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.57
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.52
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.42
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.38
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.37
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.34
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.28
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.17
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.06
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.03
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.99
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.96
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.95
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.94
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.82
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.67
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.61
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.45
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.31
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.3
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.28
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.17
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.08
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.07
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.43
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.39
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.27
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.93
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.59
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.86
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.81
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.23
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.06
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.03
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.66
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.47
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.05
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	91.62
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.89
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.15
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	90.03
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	90.01
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	89.45
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.29
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.97
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	88.2
2p58_C	116	Putative type III secretion protein YSCG; type III	87.76
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	87.4
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.29
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	86.42
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	86.16
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	86.03
2p58_C	116	Putative type III secretion protein YSCG; type III	85.77
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.67
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	85.43
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	85.2
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.01
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	84.92
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.78
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	83.41
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.43
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	81.61
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	81.41

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.7e-43  Score=383.17  Aligned_cols=479  Identities=9%  Similarity=-0.073  Sum_probs=396.3

Q ss_pred             hhcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHH
Q 044628          108 YVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLH  185 (665)
Q Consensus       108 ~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  185 (665)
                      +.++|.+..++..|+.++.+++..|+.++..|.+.|+..  +.+|++|..  ..||..++..+..+|.+.|++++|..++
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            345666677777788877778888888888888888777  778888874  5678899999999999999999999999


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCC-------------------CchhHHHHHHHHHhcCCchH
Q 044628          186 SFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCR-------------------DLVLWNVMVSCYALNCLGDG  246 (665)
Q Consensus       186 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~g~~~~  246 (665)
                      +.+...  +++..+++.++.+|.++|++++|.++|+++...                   +..+|+.++.+|.+.|++++
T Consensus       141 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  218 (597)
T 2xpi_A          141 TKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR  218 (597)
T ss_dssp             HHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH
Confidence            988653  678999999999999999999999999965443                   37899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCC-HhhHHHHHHHHhccCCcHH--HHHH-HHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHh
Q 044628          247 AIAVFNLMRLEGMKGD-YFTFSSLVNSCGTLGSSKL--GRQI-HGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFD  322 (665)
Q Consensus       247 A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~--a~~~-~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  322 (665)
                      |+++|++|.+.+  |+ ...+..+...+...+..+.  +..+ +..+...+......+++.++.+|.++|++++|.++|+
T Consensus       219 A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  296 (597)
T 2xpi_A          219 AKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLS  296 (597)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHH
Confidence            999999998864  44 3444444443333222211  1111 4444444445556678888999999999999999999


Q ss_pred             ccCC--CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchh
Q 044628          323 GMTA--KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLS  400 (665)
Q Consensus       323 ~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~  400 (665)
                      ++.+  ++..+|+.++.+|.+.|++++|+.+|++|.+.+ +.+..++..++.++.+.|+.++|..++..+.+.. +.+..
T Consensus       297 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  374 (597)
T 2xpi_A          297 SINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAV  374 (597)
T ss_dssp             TSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHH
T ss_pred             HhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHH
Confidence            9987  789999999999999999999999999998765 3366788999999999999999999999998654 56788


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 044628          401 IENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSH  477 (665)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  477 (665)
                      +++.++.+|.++|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|++|.+.+ ..+..++..++.+|.+
T Consensus       375 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  453 (597)
T 2xpi_A          375 TWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQ  453 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            99999999999999999999999875   3578899999999999999999999999999863 4477899999999999


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-------CCCCC--hhHHHHHHHHHHhcCC
Q 044628          478 GGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-------PIEPR--SDTLGAFIGACKVHGS  548 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~ll~~~~~~g~  548 (665)
                      .|++++|.++|+.+.+.  .+.+..+|..++.+|.+.|++++|+++|+++       +..|+  ..+|..++.+|...|+
T Consensus       454 ~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          454 LGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            99999999999999873  3457889999999999999999999999998       45787  7799999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +++|++.++++++++|+++.+|..++.+|.+.|++++|.+.++++.+..
T Consensus       532 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          532 YDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999998654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.8e-40  Score=364.74  Aligned_cols=492  Identities=9%  Similarity=0.009  Sum_probs=366.6

Q ss_pred             CChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHccc--CCCCcccHHHHHHH
Q 044628           61 SAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEM--RVRNIVTWNTLISG  138 (665)
Q Consensus        61 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~--~~~~~~~~~~li~~  138 (665)
                      ++...|..++..+.+.|+++.|..++..+.+..  |+..++..++.+|.+.|++++|..+|+.+  ..++..+|+.++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDIT--GNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhhC--CCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHH
Confidence            455566666677777777777777776666433  55566666777777777777777776666  24455555555555


Q ss_pred             HHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHH
Q 044628          139 IINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDA  216 (665)
Q Consensus       139 ~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  216 (665)
                      |.+.|+.+  +++|+++.     |+..    ...++...++           ...|...+..+++.++.+|.+.|++++|
T Consensus       160 ~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~~~~~-----------~~~~~~~~~~~~~~l~~~~~~~g~~~~A  219 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETN-----PFRK----DEKNANKLLM-----------QDGGIKLEASMCYLRGQVYTNLSNFDRA  219 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSC-----TTC--------------C-----------CCSSCCHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhhHHHHHHHHhccC-----Cccc----cccccccccc-----------cccccchhHHHHHHHHHHHHHcCCHHHH
Confidence            55555544  44444211     1110    0000000000           0113344677888888888888888888


Q ss_pred             HHHHhccCCC---CchhHHHHHHHHHhcCCchHHHH--H-HHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHH
Q 044628          217 RRVFDEVLCR---DLVLWNVMVSCYALNCLGDGAIA--V-FNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVI  290 (665)
Q Consensus       217 ~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~--~-~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  290 (665)
                      .++|+++...   +...|..+...+...+..+.+..  + +..+...+..++..+|+.++..|.+.|++++|.++++.+.
T Consensus       220 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~  299 (597)
T 2xpi_A          220 KECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSIN  299 (597)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTST
T ss_pred             HHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhh
Confidence            8888887433   33445555544433332222211  1 4555554545556667777788888888888888888877


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHH
Q 044628          291 KQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTL  367 (665)
Q Consensus       291 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  367 (665)
                      +.  +++..+++.++.+|.+.|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+.+|+++.... ..+..++
T Consensus       300 ~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~  376 (597)
T 2xpi_A          300 GL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTW  376 (597)
T ss_dssp             TG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHH
T ss_pred             cC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHH
Confidence            65  57888888888888888999888888888753   467788888888889999999999998887543 4467788


Q ss_pred             HHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcC
Q 044628          368 ASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHG  444 (665)
Q Consensus       368 ~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g  444 (665)
                      ..+...|.+.|++++|.+++..+.+.. +.+..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|
T Consensus       377 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  455 (597)
T 2xpi_A          377 LAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLG  455 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcC
Confidence            888888888899999999888887754 3457789999999999999999999999875   358899999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCCC--hhhHHHHHHHHHhcCChHH
Q 044628          445 LSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDY---HILPD--SEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~  519 (665)
                      ++++|.++|+++.+.. ..+..+|..++..|.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++
T Consensus       456 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  534 (597)
T 2xpi_A          456 NILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDA  534 (597)
T ss_dssp             CHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHH
Confidence            9999999999999863 4467899999999999999999999999998732   55787  7899999999999999999


Q ss_pred             HHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 044628          520 AYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       520 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  579 (665)
                      |++.++++ ...| +..+|..+..+|...|++++|.+.++++++++|+++.++..++++|..
T Consensus       535 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          535 AIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            99999998 4445 688999999999999999999999999999999999999999998753

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=4.2e-26  Score=235.96  Aligned_cols=370  Identities=15%  Similarity=0.138  Sum_probs=298.8

Q ss_pred             HHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccC---CCCchhHHHHHHHHHhcCCch
Q 044628          169 LRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL---CRDLVLWNVMVSCYALNCLGD  245 (665)
Q Consensus       169 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  245 (665)
                      ...+.+.|++++|.+.+..+.+.. +.+...+..+...+...|++++|...++...   ..+..+|..+...|.+.|+++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            345667889999999998888864 3355667777788888999999998887663   346678899999999999999


Q ss_pred             HHHHHHHHHHHCCCCCC-HhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcc
Q 044628          246 GAIAVFNLMRLEGMKGD-YFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGM  324 (665)
Q Consensus       246 ~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  324 (665)
                      +|++.|+++...  .|+ ..+|..+..++...|++++|.+.+..+++.. +.+...+..+...|...|++++|.+.|+++
T Consensus        85 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           85 EAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999988774  354 4568888888888888888888888888775 445566777778888888888888888777


Q ss_pred             CC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhH
Q 044628          325 TA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSI  401 (665)
Q Consensus       325 ~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~  401 (665)
                      .+   .+..+|+.+...|.+.|++++|+..|+++...+  |+                                  +...
T Consensus       162 l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~----------------------------------~~~~  205 (388)
T 1w3b_A          162 IETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD--PN----------------------------------FLDA  205 (388)
T ss_dssp             HHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TT----------------------------------CHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CC----------------------------------cHHH
Confidence            53   345677888888888888888888888776632  32                                  2233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhc
Q 044628          402 ENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSH  477 (665)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~  477 (665)
                      +..+...+...|++++|...|++..   ..+..+|..+...|...|++++|++.|+++.+.  .| +..++..+..++.+
T Consensus       206 ~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~  283 (388)
T 1w3b_A          206 YINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHH
Confidence            4556667777788888887777654   346778899999999999999999999999985  45 45688889999999


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHH
Q 044628          478 GGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWA  555 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~  555 (665)
                      .|++++|++.|+.+.+.  .+.+...+..+..++.+.|++++|++.++++ ...|+ ..+|..+...+...|++++|+..
T Consensus       284 ~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  361 (388)
T 1w3b_A          284 KGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMH  361 (388)
T ss_dssp             HSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999873  4567889999999999999999999999998 55564 77899999999999999999999


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          556 AEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       556 ~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      ++++++++|+++.+|..++.+|...|+
T Consensus       362 ~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          362 YKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            999999999999999999999988764

>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=99.96  E-value=1e-28  Score=260.13  Aligned_cols=209  Identities=11%  Similarity=0.055  Sum_probs=174.7

Q ss_pred             hHHHHHhhhCCCCCCc-chHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCC
Q 044628          147 TPYFRRMLLDNVRLDH-ITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLC  225 (665)
Q Consensus       147 ~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  225 (665)
                      ..+.+++.+.++.+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+...++         
T Consensus        10 e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~---------   80 (501)
T 4g26_A           10 ENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES---------   80 (501)
T ss_dssp             --------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS---------
T ss_pred             HHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh---------
Confidence            4566777777766554 458889999999999999999999999999999999999999999988765432         


Q ss_pred             CCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHH
Q 044628          226 RDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLV  305 (665)
Q Consensus       226 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  305 (665)
                                   .+.+..++|.++|++|...|+.||..||+++|.+|++.|++++|.+++++|.+.|+.||..+||+||
T Consensus        81 -------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI  147 (501)
T 4g26_A           81 -------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPAL  147 (501)
T ss_dssp             -------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             -------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHH
Confidence                         2234568899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHhccC----CCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCC
Q 044628          306 DMYAKNGNIDDACRVFDGMT----AKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSL  377 (665)
Q Consensus       306 ~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  377 (665)
                      .+|++.|++++|.++|++|.    .||..+|++||.+|++.|+.++|.++|++|.+.|..|+..||+.++..++..
T Consensus       148 ~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          148 FGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999996    4789999999999999999999999999999999999999999999887654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=3.5e-25  Score=228.97  Aligned_cols=352  Identities=16%  Similarity=0.098  Sum_probs=285.7

Q ss_pred             HHHHHhcCCchHHHHHHHHHHHCCCCCC-HhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 044628          235 VSCYALNCLGDGAIAVFNLMRLEGMKGD-YFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGN  313 (665)
Q Consensus       235 i~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  313 (665)
                      ...+.+.|++++|++.+.++.+.  .|+ ...+..+...+...|++++|...+..+++.. +.+..++..+...|.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            34556677777777777777654  344 3344455555667777888887777777664 5667778888888888888


Q ss_pred             HHHHHHHHhccCC--C-CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCH-HHHHHHHHHhCCCCchHhHHHHHHH
Q 044628          314 IDDACRVFDGMTA--K-NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDE-VTLASILSSCGSLSISCETRQVHAY  389 (665)
Q Consensus       314 ~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~i~~~  389 (665)
                      +++|.+.|+++.+  | +..+|..+..++.+.|++++|+..|+++.+.  .|+. ..+..+...+...|++++|...+..
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            8888888887653  3 4456888888888888888888888888764  3443 3445556667778888888888888


Q ss_pred             HHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H
Q 044628          390 AIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-S  465 (665)
Q Consensus       390 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~  465 (665)
                      +.+.. +.+..++..+...|.+.|++++|...|+++.+   .+...|..+...+...|++++|+..|++..+.  .|+ .
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~  237 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHA  237 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCH
Confidence            87764 34567788899999999999999999998863   55678999999999999999999999999885  564 5


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCC-CChhHHHHHHHHH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIE-PRSDTLGAFIGAC  543 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~  543 (665)
                      .++..+..++...|++++|++.|+.+.+.  .+.+...|..+..++.+.|++++|++.++++ ... ++..+|..+...+
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHH
Confidence            78889999999999999999999999872  2335778999999999999999999999998 333 4678899999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...|++++|+..+++++++.|+++.++..++.+|.+.|++++|.+.++++.+.
T Consensus       316 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999754

>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=1.1e-27  Score=252.32  Aligned_cols=184  Identities=11%  Similarity=0.088  Sum_probs=170.4

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCc---------hHhHHHHHHHHHHhCCCCchh
Q 044628          330 VSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSI---------SCETRQVHAYAIKNGVQAFLS  400 (665)
Q Consensus       330 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~---------~~~a~~i~~~~~~~g~~~~~~  400 (665)
                      ..++.+|.+|++.|++++|+++|++|.+.|++||.+||+++|.+|++.+.         ++.|.++++.|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            45788899999999999999999999999999999999999999986554         688999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044628          401 IENALINAYSKCGSIAGALQCFGSVK----EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS  476 (665)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  476 (665)
                      +||+||.+|++.|++++|.++|++|.    .||..+||++|.+|++.|+.++|.++|++|.+.|+.||..||++||.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999987    48999999999999999999999999999999999999999999999999


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRV  514 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  514 (665)
                      +.|++++|.++|++|.+ .+..|+..+|+.+++.+...
T Consensus       187 ~~g~~d~A~~ll~~Mr~-~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRD-LVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCHHHHHHHHHHHHH-HTSSBCHHHHHHHHHHHHSH
T ss_pred             hCCCHHHHHHHHHHHHH-hCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999987 69999999999999988753

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=4.7e-23  Score=221.35  Aligned_cols=426  Identities=8%  Similarity=-0.081  Sum_probs=316.0

Q ss_pred             hHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccC---CCCchhHHHHHHHHHh
Q 044628          164 TFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL---CRDLVLWNVMVSCYAL  240 (665)
Q Consensus       164 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  240 (665)
                      .+...-..+...|++++|...+..+++..  |+..++..+..+|.+.|++++|.+.|+++.   ..+..+|..+..+|.+
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHH
Confidence            44555677888999999999999999976  689999999999999999999999998773   3356789999999999


Q ss_pred             cCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHH---HHHHHhcCCHHHH
Q 044628          241 NCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSL---VDMYAKNGNIDDA  317 (665)
Q Consensus       241 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l---i~~~~~~g~~~~A  317 (665)
                      .|++++|+..|+++...+. ++......++..+........+.+.+..+...+..++......-   ............+
T Consensus        86 ~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            9999999999999988752 34444444554444333333333333222221111111111000   0011111112222


Q ss_pred             HHHHhccCC---------C-CchhHHHHHHHHHc---CCChHHHHHHHHHHhh-----CCCCC--------CHHHHHHHH
Q 044628          318 CRVFDGMTA---------K-NVVSWNTMVVGFGQ---NGDGREAVKLLRDMLQ-----GSFCP--------DEVTLASIL  371 (665)
Q Consensus       318 ~~~~~~~~~---------~-~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~g~~p--------~~~t~~~ll  371 (665)
                      ...+.....         + +...|......+..   .|++++|+..|+++..     ....|        +..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence            222222221         1 23445445555554   8999999999999877     31122        245666777


Q ss_pred             HHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHH
Q 044628          372 SSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKE  448 (665)
Q Consensus       372 ~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  448 (665)
                      ..+...|+++.|...+..+.+....  ..++..+...|.+.|++++|...|+++.+   .+...|..+...|...|++++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHH
Confidence            7788899999999999999887654  78888899999999999999999988753   567889999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-
Q 044628          449 SIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-  527 (665)
Q Consensus       449 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  527 (665)
                      |+..|+++.+.. +.+..++..+...+...|++++|.++++.+.+.  .+.+...+..+...+.+.|++++|.+.++++ 
T Consensus       323 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          323 AGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             HHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999863 335678888999999999999999999999873  3346778899999999999999999999988 


Q ss_pred             ---CCCCC----hhHHHHHHHHHHh---cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          528 ---PIEPR----SDTLGAFIGACKV---HGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       528 ---~~~p~----~~~~~~ll~~~~~---~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                         +..++    ...|..+...+..   .|++++|...++++++.+|+++.++..++.+|.+.|++++|...+++..+..
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence               22232    3388889999999   9999999999999999999999999999999999999999999999988653

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=2e-22  Score=212.73  Aligned_cols=321  Identities=13%  Similarity=0.064  Sum_probs=224.7

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044628          229 VLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMY  308 (665)
Q Consensus       229 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  308 (665)
                      ..|..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++.+++.+ +.+..++..+..+|
T Consensus        27 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  104 (450)
T 2y4t_A           27 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLL  104 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHH
Confidence            345555555555555555555555554431 1234445555555555555555555555555543 33455556666666


Q ss_pred             HhcCCHHHHHHHHhccCCCC---c---hhHHHHHH------------HHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHH
Q 044628          309 AKNGNIDDACRVFDGMTAKN---V---VSWNTMVV------------GFGQNGDGREAVKLLRDMLQGSFCPDEVTLASI  370 (665)
Q Consensus       309 ~~~g~~~~A~~~~~~~~~~~---~---~~~~~li~------------~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  370 (665)
                      .+.|++++|.+.|+++.+.+   .   ..|..++.            .+.+.|++++|+..|+++...            
T Consensus       105 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~------------  172 (450)
T 2y4t_A          105 LKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV------------  172 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------------
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------
Confidence            66666666666666654321   2   34444433            355566666666666665542            


Q ss_pred             HHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChH
Q 044628          371 LSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSK  447 (665)
Q Consensus       371 l~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  447 (665)
                                             . +.+..++..+..+|.+.|++++|.+.|+++.   ..+..+|..+...|...|+++
T Consensus       173 -----------------------~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  228 (450)
T 2y4t_A          173 -----------------------C-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHE  228 (450)
T ss_dssp             -----------------------C-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHH
T ss_pred             -----------------------C-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence                                   1 2244556677788888888888888888775   357788999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHH-HHHHH------------HHHHhcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHH
Q 044628          448 ESIEVFEKMLSHAVRPDSI-AFLEV------------LSACSHGGLVSEGLRYFNLMISDYHILPD-----SEHYTCLTD  509 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~~-t~~~l------------l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~  509 (665)
                      +|++.|+++.+.  .|+.. .+..+            ..+|.+.|++++|+++|+.+.+   +.|+     ..+|..++.
T Consensus       229 ~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~---~~p~~~~~~~~~~~~l~~  303 (450)
T 2y4t_A          229 LSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMK---TEPSIAEYTVRSKERICH  303 (450)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcchHHHHHHHHHHHH
Confidence            999999999875  56554 33333            7889999999999999999987   3455     458899999


Q ss_pred             HHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH------------H
Q 044628          510 LLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVS------------N  575 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~------------~  575 (665)
                      ++.+.|++++|++.++++ ...| +..+|..+..+|...|++++|+..++++++++|+++.++..++            +
T Consensus       304 ~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~  383 (450)
T 2y4t_A          304 CFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRD  383 (450)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchh
Confidence            999999999999999998 4455 5789999999999999999999999999999999999999999            4


Q ss_pred             HHHhcC-----CHHHHHHHHHH
Q 044628          576 VYASER-----CWFDVARLRKM  592 (665)
Q Consensus       576 ~y~~~g-----~~~~A~~~~~~  592 (665)
                      .|...|     +.+++.+.+++
T Consensus       384 ~y~~lg~~~~~~~~~~~~~y~~  405 (450)
T 2y4t_A          384 YYKILGVKRNAKKQEIIKAYRK  405 (450)
T ss_dssp             SGGGSCSSTTCCTTHHHHHHHH
T ss_pred             HHHHhCCCccCCHHHHHHHHHH
Confidence            466666     45566666664

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.90  E-value=1.1e-21  Score=210.52  Aligned_cols=438  Identities=11%  Similarity=-0.030  Sum_probs=304.3

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCchHHHHHhhhCCCCCCcchHHHHHHHHhcCCChH
Q 044628          100 LQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIE  179 (665)
Q Consensus       100 ~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~  179 (665)
                      .+..+...|.+.|++++|...|+++                             .+..  ||..++..+..++...|+++
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~a-----------------------------l~~~--p~~~~~~~la~~~~~~g~~~   56 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWA-----------------------------LELK--EDPVFYSNLSACYVSVGDLK   56 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHH-----------------------------HHHC--CCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHH-----------------------------HhcC--ccHHHHHhHHHHHHHHhhHH
Confidence            4455566666777777777766654                             3222  56777777888888889999


Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCC---CCchhHHHHHHHHHhcCCchHHHHHHHHHHH
Q 044628          180 VGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLC---RDLVLWNVMVSCYALNCLGDGAIAVFNLMRL  256 (665)
Q Consensus       180 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  256 (665)
                      +|.+.++.+++.+ +.+..++..+..+|.+.|++++|...|+++..   .+......++..+........+.+.+..+..
T Consensus        57 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  135 (514)
T 2gw1_A           57 KVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDT  135 (514)
T ss_dssp             HHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC------
T ss_pred             HHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999988875 34667888888999999999999999887732   2344444555544443333333333333222


Q ss_pred             CCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCC---------CCchhHHHHHHHHHHh---cCCHHHHHHHHhcc
Q 044628          257 EGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSF---------DLDVLVATSLVDMYAK---NGNIDDACRVFDGM  324 (665)
Q Consensus       257 ~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~---------~~~~~~~~~li~~~~~---~g~~~~A~~~~~~~  324 (665)
                      .+..|+...+..-...............+...+.....         +.+...+..+...+..   .|++++|...|+++
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  215 (514)
T 2gw1_A          136 ATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKA  215 (514)
T ss_dssp             ---------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHH
T ss_pred             HHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence            22222221111111111111111111111111111110         1224444444444444   78888888888776


Q ss_pred             CC-----------------CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHH
Q 044628          325 TA-----------------KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVH  387 (665)
Q Consensus       325 ~~-----------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~  387 (665)
                      .+                 .+..+|..+...+...|++++|+..|+++....  |+...+..+...+...|+++.|...+
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            44                 134567788888999999999999999888754  44677777888888999999999999


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 044628          388 AYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD  464 (665)
Q Consensus       388 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  464 (665)
                      ..+.+.. +.+..++..+...|.+.|++++|...|+++.   ..+...|..+...|...|++++|++.|+++.+.. +.+
T Consensus       294 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~  371 (514)
T 2gw1_A          294 DKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEA  371 (514)
T ss_dssp             HHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             HHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccC
Confidence            8887754 3456678889999999999999999999865   3567889999999999999999999999999862 335


Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHh---cCChHHHHHHHHhC-CCCC-ChhH
Q 044628          465 SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD----SEHYTCLTDLLGR---VGLLVEAYDLLASM-PIEP-RSDT  535 (665)
Q Consensus       465 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~-~~~p-~~~~  535 (665)
                      ..++..+...+...|++++|.+.++.+.+...-.++    ...+..+...+.+   .|++++|.+.++++ ...| +..+
T Consensus       372 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~  451 (514)
T 2gw1_A          372 PEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQA  451 (514)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHH
Confidence            578888999999999999999999999773222222    3388999999999   99999999999998 4445 5778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      |..+...+...|++++|...++++++++|+++..+..+
T Consensus       452 ~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          452 KIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAI  489 (514)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHH
Confidence            88899999999999999999999999999987776655

>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=99.90  E-value=3.9e-21  Score=207.67  Aligned_cols=422  Identities=10%  Similarity=-0.014  Sum_probs=285.4

Q ss_pred             chHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccC---CCCchhHHHHHHHHH
Q 044628          163 ITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL---CRDLVLWNVMVSCYA  239 (665)
Q Consensus       163 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~  239 (665)
                      ..+..+-..+.+.|++++|...++.+++.. +.+..++..+..+|.+.|++++|.+.|+++.   ..+..+|..+...+.
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~  104 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANE  104 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            345556666777788888888888877764 3466777777788888888888888887763   235667777778888


Q ss_pred             hcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHhcCCHHHH
Q 044628          240 LNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQS--FDLDVLVATSLVDMYAKNGNIDDA  317 (665)
Q Consensus       240 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A  317 (665)
                      ..|++++|+..|+.+..   .|+...  ..+..+...+....+...++.+++..  ..+........+..|....+.+.+
T Consensus       105 ~~g~~~~A~~~~~~~~~---~~~~~~--~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (537)
T 3fp2_A          105 SLGNFTDAMFDLSVLSL---NGDFDG--ASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLE  179 (537)
T ss_dssp             HHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHH
T ss_pred             HcCCHHHHHHHHHHHhc---CCCCCh--HHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHH
Confidence            88888888888753322   222111  11222333334456666666664431  011111123344455666777777


Q ss_pred             HHHHhccCCCCch---hHHHHHHHHHcC--------CChHHHHHHHHHHhhCCCCCC--------HHHHHHHHHHhCCCC
Q 044628          318 CRVFDGMTAKNVV---SWNTMVVGFGQN--------GDGREAVKLLRDMLQGSFCPD--------EVTLASILSSCGSLS  378 (665)
Q Consensus       318 ~~~~~~~~~~~~~---~~~~li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~--------~~t~~~ll~~~~~~~  378 (665)
                      ...+......+..   .+..+...+...        |++++|+.+|+++.+..  |+        ..++..+...+...|
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~  257 (537)
T 3fp2_A          180 VSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKN  257 (537)
T ss_dssp             HHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcc
Confidence            7766666554433   333333333332        36778888888877643  33        123445555667778


Q ss_pred             chHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHH
Q 044628          379 ISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEK  455 (665)
Q Consensus       379 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~  455 (665)
                      +++.|...+..+.+...  +...+..+...|.+.|++++|...|+++.   ..+...|..+...|...|++++|++.|++
T Consensus       258 ~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  335 (537)
T 3fp2_A          258 NLLDAQVLLQESINLHP--TPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQK  335 (537)
T ss_dssp             CHHHHHHHHHHHHHHCC--CHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCC--CchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            88888888888877653  36677778888888888888888888765   35677888888888889999999999998


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC----CCCC
Q 044628          456 MLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM----PIEP  531 (665)
Q Consensus       456 m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p  531 (665)
                      +.+.. +.+..++..+...+...|++++|.++++.+.+.  .+.+...+..+...+.+.|++++|++.++++    +..+
T Consensus       336 a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~  412 (537)
T 3fp2_A          336 AQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQE  412 (537)
T ss_dssp             HHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcch
Confidence            88853 224567888888888889999999999888873  3345678888888899999999999888886    1111


Q ss_pred             C----hhHHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          532 R----SDTLGAFIGACKVH----------GSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       532 ~----~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +    ...+..+...+...          |++++|+..++++++.+|+++.++..++.+|...|++++|.+.+++..+..
T Consensus       413 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          413 KIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             SCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            1    22233444566666          899999999999999999988889999999999999999999998887653

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.89  E-value=1.2e-20  Score=198.89  Aligned_cols=320  Identities=11%  Similarity=0.037  Sum_probs=247.2

Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC
Q 044628          247 AIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA  326 (665)
Q Consensus       247 A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  326 (665)
                      +...+.+..... +.+...+..+...+...|++++|..+++.+++.. +.+..++..+..+|.+.|++++|...|+++.+
T Consensus        11 ~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   88 (450)
T 2y4t_A           11 VDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQ   88 (450)
T ss_dssp             -------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            334444443321 2345667777778888888888888888888764 55677888888888888888888888887753


Q ss_pred             ---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCH----HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCch
Q 044628          327 ---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDE----VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFL  399 (665)
Q Consensus       327 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~  399 (665)
                         .+..+|..+...|.+.|++++|+..|+++...  .|+.    ..+..+...+.                       .
T Consensus        89 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~-----------------------~  143 (450)
T 2y4t_A           89 LKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDE-----------------------M  143 (450)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHH-----------------------H
T ss_pred             cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHH-----------------------H
Confidence               35667888888888888888888888888764  3443    33333332211                       0


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS  476 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  476 (665)
                      ..+..+...|.+.|++++|...|+++.   ..+...|..+...|...|++++|++.|+++.+.. +.+..++..+...+.
T Consensus       144 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  222 (450)
T 2y4t_A          144 QRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYY  222 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            112344567889999999999999876   3578899999999999999999999999999863 446688999999999


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHH------------HHHHHhcCChHHHHHHHHhC-CCCCC-----hhHHH
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPD-SEHYTCL------------TDLLGRVGLLVEAYDLLASM-PIEPR-----SDTLG  537 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l------------~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~  537 (665)
                      ..|++++|++.|+.+.+   +.|+ ...+..+            ...+.+.|++++|++.|+++ ...|+     ...|.
T Consensus       223 ~~g~~~~A~~~~~~~~~---~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~  299 (450)
T 2y4t_A          223 QLGDHELSLSEVRECLK---LDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKE  299 (450)
T ss_dssp             HTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH---hCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Confidence            99999999999999987   3454 4445444            78899999999999999998 44554     34678


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          538 AFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       538 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .+...+...|++++|+..++++++++|+++.+|..++.+|...|++++|...++++.+..
T Consensus       300 ~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  359 (450)
T 2y4t_A          300 RICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN  359 (450)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            888999999999999999999999999999999999999999999999999999998654

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.87  E-value=9.4e-20  Score=196.80  Aligned_cols=423  Identities=10%  Similarity=0.026  Sum_probs=303.3

Q ss_pred             HHHHHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCh
Q 044628          136 ISGIINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFV  213 (665)
Q Consensus       136 i~~~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  213 (665)
                      -..+.+.|+..  +..|++..+.. +.+..++..+..++...|++++|.+.++.+++.. +.+..++..+..+|...|++
T Consensus        32 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~  109 (537)
T 3fp2_A           32 GNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNF  109 (537)
T ss_dssp             HHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCH
Confidence            33334444433  44444443322 2345677778888889999999999999999875 44678899999999999999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHC------CCCCCHhhHHHHHHHHhccCCcHHHHHHHH
Q 044628          214 EDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLE------GMKGDYFTFSSLVNSCGTLGSSKLGRQIHG  287 (665)
Q Consensus       214 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  287 (665)
                      ++|.+.|+.+ ..+....+..+..+...+...+|+..++++...      ...|+.......+    ...+.+.+...+.
T Consensus       110 ~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~  184 (537)
T 3fp2_A          110 TDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFF----GIFDSHLEVSSVN  184 (537)
T ss_dssp             HHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHH----HTSCHHHHHHTSC
T ss_pred             HHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHH----HhcChHHHHHHHh
Confidence            9999999744 333333444456666777778899999998553      2334444433332    2333333322221


Q ss_pred             HHHHhCCCC-chhHHHHHHHHHHhc--------CCHHHHHHHHhccCCCC----------chhHHHHHHHHHcCCChHHH
Q 044628          288 LVIKQSFDL-DVLVATSLVDMYAKN--------GNIDDACRVFDGMTAKN----------VVSWNTMVVGFGQNGDGREA  348 (665)
Q Consensus       288 ~~~~~g~~~-~~~~~~~li~~~~~~--------g~~~~A~~~~~~~~~~~----------~~~~~~li~~~~~~g~~~~A  348 (665)
                      ....  ..+ .......+...+...        |++++|..+|+++.+.+          ..+|..+...+...|++++|
T Consensus       185 ~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A  262 (537)
T 3fp2_A          185 TSSN--YDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDA  262 (537)
T ss_dssp             CCCS--SCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hccc--cccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHH
Confidence            1110  011 111333444333332        57899999999886532          22567777889999999999


Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC--
Q 044628          349 VKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK--  426 (665)
Q Consensus       349 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--  426 (665)
                      +..|++....  .|+...+..+...+...|+++.|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.  
T Consensus       263 ~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  339 (537)
T 3fp2_A          263 QVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSL  339 (537)
T ss_dssp             HHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            9999999885  4667788888899999999999999999998876 3457788999999999999999999999876  


Q ss_pred             -CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----h
Q 044628          427 -EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD----S  501 (665)
Q Consensus       427 -~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~  501 (665)
                       ..+...|..+...|...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.|+.+.+...-.++    .
T Consensus       340 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  418 (537)
T 3fp2_A          340 NPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGI  418 (537)
T ss_dssp             CTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTT
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHH
Confidence             3567899999999999999999999999999863 334568888999999999999999999998763211111    2


Q ss_pred             hhHHHHHHHHHhc----------CChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 044628          502 EHYTCLTDLLGRV----------GLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       502 ~~~~~l~~~~~~~----------g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  569 (665)
                      ..+..+..++.+.          |++++|++.++++ ...| +..+|..+...+...|+.++|...+++++++.|++...
T Consensus       419 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  498 (537)
T 3fp2_A          419 GPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEK  498 (537)
T ss_dssp             HHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHH
T ss_pred             HHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHH
Confidence            2244556778888          9999999999998 4445 47788999999999999999999999999999997655


Q ss_pred             HH
Q 044628          570 YA  571 (665)
Q Consensus       570 ~~  571 (665)
                      ..
T Consensus       499 ~~  500 (537)
T 3fp2_A          499 LQ  500 (537)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.84  E-value=4.5e-18  Score=172.98  Aligned_cols=297  Identities=12%  Similarity=0.037  Sum_probs=196.2

Q ss_pred             HHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHH
Q 044628          271 NSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGRE  347 (665)
Q Consensus       271 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  347 (665)
                      ..+...|++++|...++.+++.. +.+..++..+...|...|++++|...|+++.+   .+...|..+...|...|++++
T Consensus        11 ~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   89 (359)
T 3ieg_A           11 KKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDE   89 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHH
Confidence            33334444444444444444332 33344555555555555666666555555432   244556666667777777777


Q ss_pred             HHHHHHHHhhCCCCC---CHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 044628          348 AVKLLRDMLQGSFCP---DEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGS  424 (665)
Q Consensus       348 A~~~~~~m~~~g~~p---~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (665)
                      |+..|++....  .|   +.......+..      ...                ...+..+...+...|++++|.+.|++
T Consensus        90 A~~~~~~~~~~--~~~~~~~~~~~~~l~~------~~~----------------~~~~~~~a~~~~~~~~~~~A~~~~~~  145 (359)
T 3ieg_A           90 AEDDFKKVLKS--NPSEQEEKEAESQLVK------ADE----------------MQRLRSQALDAFDGADYTAAITFLDK  145 (359)
T ss_dssp             HHHHHHHHHTS--CCCHHHHHHHHHHHHH------HHH----------------HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--CCcccChHHHHHHHHH------HHH----------------HHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            77777776653  34   22211111100      000                01123345667778888888888877


Q ss_pred             CC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-
Q 044628          425 VK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-  500 (665)
Q Consensus       425 ~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-  500 (665)
                      +.   ..+...|..+...+...|++++|++.++++.+.. +.+..++..+...+...|++++|.+.|+.+.+.   .|+ 
T Consensus       146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---~~~~  221 (359)
T 3ieg_A          146 ILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL---DQDH  221 (359)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTC
T ss_pred             HHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---Cccc
Confidence            65   3566778888888888888888888888888752 335567777888888888888888888888762   333 


Q ss_pred             hhhHH------------HHHHHHHhcCChHHHHHHHHhC-CCCCCh-----hHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          501 SEHYT------------CLTDLLGRVGLLVEAYDLLASM-PIEPRS-----DTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       501 ~~~~~------------~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      ...+.            .+...+.+.|++++|.+.++++ ...|+.     ..+..+...+...|++++|...++++++.
T Consensus       222 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  301 (359)
T 3ieg_A          222 KRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM  301 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            33222            3366788999999999999887 334442     22445667888999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          563 EPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       563 ~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +|+++..+..++.+|...|++++|.+.+++..+.
T Consensus       302 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          302 EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999988754

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=9.8e-18  Score=170.50  Aligned_cols=310  Identities=13%  Similarity=0.062  Sum_probs=217.6

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044628          229 VLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMY  308 (665)
Q Consensus       229 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  308 (665)
                      ..|..+...+...|++++|+..|+++.+.. +.+..++..+...+...|+++.|...++.+++.. +.+...+..+..+|
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHH
Confidence            345555556666666666666666665532 1234455555566666666666666666666553 34556666667777


Q ss_pred             HhcCCHHHHHHHHhccCCCCc------hhHHHH------------HHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHH
Q 044628          309 AKNGNIDDACRVFDGMTAKNV------VSWNTM------------VVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASI  370 (665)
Q Consensus       309 ~~~g~~~~A~~~~~~~~~~~~------~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  370 (665)
                      .+.|++++|...|++..+.+.      ..|..+            ...+...|++++|+..|+++....  |        
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~--------  151 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC--V--------  151 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T--------
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--C--------
Confidence            777777777777766644222      223222            456666677777777766665432  2        


Q ss_pred             HHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChH
Q 044628          371 LSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSK  447 (665)
Q Consensus       371 l~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  447 (665)
                                                .+..++..+...|.+.|++++|...|+++.+   .+...|..+...|...|+++
T Consensus       152 --------------------------~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  205 (359)
T 3ieg_A          152 --------------------------WDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHE  205 (359)
T ss_dssp             --------------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHH
T ss_pred             --------------------------CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence                                      2334456677778888888888888887653   56778888888999999999


Q ss_pred             HHHHHHHHHHHcCCCCCH-HHHH------------HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh-----hhHHHHHH
Q 044628          448 ESIEVFEKMLSHAVRPDS-IAFL------------EVLSACSHGGLVSEGLRYFNLMISDYHILPDS-----EHYTCLTD  509 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~-~t~~------------~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~l~~  509 (665)
                      +|.+.|++..+.  .|+. ..+.            .+...+...|++++|.+.++.+.+.   .|+.     ..+..+..
T Consensus       206 ~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~  280 (359)
T 3ieg_A          206 LSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICH  280 (359)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHH
Confidence            999999998875  4443 2222            2356688899999999999999873   3442     33556788


Q ss_pred             HHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 044628          510 LLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER  581 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  581 (665)
                      ++.+.|++++|++.+++. ...| +..+|..+...+...|++++|...++++++++|+++.++..+..++...+
T Consensus       281 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~  354 (359)
T 3ieg_A          281 CFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLK  354 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence            999999999999999988 4455 57789999999999999999999999999999999888888887765443

>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=99.81  E-value=1.9e-17  Score=166.33  Aligned_cols=183  Identities=14%  Similarity=0.047  Sum_probs=139.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS  476 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  476 (665)
                      ..+..+...|...|++++|...|+++.   ..+...|..+...|...|++++|.+.|++..+.. +.+...+..+...+.
T Consensus       126 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  204 (330)
T 3hym_B          126 PAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAF  204 (330)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            334556666667777777777776654   2345667777788888888888888888887752 234567777888888


Q ss_pred             cCCcHHHHHHHHHHHHHhcC-------CCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcC
Q 044628          477 HGGLVSEGLRYFNLMISDYH-------ILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHG  547 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~-------~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g  547 (665)
                      ..|++++|.+.++.+.+...       .+.....+..+..+|.+.|++++|++.++++ ...| +...|..+...+...|
T Consensus       205 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g  284 (330)
T 3hym_B          205 QNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMG  284 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHT
T ss_pred             HcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhc
Confidence            88888888888888876321       1334678888999999999999999999887 3344 5678888889999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHHHHHHHH-hcCCH
Q 044628          548 SIGLAKWAAEKLLELEPSKPVNYALVSNVYA-SERCW  583 (665)
Q Consensus       548 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~-~~g~~  583 (665)
                      ++++|...++++++++|+++..+..++.+|. ..|+.
T Consensus       285 ~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          285 NFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             CHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             cHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            9999999999999999999999999999884 55554

>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=99.80  E-value=3.6e-15  Score=166.15  Aligned_cols=382  Identities=12%  Similarity=0.038  Sum_probs=296.6

Q ss_pred             cchHHHHHHHHhcCCChHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHH
Q 044628          162 HITFNSLLRACVQADDIEVGRRLHSFILKVG--FGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYA  239 (665)
Q Consensus       162 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~  239 (665)
                      +.-....++++...|.+.+|.++++.++-.+  +..+....+.|+.+..+. +..+..++.++...-+   ..-+...+.
T Consensus       985 PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai 1060 (1630)
T 1xi4_A          985 PEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAI 1060 (1630)
T ss_pred             HHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHH
Confidence            3445677888889999999999999998442  123456777777777776 5566666666655333   455778888


Q ss_pred             hcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 044628          240 LNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACR  319 (665)
Q Consensus       240 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  319 (665)
                      ..|.+++|..+|++..     -.....+.++.   ..+++++|.++.+.+      .+..+|..+..++.+.|++++|.+
T Consensus      1061 ~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAId 1126 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAID 1126 (1630)
T ss_pred             hCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            9999999999999852     12222233333   667888888888754      457789999999999999999999


Q ss_pred             HHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCch
Q 044628          320 VFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFL  399 (665)
Q Consensus       320 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~  399 (665)
                      .|.+.  .|...|..++..+.+.|++++|++.|...++..  ++....+.+..+|++.++++....+.    +   .++.
T Consensus      1127 sYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ 1195 (1630)
T 1xi4_A         1127 SYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNN 1195 (1630)
T ss_pred             HHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCH
Confidence            99765  677888999999999999999999999877654  33333345888889998888644442    1   3345


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGG  479 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  479 (665)
                      ..+..+.+.|...|++++|..+|...     ..|..+...|.+.|++++|++.+++.      .+..+|..+-.+|...|
T Consensus      1196 ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~ 1264 (1630)
T 1xi4_A         1196 AHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGK 1264 (1630)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhh
Confidence            56667999999999999999999996     48999999999999999999999977      35688999999999999


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHh--cCCHHHHHHH
Q 044628          480 LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKV--HGSIGLAKWA  555 (665)
Q Consensus       480 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~--~g~~~~a~~~  555 (665)
                      ++..|..+...+      ..+.+.+..++..|.+.|.+++|+.+++.. +.+|. ...|.-|...+.+  .++..++.+.
T Consensus      1265 Ef~LA~~cgl~I------iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~ 1338 (1630)
T 1xi4_A         1265 EFRLAQMCGLHI------VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLEL 1338 (1630)
T ss_pred             HHHHHHHHHHhh------hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            999998876643      346777889999999999999999999887 66654 4456555555544  4577788888


Q ss_pred             HHHHHhcCC-----CCCchHHHHHHHHHhcCCHHHHHHH
Q 044628          556 AEKLLELEP-----SKPVNYALVSNVYASERCWFDVARL  589 (665)
Q Consensus       556 ~~~~~~~~p-----~~~~~~~~l~~~y~~~g~~~~A~~~  589 (665)
                      |..-+.+.|     .++..|.-++-+|.+.|+|+.|...
T Consensus      1339 f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~t 1377 (1630)
T 1xi4_A         1339 FWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT 1377 (1630)
T ss_pred             HHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            888777776     6778899999999999999999853

>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=6.7e-18  Score=169.33  Aligned_cols=318  Identities=15%  Similarity=0.079  Sum_probs=150.2

Q ss_pred             hCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHH
Q 044628          209 KCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGL  288 (665)
Q Consensus       209 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  288 (665)
                      +.|++++|.++++++..|+  +|..|+.++.+.|++++|++.|.+.      +|..+|..++.++...|++++|...+..
T Consensus        15 ~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            6788999999999996654  8999999999999999999999653      5777999999999999999999998888


Q ss_pred             HHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHH
Q 044628          289 VIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLA  368 (665)
Q Consensus       289 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  368 (665)
                      .++.  .+++.+.+.|+.+|.++|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            8774  45678899999999999999999988864   67789999999999999999999999987         2688


Q ss_pred             HHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHH
Q 044628          369 SILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKE  448 (665)
Q Consensus       369 ~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  448 (665)
                      .+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|++++
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eE  225 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEE  225 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHH
Confidence            8999999999999999999887      378899999999999999999988877765 444445578899999999999


Q ss_pred             HHHHHHHHHHcCCCCCH-HHHHHH--HHHHhcCCcHHHHHHHHHHHHHhcCCCC------ChhhHHHHHHHHHhcCChHH
Q 044628          449 SIEVFEKMLSHAVRPDS-IAFLEV--LSACSHGGLVSEGLRYFNLMISDYHILP------DSEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       449 A~~~~~~m~~~g~~p~~-~t~~~l--l~a~~~~g~~~~a~~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~  519 (665)
                      |+.+++.....  .+-. ..|+.+  +.+-.+-+++.+.++.|..-   -+++|      +...|.-++-+|...|+++.
T Consensus       226 ai~lLe~aL~l--e~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~---ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~  300 (449)
T 1b89_A          226 LITMLEAALGL--ERAHMGMFTELAILYSKFKPQKMREHLELFWSR---VNIPKVLRAAEQAHLWAELVFLYDKYEEYDN  300 (449)
T ss_dssp             HHHHHHHHTTS--TTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT---SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhCC--cHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH---hcCcHHHHHHHHHHHHHHHHHHHHhhchHHH
Confidence            99999998864  3433 344444  44444556666666666533   34555      57889999999999999999


Q ss_pred             HHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          520 AYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       520 A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      |...+-+-+  |+.---..+.....+-.+.|.--++..--++-
T Consensus       301 A~~tm~~h~--~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~  341 (449)
T 1b89_A          301 AIITMMNHP--TDAWKEGQFKDIITKVANVELYYRAIQFYLEF  341 (449)
T ss_dssp             HHHHHHHST--TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCC--hhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc
Confidence            988766652  22222222333334444444444443333333

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.79  E-value=5.5e-16  Score=165.02  Aligned_cols=366  Identities=11%  Similarity=-0.042  Sum_probs=254.2

Q ss_pred             chHHHHHHHHHHHh----CCChHHHHHHHhccCC-CCchhHHHHHHHHHh----cCCchHHHHHHHHHHHCCCCCCHhhH
Q 044628          196 NCFVSSALVDLYGK----CGFVEDARRVFDEVLC-RDLVLWNVMVSCYAL----NCLGDGAIAVFNLMRLEGMKGDYFTF  266 (665)
Q Consensus       196 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~  266 (665)
                      ++..+..|-..|..    .+++++|...|+...+ .+...+..|...|..    .++.++|++.|++..+.|   +...+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  114 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQ  114 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            45555555555555    5666666666665432 244556666666666    666666666666666544   34444


Q ss_pred             HHHHHHHhc----cCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHhccCC-CCchhHHHHHH
Q 044628          267 SSLVNSCGT----LGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAK----NGNIDDACRVFDGMTA-KNVVSWNTMVV  337 (665)
Q Consensus       267 ~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~  337 (665)
                      ..+-..+..    .++.++|...++...+.|   +...+..|..+|..    .++.++|.+.|++..+ .+..++..+..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~  191 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGY  191 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            445555554    566677777777666654   45556666666665    5677777777766543 35556666666


Q ss_pred             HHHc----CCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhC----CCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044628          338 GFGQ----NGDGREAVKLLRDMLQGSFCPDEVTLASILSSCG----SLSISCETRQVHAYAIKNGVQAFLSIENALINAY  409 (665)
Q Consensus       338 ~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~----~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~  409 (665)
                      .|..    .++.++|+..|++..+.|   +...+..+-..+.    ..++.++|...+....+.|   +...+..|..+|
T Consensus       192 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y  265 (490)
T 2xm6_A          192 MYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYIL  265 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHH
T ss_pred             HHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            6666    677777777777776654   3334444444443    2567777777777776654   334555666777


Q ss_pred             Hh----cCCHHHHHHHHhcCCC-CChhHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 044628          410 SK----CGSIAGALQCFGSVKE-PDLVTWTSIIGAYAFH-----GLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGG  479 (665)
Q Consensus       410 ~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  479 (665)
                      ..    .++.++|...|++..+ .+...+..+...|...     ++.++|+..|++..+.|   +...+..+...+...|
T Consensus       266 ~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g  342 (490)
T 2xm6_A          266 EQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLG  342 (490)
T ss_dssp             HHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSC
T ss_pred             HCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCC
Confidence            77    8899999999988764 5677788888888877     89999999999999865   4456666666666656


Q ss_pred             ---cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCChHHHHHHHHhCCCCCChhHHHHHHHHHHh----cCC
Q 044628          480 ---LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR----VGLLVEAYDLLASMPIEPRSDTLGAFIGACKV----HGS  548 (665)
Q Consensus       480 ---~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~  548 (665)
                         +.++|+++|+...+.    .+...+..|..+|..    .+++++|++.|++.--..+...+..|...+..    .++
T Consensus       343 ~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d  418 (490)
T 2xm6_A          343 SEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERD  418 (490)
T ss_dssp             CHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCC
T ss_pred             CcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCC
Confidence               789999999999872    467888889999988    89999999999988222357778888888887    899


Q ss_pred             HHHHHHHHHHHHhcCCC---CCchHHHHHHHHHhc
Q 044628          549 IGLAKWAAEKLLELEPS---KPVNYALVSNVYASE  580 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~---~~~~~~~l~~~y~~~  580 (665)
                      .++|...++++.+.+|+   ++.+...++.++...
T Consensus       419 ~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~  453 (490)
T 2xm6_A          419 YVQAWAWFDTASTNDMNLFGTENRNITEKKLTAKQ  453 (490)
T ss_dssp             HHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHH
T ss_pred             HHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhH
Confidence            99999999999999854   677777777776643

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.78  E-value=1.2e-15  Score=164.08  Aligned_cols=209  Identities=8%  Similarity=-0.004  Sum_probs=166.3

Q ss_pred             hHHHHHHHHHHhCCCCchhHHHHHHHHHHh-------cCCHH-------HHHHHHhcCCC----CChhHHHHHHHHHHhc
Q 044628          382 ETRQVHAYAIKNGVQAFLSIENALINAYSK-------CGSIA-------GALQCFGSVKE----PDLVTWTSIIGAYAFH  443 (665)
Q Consensus       382 ~a~~i~~~~~~~g~~~~~~~~~~li~~~~~-------~g~~~-------~A~~~~~~~~~----~~~~~~~~li~~~~~~  443 (665)
                      .+..+++.+++.. +.+..+|..++..+.+       .|+++       +|..+|++..+    .+...|..++..+...
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            5667788777653 4467778888887775       69987       89999998763    3577899999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHH-HHhcCChHH
Q 044628          444 GLSKESIEVFEKMLSHAVRPDS--IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDL-LGRVGLLVE  519 (665)
Q Consensus       444 g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~-~~~~g~~~~  519 (665)
                      |++++|.++|+++.+.  .|+.  ..|..++..+.+.|++++|.++|+...+.   .|+ ...|...+.. +...|+.++
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~---~~~~~~~~~~~a~~~~~~~~~~~~  409 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYVTAALMEYYCSKDKSV  409 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---TTCCTHHHHHHHHHHHHHTCCHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---cCCchHHHHHHHHHHHHHcCChhH
Confidence            9999999999999984  6653  47888888888899999999999999873   333 3334333322 346899999


Q ss_pred             HHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----hHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          520 AYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV----NYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       520 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      |.++|++. ...| +...|..++......|+.+.|+.+++++++..|.++.    .|...+......|+.+++..+.+++
T Consensus       410 A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          410 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999987 3345 4788999999999999999999999999998877665    6777788888899999999999888


Q ss_pred             hhC
Q 044628          594 RDN  596 (665)
Q Consensus       594 ~~~  596 (665)
                      .+.
T Consensus       490 ~~~  492 (530)
T 2ooe_A          490 FTA  492 (530)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            754

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.78  E-value=6.3e-17  Score=162.52  Aligned_cols=263  Identities=10%  Similarity=-0.001  Sum_probs=205.0

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 044628          295 DLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASIL  371 (665)
Q Consensus       295 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  371 (665)
                      +.+..++..+...+...|++++|.++|+++.+   .+...+..++..+...|++++|+.+++++...             
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-------------   85 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDL-------------   85 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-------------
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHh-------------
Confidence            34445555556666666666666666665532   23344555555556666666666666655542             


Q ss_pred             HHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC-CHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChH
Q 044628          372 SSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCG-SIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSK  447 (665)
Q Consensus       372 ~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  447 (665)
                                            . +.+..++..+...|...| ++++|...|++..+   .+...|..+...|...|+++
T Consensus        86 ----------------------~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  142 (330)
T 3hym_B           86 ----------------------Y-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHD  142 (330)
T ss_dssp             ----------------------C-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHH
T ss_pred             ----------------------C-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHH
Confidence                                  2 223445566778888889 89999999988653   56778999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          448 ESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      +|++.|+++.+.. +.+...+..+...+...|++++|.+.++.+.+  ..+.+...+..+...+.+.|++++|++.++++
T Consensus       143 ~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  219 (330)
T 3hym_B          143 QAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDA  219 (330)
T ss_dssp             HHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            9999999999863 23456777788999999999999999999987  23446788999999999999999999999887


Q ss_pred             -CC----------CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          528 -PI----------EPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       528 -~~----------~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                       ..          ..+..+|..+...+...|++++|+..+++++++.|+++..+..++.+|...|++++|.+.+++..+.
T Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          220 LEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             HHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             HHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence             11          2346789999999999999999999999999999999999999999999999999999999977643

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.77  E-value=2.2e-17  Score=165.65  Aligned_cols=220  Identities=10%  Similarity=0.051  Sum_probs=89.4

Q ss_pred             cCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCc--hHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHH
Q 044628          110 KCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNV--TPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSF  187 (665)
Q Consensus       110 ~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~--~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  187 (665)
                      +.|++++|.+.+++++.|+  +|..|..++.+.|+..  ++.|.+      .+|..+|..++.++...|++++|..++..
T Consensus        15 ~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            6677888888888886654  7888888888888776  666654      36778899999999999999999998888


Q ss_pred             HHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHH
Q 044628          188 ILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFS  267 (665)
Q Consensus       188 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  267 (665)
                      ..+.  .+++.+.+.|+.+|.++|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            8774  45688899999999999999999988864   67779999999999999999999999976         3688


Q ss_pred             HHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHH
Q 044628          268 SLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGRE  347 (665)
Q Consensus       268 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  347 (665)
                      .+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|++++
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eE  225 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEE  225 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHH
Confidence            8888888888888888888876      367888888888888888888877776654 333334467888888888888


Q ss_pred             HHHHHHHHhhC
Q 044628          348 AVKLLRDMLQG  358 (665)
Q Consensus       348 A~~~~~~m~~~  358 (665)
                      |+.+++.....
T Consensus       226 ai~lLe~aL~l  236 (449)
T 1b89_A          226 LITMLEAALGL  236 (449)
T ss_dssp             HHHHHHHHTTS
T ss_pred             HHHHHHHHhCC
Confidence            88888887654

>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=99.76  E-value=4.2e-17  Score=166.71  Aligned_cols=281  Identities=12%  Similarity=-0.042  Sum_probs=213.3

Q ss_pred             HhcCCHHHHHH-HHhccCC-----C--CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCch
Q 044628          309 AKNGNIDDACR-VFDGMTA-----K--NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSIS  380 (665)
Q Consensus       309 ~~~g~~~~A~~-~~~~~~~-----~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  380 (665)
                      .-.|++++|.. .|++...     +  +...|..+...+.+.|++++|+..|+++.+.. +.+...+..+...+...|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            33467777777 7765432     1  34567777888888888888888888887653 33556667777777788888


Q ss_pred             HhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHH---------------HHHHHHh
Q 044628          381 CETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTS---------------IIGAYAF  442 (665)
Q Consensus       381 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~---------------li~~~~~  442 (665)
                      +.|...+..+.+.. +.+..++..+...|.+.|++++|.+.|+++.+   .+...+..               .+..+..
T Consensus       115 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          115 LLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            88888888777765 34566778888888888888888888887652   22222221               2334448


Q ss_pred             cCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHH
Q 044628          443 HGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAY  521 (665)
Q Consensus       443 ~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  521 (665)
                      .|++++|++.|+++.+..... +..++..+...+...|++++|++.|+.+.+.  .+.+...|..+..++.+.|++++|+
T Consensus       194 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~  271 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAV  271 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHH
Confidence            899999999999999863221 4678899999999999999999999999873  2345788999999999999999999


Q ss_pred             HHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-----------CchHHHHHHHHHhcCCHHHHHH
Q 044628          522 DLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK-----------PVNYALVSNVYASERCWFDVAR  588 (665)
Q Consensus       522 ~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~y~~~g~~~~A~~  588 (665)
                      +.++++ ...| +..+|..+...+...|++++|...+++++++.|++           +.+|..++.+|...|++++|..
T Consensus       272 ~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  351 (368)
T 1fch_A          272 AAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  351 (368)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHH
Confidence            999998 4445 47789999999999999999999999999999887           7889999999999999999999


Q ss_pred             HHHHH
Q 044628          589 LRKMM  593 (665)
Q Consensus       589 ~~~~m  593 (665)
                      ++++.
T Consensus       352 ~~~~~  356 (368)
T 1fch_A          352 ADARD  356 (368)
T ss_dssp             HHTTC
T ss_pred             hHHHH
Confidence            87643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.75  E-value=1.1e-14  Score=155.13  Aligned_cols=353  Identities=10%  Similarity=-0.060  Sum_probs=293.9

Q ss_pred             CCCchhHHHHHHHHHh----cCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhc----cCCcHHHHHHHHHHHHhCCCC
Q 044628          225 CRDLVLWNVMVSCYAL----NCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGT----LGSSKLGRQIHGLVIKQSFDL  296 (665)
Q Consensus       225 ~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~  296 (665)
                      ..+..++..+...|..    .+++++|+..|++..+.|   +...+..+-..+..    .++.++|.+.++...+.|   
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---  109 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---  109 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---
Confidence            3466778888888888    899999999999998865   56677777777777    899999999999999876   


Q ss_pred             chhHHHHHHHHHHh----cCCHHHHHHHHhccCC-CCchhHHHHHHHHHc----CCChHHHHHHHHHHhhCCCCCCHHHH
Q 044628          297 DVLVATSLVDMYAK----NGNIDDACRVFDGMTA-KNVVSWNTMVVGFGQ----NGDGREAVKLLRDMLQGSFCPDEVTL  367 (665)
Q Consensus       297 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~  367 (665)
                      +...+..|..+|..    .+++++|...|++..+ .+...+..+...|..    .++.++|++.|++..+.|   +...+
T Consensus       110 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~  186 (490)
T 2xm6_A          110 LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSC  186 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            66777889999988    8899999999998765 466778888888887    889999999999998875   45556


Q ss_pred             HHHHHHhCC----CCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHhcCCC-CChhHHHHHHH
Q 044628          368 ASILSSCGS----LSISCETRQVHAYAIKNGVQAFLSIENALINAYSK----CGSIAGALQCFGSVKE-PDLVTWTSIIG  438 (665)
Q Consensus       368 ~~ll~~~~~----~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~  438 (665)
                      ..+-..+..    .++.++|...+....+.|   +...+..|..+|..    .++.++|...|++..+ .+...+..+..
T Consensus       187 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~  263 (490)
T 2xm6_A          187 NQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGY  263 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            556555554    789999999999998876   45667778888886    8999999999998764 66778888888


Q ss_pred             HHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-----CcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 044628          439 AYAF----HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHG-----GLVSEGLRYFNLMISDYHILPDSEHYTCLTD  509 (665)
Q Consensus       439 ~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-----g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  509 (665)
                      .|..    .++.++|++.|++..+.|   +...+..+...+...     ++.++|+.+|+...+.    .+...+..+..
T Consensus       264 ~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~  336 (490)
T 2xm6_A          264 ILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ----GDATAQANLGA  336 (490)
T ss_dssp             HHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT----TCHHHHHHHHH
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc----CCHHHHHHHHH
Confidence            8887    899999999999998764   455666677777776     8999999999999872    35667888888


Q ss_pred             HHHhcC---ChHHHHHHHHhCCCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh---
Q 044628          510 LLGRVG---LLVEAYDLLASMPIEPRSDTLGAFIGACKV----HGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS---  579 (665)
Q Consensus       510 ~~~~~g---~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~---  579 (665)
                      +|.+.|   ++++|++.|++.-...+...+..|...+..    .++.++|...++++.+.+  ++.++..|+.+|..   
T Consensus       337 ~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g  414 (490)
T 2xm6_A          337 IYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLG  414 (490)
T ss_dssp             HHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSS
T ss_pred             HHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCC
Confidence            888867   889999999998223567788888888888    899999999999999865  47899999999998   


Q ss_pred             -cCCHHHHHHHHHHHhhCCC
Q 044628          580 -ERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       580 -~g~~~~A~~~~~~m~~~~~  598 (665)
                       .+++++|...+++..+.+.
T Consensus       415 ~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          415 VERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             SCCCHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHCCC
Confidence             8999999999999988763

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.74  E-value=1.1e-15  Score=150.25  Aligned_cols=269  Identities=10%  Similarity=-0.017  Sum_probs=205.1

Q ss_pred             HHhcCCHHHHHHHHhccCCCCc----hhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhH
Q 044628          308 YAKNGNIDDACRVFDGMTAKNV----VSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCET  383 (665)
Q Consensus       308 ~~~~g~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  383 (665)
                      ....|+++.|+..++.....+.    .....+.++|...|++++|+..++..    -.|+..++..+...+...++.+.+
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~A   84 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDAI   84 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHHH
Confidence            3456777777777776654332    23445667777777777777655431    345566667777777777777777


Q ss_pred             HHHHHHHHHhCC-CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 044628          384 RQVHAYAIKNGV-QAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVR  462 (665)
Q Consensus       384 ~~i~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  462 (665)
                      .+.++.+...+. +.+..++..+...|.+.|++++|.+.|++  ..+...+..++..|.+.|+.++|.+.|+++.+.  .
T Consensus        85 ~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~  160 (291)
T 3mkr_A           85 VAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--D  160 (291)
T ss_dssp             HHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--C
Confidence            777777776664 33455667778899999999999999999  578889999999999999999999999999986  4


Q ss_pred             CCHHHH---HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHH
Q 044628          463 PDSIAF---LEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLG  537 (665)
Q Consensus       463 p~~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~  537 (665)
                      |+....   ...+..+...|++++|..+|+++.+.  .+.+...|+.+..++.+.|++++|++.++++ ...| +..+|.
T Consensus       161 p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~  238 (291)
T 3mkr_A          161 EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLI  238 (291)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            665321   22334455679999999999999984  4567889999999999999999999999997 5556 577899


Q ss_pred             HHHHHHHhcCCHHH-HHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHH
Q 044628          538 AFIGACKVHGSIGL-AKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLR  590 (665)
Q Consensus       538 ~ll~~~~~~g~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~  590 (665)
                      .++..+...|+.++ +.+.++++++++|+++.+    .++..+.+.++++..-|
T Consensus       239 ~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~----~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          239 NLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFI----KEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHH----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHH----HHHHHHHHHHHHHHHHc
Confidence            99999999998865 678999999999998654    45566666777665443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.74  E-value=5.4e-15  Score=159.05  Aligned_cols=398  Identities=11%  Similarity=0.036  Sum_probs=277.0

Q ss_pred             CcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCC--CCchhHHHHHHHH
Q 044628          161 DHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLC--RDLVLWNVMVSCY  238 (665)
Q Consensus       161 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~  238 (665)
                      |...|..++. +...|+++.|..+++.+++. .+.+...|..++..+.+.|++++|+.+|++...  |++..|...+...
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            4456666666 36678888888888888875 344677788888888888888888888888744  4666676666432


Q ss_pred             -HhcCCchHHHH----HHHHHHHC-CCCCC-HhhHHHHHHHHhc---------cCCcHHHHHHHHHHHHhCCCCchhHHH
Q 044628          239 -ALNCLGDGAIA----VFNLMRLE-GMKGD-YFTFSSLVNSCGT---------LGSSKLGRQIHGLVIKQSFDLDVLVAT  302 (665)
Q Consensus       239 -~~~g~~~~A~~----~~~~m~~~-g~~p~-~~t~~~ll~~~~~---------~~~~~~a~~~~~~~~~~g~~~~~~~~~  302 (665)
                       ...|+.++|.+    +|++.... |..|+ ...|...+.....         .|+++.|..+++.+++.........|.
T Consensus        90 ~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~  169 (530)
T 2ooe_A           90 RETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWR  169 (530)
T ss_dssp             HHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHH
T ss_pred             HHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHH
Confidence             35677776655    66655442 54443 3445555444332         577888888888887731111123333


Q ss_pred             HHHHHH-------------HhcCCHHHHHHHHhc-------cC------CCC--------chhHHHHHHHHHcC----CC
Q 044628          303 SLVDMY-------------AKNGNIDDACRVFDG-------MT------AKN--------VVSWNTMVVGFGQN----GD  344 (665)
Q Consensus       303 ~li~~~-------------~~~g~~~~A~~~~~~-------~~------~~~--------~~~~~~li~~~~~~----g~  344 (665)
                      ......             .+.++++.|..++..       +.      .|+        ...|...+.-....    ++
T Consensus       170 ~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~  249 (530)
T 2ooe_A          170 DYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTED  249 (530)
T ss_dssp             HHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSC
T ss_pred             HHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCc
Confidence            322211             124566777766654       11      111        24566655433332    23


Q ss_pred             h----HHHHHHHHHHhhCCCCCCHHHHHHHHHHhCC-------CCchH-------hHHHHHHHHHHhCCCCchhHHHHHH
Q 044628          345 G----REAVKLLRDMLQGSFCPDEVTLASILSSCGS-------LSISC-------ETRQVHAYAIKNGVQAFLSIENALI  406 (665)
Q Consensus       345 ~----~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~-------~~~~~-------~a~~i~~~~~~~g~~~~~~~~~~li  406 (665)
                      .    ++|+.+|++..... +-+...|......+.+       .|+++       .|..+++..++.-.+.+..++..++
T Consensus       250 ~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~  328 (530)
T 2ooe_A          250 QTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYA  328 (530)
T ss_dssp             SHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence            3    47788899887742 2345556555555543       78887       8899999888643455688999999


Q ss_pred             HHHHhcCCHHHHHHHHhcCCC--C-Ch-hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHH-HhcCCc
Q 044628          407 NAYSKCGSIAGALQCFGSVKE--P-DL-VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSA-CSHGGL  480 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~--~-~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a-~~~~g~  480 (665)
                      ..+.+.|++++|..+|+++.+  | +. ..|...+..+.+.|+.++|.++|++..+.  .|+ ...+...... +...|+
T Consensus       329 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~  406 (530)
T 2ooe_A          329 DYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKD  406 (530)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCC
T ss_pred             HHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCC
Confidence            999999999999999998763  4 33 58999999999999999999999999985  333 3333332222 335899


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCC--hhHHHHHHHHHHhcCCHHHHHH
Q 044628          481 VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPR--SDTLGAFIGACKVHGSIGLAKW  554 (665)
Q Consensus       481 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~--~~~~~~ll~~~~~~g~~~~a~~  554 (665)
                      +++|..+|+...+.  .+.+...|..+++.+.+.|+.++|..+|++.    +..|+  ...|...+.....+|+.+.+..
T Consensus       407 ~~~A~~~~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~  484 (530)
T 2ooe_A          407 KSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILK  484 (530)
T ss_dssp             HHHHHHHHHHHHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHH
T ss_pred             hhHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999873  2346788999999999999999999999998    33343  4489998998999999999999


Q ss_pred             HHHHHHhcCCC
Q 044628          555 AAEKLLELEPS  565 (665)
Q Consensus       555 ~~~~~~~~~p~  565 (665)
                      +.+++.+..|+
T Consensus       485 ~~~r~~~~~p~  495 (530)
T 2ooe_A          485 VEKRRFTAFRE  495 (530)
T ss_dssp             HHHHHHHHTHH
T ss_pred             HHHHHHHHCch
Confidence            99999999885

>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=99.73  E-value=1.5e-13  Score=153.28  Aligned_cols=401  Identities=13%  Similarity=0.061  Sum_probs=298.5

Q ss_pred             hhHHHHHHHHhhcCCChHHHHHHHcccC-CCC-----cccHHHHHHHHHhCCCCc-hHHHHHhhhCCCCCCcchHHHHHH
Q 044628           98 LSLQNQVLHVYVKCKAFDDMEKLFDEMR-VRN-----IVTWNTLISGIINCGGNV-TPYFRRMLLDNVRLDHITFNSLLR  170 (665)
Q Consensus        98 ~~~~~~li~~~~~~g~~~~A~~~f~~~~-~~~-----~~~~~~li~~~~~~~~~~-~~~~~~m~~~g~~p~~~t~~~ll~  170 (665)
                      +.--...+..|...|.+.+|.++++++. .++     ...-|.++....+..... .+...+..       .....-+-.
T Consensus       985 PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd-------~~d~~eIA~ 1057 (1630)
T 1xi4_A          985 PEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLD-------NYDAPDIAN 1057 (1630)
T ss_pred             HHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhh-------hccHHHHHH
Confidence            3334567788889999999999999876 222     244666777777774333 44444332       222444667


Q ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHH
Q 044628          171 ACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAV  250 (665)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  250 (665)
                      .|...|.+++|..+|+...     -.....+.++   -..|++++|.++.++..  +..+|..+..++.+.|++++|++.
T Consensus      1058 Iai~lglyEEAf~IYkKa~-----~~~~A~~VLi---e~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIds 1127 (1630)
T 1xi4_A         1058 IAISNELFEEAFAIFRKFD-----VNTSAVQVLI---EHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDS 1127 (1630)
T ss_pred             HHHhCCCHHHHHHHHHHcC-----CHHHHHHHHH---HHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHH
Confidence            7888999999999999862     1222233333   27789999999998774  466789999999999999999999


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCch
Q 044628          251 FNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVV  330 (665)
Q Consensus       251 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  330 (665)
                      |.+.      -|...|..++.+|.+.|+++++.+.+....+..  ++..+.+.++.+|++.+++++...+.   ..++..
T Consensus      1128 YiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~a 1196 (1630)
T 1xi4_A         1128 YIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNA 1196 (1630)
T ss_pred             HHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHH
Confidence            9663      467788899999999999999999999888765  44444556999999999999655443   455667


Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 044628          331 SWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYS  410 (665)
Q Consensus       331 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~  410 (665)
                      .|..+...|...|++++|..+|...         ..|..+...+.+.|+++.|.+.++..      .+..+|..+..++.
T Consensus      1197 d~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1197 HIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACV 1261 (1630)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHh
Confidence            7888999999999999999999985         37889999999999999999998876      45678888888899


Q ss_pred             hcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHH--HHHHHHHhcCCcHHHHHHH
Q 044628          411 KCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-IAF--LEVLSACSHGGLVSEGLRY  487 (665)
Q Consensus       411 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~--~~ll~a~~~~g~~~~a~~~  487 (665)
                      ..|++..|...... ...+...+..++..|...|.+++|+.+++.....  .|.. ..|  ...+.+-.+-++..++.++
T Consensus      1262 e~~Ef~LA~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L--eraH~gmftELaiLyaKy~peklmEhlk~ 1338 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLH-IVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKPQKMREHLEL 1338 (1630)
T ss_pred             hhhHHHHHHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--ChhHhHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99999999988775 3356667779999999999999999999888754  4443 244  4445555556677777777


Q ss_pred             HHHHHHhcCCCC------ChhhHHHHHHHHHhcCChHHHHHHHHhC--------------CCCCChhHHHHHHHHHHhcC
Q 044628          488 FNLMISDYHILP------DSEHYTCLTDLLGRVGLLVEAYDLLASM--------------PIEPRSDTLGAFIGACKVHG  547 (665)
Q Consensus       488 ~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------------~~~p~~~~~~~ll~~~~~~g  547 (665)
                      |..-.   +++|      +...|.-++-+|.+.|+++.|...+-+-              ....|...+...+..|....
T Consensus      1339 f~~ri---ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyykai~Fyl~~~ 1415 (1630)
T 1xi4_A         1339 FWSRV---NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFK 1415 (1630)
T ss_pred             HHHhc---ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHHHHHHHhhC
Confidence            77443   3444      4678999999999999999998443322              12235555555555555444

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.73  E-value=1.3e-15  Score=161.38  Aligned_cols=364  Identities=11%  Similarity=-0.016  Sum_probs=195.2

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHhccC------------CCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCC---CCC
Q 044628          197 CFVSSALVDLYGKCGFVEDARRVFDEVL------------CRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEG---MKG  261 (665)
Q Consensus       197 ~~~~~~li~~~~~~g~~~~A~~~~~~~~------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p  261 (665)
                      ...||.|...|...|+.++|++.|++..            ....++|+.+...|...|++++|...+++.....   ..+
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            4567777777777777777777665431            1123456666666666666666666665543210   000


Q ss_pred             CHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc--CCHHHHHHHHhccCC--C-CchhHHHHH
Q 044628          262 DYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKN--GNIDDACRVFDGMTA--K-NVVSWNTMV  336 (665)
Q Consensus       262 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~--~-~~~~~~~li  336 (665)
                      .                               ......++..+..++.+.  +++++|.+.|++..+  | +...+..+.
T Consensus       131 ~-------------------------------~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~  179 (472)
T 4g1t_A          131 Y-------------------------------RIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLA  179 (472)
T ss_dssp             S-------------------------------CCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             c-------------------------------chhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            0                               001122233333333322  235555555554432  2 222333332


Q ss_pred             HH---HHcCCChHHHHHHHHHHhhCCCCCC-HHHHHHHHHH----hCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHH
Q 044628          337 VG---FGQNGDGREAVKLLRDMLQGSFCPD-EVTLASILSS----CGSLSISCETRQVHAYAIKNGVQAFLSIENALINA  408 (665)
Q Consensus       337 ~~---~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~----~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~  408 (665)
                      ..   +...++.++|++.|++..+..  |+ ...+..+...    ....++.+.|.+.+....+.. +.+..++..+...
T Consensus       180 ~~~~~l~~~~~~~~al~~~~~al~l~--p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~  256 (472)
T 4g1t_A          180 IASYRLDNWPPSQNAIDPLRQAIRLN--PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKF  256 (472)
T ss_dssp             HHHHHHHHSCCCCCTHHHHHHHHHHC--SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHH
T ss_pred             HHHHHhcCchHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHH
Confidence            22   233455556666666555432  22 2222222211    223455566666666655543 3344555666667


Q ss_pred             HHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHh-------------------cCChHHHHHHHHHHHHcCCCCCHH
Q 044628          409 YSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAF-------------------HGLSKESIEVFEKMLSHAVRPDSI  466 (665)
Q Consensus       409 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~-------------------~g~~~~A~~~~~~m~~~g~~p~~~  466 (665)
                      |.+.|++++|...|++..+   .+...|..+...|..                   .+..++|...|++..+.. +.+..
T Consensus       257 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~  335 (472)
T 4g1t_A          257 YRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFR  335 (472)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCC
T ss_pred             HHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-Cchhh
Confidence            7777777777777766542   334455555444432                   234577888888888752 22345


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChh----hHHHHHH-HHHhcCChHHHHHHHHhC-CCCCChhHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSE----HYTCLTD-LLGRVGLLVEAYDLLASM-PIEPRSDTLGAFI  540 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~l~~-~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll  540 (665)
                      ++..+...+...|++++|++.|++..+   +.|+..    .+..+.. .+...|+.++|++.|++. .+.|+...+... 
T Consensus       336 ~~~~lg~~~~~~~~~~~A~~~~~kaL~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~-  411 (472)
T 4g1t_A          336 VCSILASLHALADQYEEAEYYFQKEFS---KELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKM-  411 (472)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHH---SCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHH-
T ss_pred             hhhhHHHHHHHhccHHHHHHHHHHHHh---cCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHH-
Confidence            677888899999999999999999887   234332    2233333 245789999999999887 677775544333 


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeEE
Q 044628          541 GACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWI  607 (665)
Q Consensus       541 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~i  607 (665)
                              .+.++.++++.++.+|+++.+|..||.+|...|++++|.+.+++..+.+.......+|+
T Consensus       412 --------~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          412 --------KDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             --------HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             --------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence                    34566778889999999999999999999999999999999999988776555566774

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.73  E-value=4.7e-17  Score=166.26  Aligned_cols=261  Identities=10%  Similarity=-0.059  Sum_probs=199.6

Q ss_pred             CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHH
Q 044628          328 NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALIN  407 (665)
Q Consensus       328 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~  407 (665)
                      +...|..+...+.+.|++++|+..|+++.... +.+...+..+...+...|+++.|...+..+.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            44557777777777777777777777776643 2345666677777777777777777777777654 334667778888


Q ss_pred             HHHhcCCHHHHHHHHhcCCC--C-----------ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CCHHHHHHHHH
Q 044628          408 AYSKCGSIAGALQCFGSVKE--P-----------DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVR-PDSIAFLEVLS  473 (665)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~--~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~  473 (665)
                      .|.+.|++++|...|+++.+  |           ....+..+...+...|++++|++.|+++.+.... ++..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            88888888888888887753  1           1223445678899999999999999999986322 15678889999


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHH
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~  551 (665)
                      .+...|++++|+++|+.+.+.  .+.+...|..+..+|.+.|++++|++.++++ ...|+ ..+|..+..++...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            999999999999999999873  3446888999999999999999999999988 44554 7789999999999999999


Q ss_pred             HHHHHHHHHhcCCC------------CCchHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          552 AKWAAEKLLELEPS------------KPVNYALVSNVYASERCWFDVARLRKM  592 (665)
Q Consensus       552 a~~~~~~~~~~~p~------------~~~~~~~l~~~y~~~g~~~~A~~~~~~  592 (665)
                      |...+++++++.|+            +...+..++.++...|+.+.+.++.++
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999999998877            367789999999999999999887764

>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=99.73  E-value=1.2e-16  Score=163.25  Aligned_cols=268  Identities=13%  Similarity=0.041  Sum_probs=143.0

Q ss_pred             HHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCC
Q 044628          268 SLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGD  344 (665)
Q Consensus       268 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  344 (665)
                      .+...+...|++++|...++.+++.. +.+..++..+..+|.+.|++++|.+.|+++.+   .+..+|..+...|...|+
T Consensus        69 ~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~  147 (368)
T 1fch_A           69 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESL  147 (368)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCC
Confidence            33333334444444444444444332 23344445555555555555555555554432   244556666666666666


Q ss_pred             hHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 044628          345 GREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGS  424 (665)
Q Consensus       345 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (665)
                      +++|+..|+++....  |+.......+      +.....           ..+ ...+..+...+ +.|++++|...|++
T Consensus       148 ~~~A~~~~~~~~~~~--~~~~~~~~~~------~~~~~~-----------~~~-~~~~~~~~~~~-~~~~~~~A~~~~~~  206 (368)
T 1fch_A          148 QRQACEILRDWLRYT--PAYAHLVTPA------EEGAGG-----------AGL-GPSKRILGSLL-SDSLFLEVKELFLA  206 (368)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC---------------------------------CTTHHHH-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--cCcHHHHHHH------HHHhhh-----------hcc-cHHHHHHHHHh-hcccHHHHHHHHHH
Confidence            666666666665532  2211100000      000000           000 00001122222 56666666666665


Q ss_pred             CCC--C---ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC
Q 044628          425 VKE--P---DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP  499 (665)
Q Consensus       425 ~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  499 (665)
                      +.+  |   +...|..+...|...|++++|+..|+++.+.. +.+..++..+...+...|++++|++.|+.+.+.  .+.
T Consensus       207 a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~  283 (368)
T 1fch_A          207 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPG  283 (368)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            542  2   35666667777777777777777777776642 223456666677777777777777777777652  223


Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC------------hhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR------------SDTLGAFIGACKVHGSIGLAKWAAEKLL  560 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~  560 (665)
                      +...+..+..+|.+.|++++|.+.++++ ...|+            ..+|..+..++...|+.++|..++++.+
T Consensus       284 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          284 YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            4566677777777777777777777666 11121            4667777777777777777777666544

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.71  E-value=3.9e-16  Score=156.43  Aligned_cols=254  Identities=11%  Similarity=-0.008  Sum_probs=181.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCC
Q 044628          301 ATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSL  377 (665)
Q Consensus       301 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  377 (665)
                      +..+...+.+.|++++|..+|+++.+   .+...|..+...+...|++++|+..|+++...                   
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-------------------   84 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARML-------------------   84 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------------------
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-------------------
Confidence            44455555555555555555555432   23345555555555555555555555555443                   


Q ss_pred             CchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHH--------------HH-H
Q 044628          378 SISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSI--------------IG-A  439 (665)
Q Consensus       378 ~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l--------------i~-~  439 (665)
                                      . +.+..++..+...|.+.|++++|.+.|+++.+   .+...+..+              .. .
T Consensus        85 ----------------~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (327)
T 3cv0_A           85 ----------------D-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFF  147 (327)
T ss_dssp             ----------------C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CC
T ss_pred             ----------------C-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHH
Confidence                            2 22334445555566666666666666655432   122222222              22 3


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHH
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  519 (665)
                      +...|++++|.+.++++.+.. +.+...+..+...+...|++++|.++++.+.+.  .+.+...+..+...+.+.|++++
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  224 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQE  224 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHH
Confidence            677889999999999999863 335678888899999999999999999999873  33457889999999999999999


Q ss_pred             HHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------------CCchHHHHHHHHHhcCCHHH
Q 044628          520 AYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS------------KPVNYALVSNVYASERCWFD  585 (665)
Q Consensus       520 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~y~~~g~~~~  585 (665)
                      |++.++++ ...| +..+|..+...+...|++++|...++++++..|+            ++..+..++.+|...|++++
T Consensus       225 A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  304 (327)
T 3cv0_A          225 ALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDL  304 (327)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHH
Confidence            99999988 4444 5778899999999999999999999999999999            68899999999999999999


Q ss_pred             HHHHHHHH
Q 044628          586 VARLRKMM  593 (665)
Q Consensus       586 A~~~~~~m  593 (665)
                      |..++++.
T Consensus       305 A~~~~~~~  312 (327)
T 3cv0_A          305 VELTYAQN  312 (327)
T ss_dssp             HHHHTTCC
T ss_pred             HHHHHHHH
Confidence            99998754

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.69  E-value=1.1e-15  Score=150.08  Aligned_cols=247  Identities=9%  Similarity=-0.009  Sum_probs=201.1

Q ss_pred             HHHHHcCCChHHHHHHHHHHhhCCCCCCH--HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 044628          336 VVGFGQNGDGREAVKLLRDMLQGSFCPDE--VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCG  413 (665)
Q Consensus       336 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g  413 (665)
                      |+-....|++.+|+..+++....  .|+.  .....+..++...|+++.+...++.    .-+|+...+..+...|...|
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            34556789999999999887553  3544  3445667889999999998875543    24567788889999999999


Q ss_pred             CHHHHHHHHhcCC----CC-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Q 044628          414 SIAGALQCFGSVK----EP-DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYF  488 (665)
Q Consensus       414 ~~~~A~~~~~~~~----~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  488 (665)
                      +.++|.+.++++.    .| +...+..+...|...|++++|++.+++      ..+...+..+...+.+.|++++|.+.|
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999864    24 566777788999999999999999987      356678888999999999999999999


Q ss_pred             HHHHHhcCCCCChhhH---HHHHHHHHhcCChHHHHHHHHhC-CCC-CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044628          489 NLMISDYHILPDSEHY---TCLTDLLGRVGLLVEAYDLLASM-PIE-PRSDTLGAFIGACKVHGSIGLAKWAAEKLLELE  563 (665)
Q Consensus       489 ~~~~~~~~~~p~~~~~---~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  563 (665)
                      +.+.+.   .|+....   ..++..+...|++++|+.+|+++ ... .+...|..+..++...|++++|+..++++++++
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999873   4654211   23345555669999999999999 323 467889999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCCHHH-HHHHHHHHhhCC
Q 044628          564 PSKPVNYALVSNVYASERCWFD-VARLRKMMRDNC  597 (665)
Q Consensus       564 p~~~~~~~~l~~~y~~~g~~~~-A~~~~~~m~~~~  597 (665)
                      |+++.++..++.++...|++++ +.++++++.+..
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999987 568888887543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.69  E-value=2.5e-17  Score=177.81  Aligned_cols=150  Identities=10%  Similarity=0.071  Sum_probs=122.1

Q ss_pred             CCchHHHHHHHHHHHhCCChHHHHHHHhcc-------CCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhH
Q 044628          194 GLNCFVSSALVDLYGKCGFVEDARRVFDEV-------LCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTF  266 (665)
Q Consensus       194 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  266 (665)
                      ..-..+||+||++||++|++++|.++|++|       ..||+++||+||.||++.|++++|.++|++|.+.|+.||.+||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            334678999999999999999999999775       3679999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhccCCc-HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCC-----CchhHHHHHHHHH
Q 044628          267 SSLVNSCGTLGSS-KLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAK-----NVVSWNTMVVGFG  340 (665)
Q Consensus       267 ~~ll~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~  340 (665)
                      +++|.++++.|+. +.|.+++++|.+.|+.||..+|+.++..+.+.+-++...+++.++..+     .+.+...|...|.
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s  283 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA  283 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHc
Confidence            9999999999985 788999999999999999999999998887776666665555444321     1233344445555


Q ss_pred             cCC
Q 044628          341 QNG  343 (665)
Q Consensus       341 ~~g  343 (665)
                      +.+
T Consensus       284 ~d~  286 (1134)
T 3spa_A          284 KDG  286 (1134)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.69  E-value=3.3e-15  Score=152.48  Aligned_cols=257  Identities=13%  Similarity=0.051  Sum_probs=128.7

Q ss_pred             HHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHH
Q 044628          272 SCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREA  348 (665)
Q Consensus       272 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  348 (665)
                      .+...|++++|...++.+++.. +.+..++..+..+|.+.|++++|...|++..+   .+..+|..+...|...|++++|
T Consensus        74 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  152 (365)
T 4eqf_A           74 KRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDA  152 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHH
Confidence            3333333333333333333332 33444555555666666666666666655532   3455666666777777777777


Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-
Q 044628          349 VKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-  427 (665)
Q Consensus       349 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-  427 (665)
                      +..|+++....  |+.......+                        .....++..+...|.+.|++++|...|+++.+ 
T Consensus       153 ~~~~~~al~~~--p~~~~~~~~~------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  206 (365)
T 4eqf_A          153 CEALKNWIKQN--PKYKYLVKNK------------------------KGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQ  206 (365)
T ss_dssp             HHHHHHHHHHC--HHHHCC-------------------------------------------CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--ccchHHHhhh------------------------ccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHh
Confidence            77777766532  2211100000                        00111222333444444444444444444431 


Q ss_pred             -C---ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhh
Q 044628          428 -P---DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEH  503 (665)
Q Consensus       428 -~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  503 (665)
                       |   +...|..+...|...|++++|++.|+++.+.. +.+..++..+..++...|++++|++.|+.+.+.  .+.+...
T Consensus       207 ~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~  283 (365)
T 4eqf_A          207 NGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEI--QPGFIRS  283 (365)
T ss_dssp             SCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             CcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHH
Confidence             1   34555555555666666666666666655541 223445556666666666666666666666551  1223555


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-CCCC-------------ChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASM-PIEP-------------RSDTLGAFIGACKVHGSIGLAKWAAEK  558 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-------------~~~~~~~ll~~~~~~g~~~~a~~~~~~  558 (665)
                      |..+..+|.+.|++++|.+.++++ ...|             +..+|..+..++...|+.+.+..+.++
T Consensus       284 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          284 RYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            666666666666666666666655 1111             245677777777777777776666554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.66  E-value=5.9e-17  Score=174.99  Aligned_cols=132  Identities=12%  Similarity=0.058  Sum_probs=113.6

Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC-------CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 044628          394 GVQAFLSIENALINAYSKCGSIAGALQCFGSVK-------EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI  466 (665)
Q Consensus       394 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  466 (665)
                      ....-..+||+||++|+++|++++|.++|++|.       .||+++||+||.||++.|+.++|.++|++|.+.|+.||.+
T Consensus       122 ~~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvv  201 (1134)
T 3spa_A          122 QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLL  201 (1134)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHH
Confidence            344556789999999999999999999997653       5899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCc-HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHh
Q 044628          467 AFLEVLSACSHGGL-VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLAS  526 (665)
Q Consensus       467 t~~~ll~a~~~~g~-~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  526 (665)
                      ||+++|.++++.|. .++|.++|++|.+ .|+.||..+|++++....|.+-++...++...
T Consensus       202 TYntLI~glcK~G~~~e~A~~Ll~EM~~-kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~  261 (1134)
T 3spa_A          202 SYAAALQCMGRQDQDAGTIERCLEQMSQ-EGLKLQALFTAVLLSEEDRATVLKAVHKVKPT  261 (1134)
T ss_dssp             HHHHHHHHHHHHTCCHHHHHHHHHHHHH-HTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCC
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHH-cCCCCChhhcccccChhhHHHHHHHHHHhCcc
Confidence            99999999999987 4789999999988 59999999999999888876555544444333

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.66  E-value=1.4e-14  Score=153.37  Aligned_cols=383  Identities=12%  Similarity=0.005  Sum_probs=238.9

Q ss_pred             CCCcchHHHHHHHHhcCCChHHHHHHHHHHHHh-----C--CCC-chHHHHHHHHHHHhCCChHHHHHHHhccC------
Q 044628          159 RLDHITFNSLLRACVQADDIEVGRRLHSFILKV-----G--FGL-NCFVSSALVDLYGKCGFVEDARRVFDEVL------  224 (665)
Q Consensus       159 ~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g--~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~------  224 (665)
                      ......|+.+-..+...|+.++|.+.+++.++.     +  ..| ...+|+.+..+|...|++++|...+++..      
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            334567888888999999999999999988763     1  122 35689999999999999999999887652      


Q ss_pred             -CC----CchhHHHHHHHHHhc--CCchHHHHHHHHHHHCCCCCCH-hhHHHHHHH---HhccCCcHHHHHHHHHHHHhC
Q 044628          225 -CR----DLVLWNVMVSCYALN--CLGDGAIAVFNLMRLEGMKGDY-FTFSSLVNS---CGTLGSSKLGRQIHGLVIKQS  293 (665)
Q Consensus       225 -~~----~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~---~~~~~~~~~a~~~~~~~~~~g  293 (665)
                       .+    ...+++.+..++...  +++++|++.|++..+.  .|+. ..+..+..+   +...++.++|.+.++.+++..
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~  205 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN  205 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC
Confidence             11    234566665566554  4689999999998875  4543 334333333   445678889999999998875


Q ss_pred             CCCchhHHHHHHHHHHh----cCCHHHHHHHHhccC---CCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCH-H
Q 044628          294 FDLDVLVATSLVDMYAK----NGNIDDACRVFDGMT---AKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDE-V  365 (665)
Q Consensus       294 ~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~  365 (665)
                       +.+..++..+...+.+    .|+.++|.+.+++..   ..+...|..+...|.+.|++++|+..|++..+.  .|+. .
T Consensus       206 -p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~  282 (472)
T 4g1t_A          206 -PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAY  282 (472)
T ss_dssp             -SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHH
T ss_pred             -CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHH
Confidence             5566666666655554    467788999988764   346678899999999999999999999998874  4543 3


Q ss_pred             HHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHh
Q 044628          366 TLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAF  442 (665)
Q Consensus       366 t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  442 (665)
                      ++..+-..+...     +..    .....       ...........+..+.|...|++..   ..+...|..+...|..
T Consensus       283 ~~~~lg~~y~~~-----~~~----~~~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~  346 (472)
T 4g1t_A          283 LHCQIGCCYRAK-----VFQ----VMNLR-------ENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHAL  346 (472)
T ss_dssp             HHHHHHHHHHHH-----HHH----HHHC-------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-----HHH----hhhHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHH
Confidence            333332222110     000    00000       0011111122334567777777654   3566788999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHH--HHHHHHH-HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHH
Q 044628          443 HGLSKESIEVFEKMLSHAVRPDSI--AFLEVLS-ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       443 ~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  519 (665)
                      .|++++|++.|++..+....|...  .+..+.. ...+.|+.++|++.|++..+   +.|+........         +.
T Consensus       347 ~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~~---------~~  414 (472)
T 4g1t_A          347 ADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKMK---------DK  414 (472)
T ss_dssp             TTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHHH---------HH
T ss_pred             hccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHHH---------HH
Confidence            999999999999999864333221  2333332 34578999999999999987   566654333222         33


Q ss_pred             HHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 044628          520 AYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVS  574 (665)
Q Consensus       520 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  574 (665)
                      +.+++++. ...| +..+|..|...+...|+.++|++.++++++++|.+|.++.-+|
T Consensus       415 l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          415 LQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            34444443 2234 5778999999999999999999999999999999888776655

>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=99.65  E-value=1.5e-14  Score=144.72  Aligned_cols=264  Identities=11%  Similarity=-0.015  Sum_probs=126.4

Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044628          229 VLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMY  308 (665)
Q Consensus       229 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  308 (665)
                      ..|..+...+...|++++|+.+|+++.+.. +.+...+..+...+...|++++|...++.+++.. +.            
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~------------   87 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PK------------   87 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT------------
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cC------------
Confidence            345555566666666666666666665432 1133344444444444455555555554444432 22            


Q ss_pred             HhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHH--------------HH-
Q 044628          309 AKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASIL--------------SS-  373 (665)
Q Consensus       309 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll--------------~~-  373 (665)
                                         +..+|..+...|...|++++|+..|+++....  |+.......+              .. 
T Consensus        88 -------------------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (327)
T 3cv0_A           88 -------------------DIAVHAALAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDF  146 (327)
T ss_dssp             -------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC--------------------C
T ss_pred             -------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhH
Confidence                               33445555555555555555555555555432  2111110000              11 


Q ss_pred             -hCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 044628          374 -CGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEV  452 (665)
Q Consensus       374 -~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  452 (665)
                       +...|+++.|...+..+.+..                                ..+...|..+...|...|++++|++.
T Consensus       147 ~~~~~~~~~~A~~~~~~~~~~~--------------------------------~~~~~~~~~la~~~~~~~~~~~A~~~  194 (327)
T 3cv0_A          147 FFAAPNEYRECRTLLHAALEMN--------------------------------PNDAQLHASLGVLYNLSNNYDSAAAN  194 (327)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHHS--------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhhC--------------------------------CCCHHHHHHHHHHHHHhccHHHHHHH
Confidence             334444444444444444332                                12344445555555555555555555


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC
Q 044628          453 FEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP  531 (665)
Q Consensus       453 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  531 (665)
                      ++++.+.. +.+..++..+...+...|++++|.+.|+.+.+.  .+.+...+..+..+|.+.|++++|.+.++++ ...|
T Consensus       195 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  271 (327)
T 3cv0_A          195 LRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQV  271 (327)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            55555431 122344555555555555555555555555441  1223445555555555555555555555554 1112


Q ss_pred             -------------ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          532 -------------RSDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       532 -------------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                                   +..+|..+..++...|+.++|..+++++++.
T Consensus       272 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  315 (327)
T 3cv0_A          272 GGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEP  315 (327)
T ss_dssp             TSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHH
T ss_pred             ccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence                         2345555555566666666666655554443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.63  E-value=1.2e-14  Score=136.14  Aligned_cols=194  Identities=14%  Similarity=0.029  Sum_probs=158.1

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHH
Q 044628          396 QAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEV  471 (665)
Q Consensus       396 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~l  471 (665)
                      +++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+.  .|+ ...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            45566778888899999999999999998753   56788999999999999999999999999986  564 4678888


Q ss_pred             HHHHhcC-----------CcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHH
Q 044628          472 LSACSHG-----------GLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGA  538 (665)
Q Consensus       472 l~a~~~~-----------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~  538 (665)
                      ..++...           |++++|++.|++..+   +.| +...|..+..+|...|++++|++.|+++ .+..+...|..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAER---VNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHH
Confidence            8899999           999999999999987   345 5778899999999999999999999998 22267888999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      +..++...|++++|+..++++++++|+++.++..++.+|...|++++|...+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999988654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.60  E-value=5.1e-14  Score=135.60  Aligned_cols=219  Identities=15%  Similarity=0.025  Sum_probs=169.5

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044628          330 VSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAY  409 (665)
Q Consensus       330 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~  409 (665)
                      ..|..+...+...|++++|+..|++..+..  .+                                   ..++..+...|
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~-----------------------------------~~~~~~~~~~~   48 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KD-----------------------------------ITYLNNRAAAE   48 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CC-----------------------------------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--cc-----------------------------------HHHHHHHHHHH
Confidence            345566666666666666666666665543  33                                   33445566666


Q ss_pred             HhcCCHHHHHHHHhcCCC--C----C----hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 044628          410 SKCGSIAGALQCFGSVKE--P----D----LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGG  479 (665)
Q Consensus       410 ~~~g~~~~A~~~~~~~~~--~----~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  479 (665)
                      ...|++++|...|++..+  |    +    ...|..+...|...|++++|++.|++..+.  .|+..       .+...|
T Consensus        49 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~~  119 (258)
T 3uq3_A           49 YEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKLR  119 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHHh
Confidence            667777777776666542  1    1    467888888999999999999999999885  45533       355568


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHH
Q 044628          480 LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAE  557 (665)
Q Consensus       480 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~  557 (665)
                      ++++|.+.++.+..  ..+.+...+..+...+.+.|++++|++.++++ ...| +..+|..+...+...|++++|+..++
T Consensus       120 ~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  197 (258)
T 3uq3_A          120 NAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCN  197 (258)
T ss_dssp             HHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            88999999999887  22335677888899999999999999999988 3344 57788889999999999999999999


Q ss_pred             HHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          558 KLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       558 ~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ++++.+|+++..+..++.+|...|++++|...+++..+.
T Consensus       198 ~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          198 KAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999988754

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=4.1e-14  Score=136.25  Aligned_cols=236  Identities=12%  Similarity=0.029  Sum_probs=181.8

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCC--CCCHHHHHHHHHH
Q 044628          298 VLVATSLVDMYAKNGNIDDACRVFDGMTA--KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSF--CPDEVTLASILSS  373 (665)
Q Consensus       298 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~ll~~  373 (665)
                      ...+..+...|.+.|++++|...|++..+  .+...|..+...|...|++++|+..|++......  .|+...       
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~-------   77 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKV-------   77 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHH-------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHH-------
Confidence            45788899999999999999999987643  6778899999999999999999999999876321  111100       


Q ss_pred             hCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHH
Q 044628          374 CGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE--PDLVTWTSIIGAYAFHGLSKESIE  451 (665)
Q Consensus       374 ~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~  451 (665)
                                              ...++..+...|.+.|++++|...|++..+  ++       ...+...|++++|.+
T Consensus        78 ------------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~~~~~~a~~  126 (258)
T 3uq3_A           78 ------------------------ISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRT-------ADILTKLRNAEKELK  126 (258)
T ss_dssp             ------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCch-------hHHHHHHhHHHHHHH
Confidence                                    023445566677777777777777776653  33       234666778888999


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CC
Q 044628          452 VFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PI  529 (665)
Q Consensus       452 ~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  529 (665)
                      .++++...  .|+ ...+..+...+...|++++|.+.|+.+.+.  .+.+...|..+..+|.+.|++++|++.++++ ..
T Consensus       127 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  202 (258)
T 3uq3_A          127 KAEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEK  202 (258)
T ss_dssp             HHHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            99888874  444 356777888888899999999999998873  3345778888999999999999999999888 44


Q ss_pred             CC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCCchHHHHHH
Q 044628          530 EP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELE------PSKPVNYALVSN  575 (665)
Q Consensus       530 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~  575 (665)
                      .| +...|..+..++...|+.++|...+++++++.      |++...+..+..
T Consensus       203 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          203 DPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHH
Confidence            45 47788888899999999999999999999988      776666655544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.57  E-value=1.3e-13  Score=134.17  Aligned_cols=241  Identities=10%  Similarity=-0.082  Sum_probs=179.7

Q ss_pred             cCCChHHHHHHHHHHhhCCCC--C-CHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044628          341 QNGDGREAVKLLRDMLQGSFC--P-DEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAG  417 (665)
Q Consensus       341 ~~g~~~~A~~~~~~m~~~g~~--p-~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  417 (665)
                      ..|++++|+..|+++.+....  | +...+..+...+...|+++.|...+..+.+.. +.+..++..+...|.+.|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            345666666666666654211  1 23455555566666677777777776666654 3356677788889999999999


Q ss_pred             HHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 044628          418 ALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISD  494 (665)
Q Consensus       418 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  494 (665)
                      |.+.|++..+   .+...|..+...|...|++++|.+.|+++.+.  .|+.......+..+...|++++|...++.....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999988763   56788999999999999999999999999985  566655555555667779999999999888773


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044628          495 YHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       495 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                        .+++...+ .++..+...++.++|++.+++. ...|+     ..+|..+...+...|++++|...++++++++|++..
T Consensus       174 --~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          174 --SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             --SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             --CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence              33444444 4777888889999999999887 43332     567888889999999999999999999999998644


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHH
Q 044628          569 NYALVSNVYASERCWFDVARLR  590 (665)
Q Consensus       569 ~~~~l~~~y~~~g~~~~A~~~~  590 (665)
                         ..+.++...|++++|.+.+
T Consensus       251 ---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 ---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---HHHHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHHHhhHHHH
Confidence               4477888899999988765

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.54  E-value=5.6e-13  Score=139.68  Aligned_cols=369  Identities=11%  Similarity=0.015  Sum_probs=217.0

Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCh---HHHHHHHhccCCCCchhHHHHHHHHHhcC--
Q 044628          168 LLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFV---EDARRVFDEVLCRDLVLWNVMVSCYALNC--  242 (665)
Q Consensus       168 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~g--  242 (665)
                      +...+.+.|++++|.+++....+.|   +...+..|-.+|...|+.   ++|.+.|++....+...+..|...+...|  
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~   85 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGA   85 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC----------------------------CHHHHHHHHHTC--C
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCC
Confidence            4455667899999999999999887   444555666777778888   89999999887767778888887666666  


Q ss_pred             ---CchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCc---HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC----
Q 044628          243 ---LGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSS---KLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNG----  312 (665)
Q Consensus       243 ---~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g----  312 (665)
                         ++++|+..|++..+.|..   ..+..+...+...+..   ..+.+.+......|   +......|...|...+    
T Consensus        86 ~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~  159 (452)
T 3e4b_A           86 TEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQ  159 (452)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGG
T ss_pred             CCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCccc
Confidence               678999999999887642   2555555555544433   34555555555555   3556667777887777    


Q ss_pred             CHHHHHHHHhccCCCCchhHHHHHHHHHcCC---ChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHH
Q 044628          313 NIDDACRVFDGMTAKNVVSWNTMVVGFGQNG---DGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAY  389 (665)
Q Consensus       313 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~  389 (665)
                      ..+.+..+++.....+...+..|...|.+.|   +.++|+..|++..+.|. ++...+..                    
T Consensus       160 ~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~--------------------  218 (452)
T 3e4b_A          160 HLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDS--------------------  218 (452)
T ss_dssp             GHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHH--------------------
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHH--------------------
Confidence            5566667777777777778888888888888   88888888888887763 33332222                    


Q ss_pred             HHHhCCCCchhHHHHHHHHHHhc----CCHHHHHHHHhcCCCCChhHHHHHHHH-H--HhcCChHHHHHHHHHHHHcCCC
Q 044628          390 AIKNGVQAFLSIENALINAYSKC----GSIAGALQCFGSVKEPDLVTWTSIIGA-Y--AFHGLSKESIEVFEKMLSHAVR  462 (665)
Q Consensus       390 ~~~~g~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~g~~  462 (665)
                                     |..+|...    +++++|...|++....+...+..+... |  ...++.++|++.|++..+.|  
T Consensus       219 ---------------Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g--  281 (452)
T 3e4b_A          219 ---------------VARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD--  281 (452)
T ss_dssp             ---------------HHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT--
T ss_pred             ---------------HHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC--
Confidence                           22233222    456666666655443344555555555 3  34677777777777777665  


Q ss_pred             CCHHHHHHHHHHHhcCC-----cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCChHHHHHHHHhCCCCCCh
Q 044628          463 PDSIAFLEVLSACSHGG-----LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR----VGLLVEAYDLLASMPIEPRS  533 (665)
Q Consensus       463 p~~~t~~~ll~a~~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~  533 (665)
                       +......+...|. .|     ++++|.++|+...     .-+...+..|..+|..    ..++++|.+.|++.-..-+.
T Consensus       282 -~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  354 (452)
T 3e4b_A          282 -QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQN  354 (452)
T ss_dssp             -CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCT
T ss_pred             -CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChH
Confidence             4455555555554 34     7777877777664     2355666666666655    34778888888777222234


Q ss_pred             hHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh--cCCHHHHHHHHHH
Q 044628          534 DTLGAFIGACKV----HGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS--ERCWFDVARLRKM  592 (665)
Q Consensus       534 ~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~--~g~~~~A~~~~~~  592 (665)
                      .....|...|..    ..|.++|...++++.+.++.  .+...+..+...  .++.++|.++.++
T Consensus       355 ~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~--~a~~~l~~l~~~~~~~~~~~a~~~~~~  417 (452)
T 3e4b_A          355 SADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP--EANDLATQLEAPLTPAQRAEGQRLVQQ  417 (452)
T ss_dssp             THHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH--HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            444555555442    44788888888888776654  333444444322  2344555555443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.53  E-value=2.9e-13  Score=131.65  Aligned_cols=245  Identities=14%  Similarity=0.011  Sum_probs=154.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCC
Q 044628          300 VATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGS  376 (665)
Q Consensus       300 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  376 (665)
                      ........+.+.|++++|...|++..+   .+...|..+...|...|++++|+..|++....+..|+.            
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~------------   72 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKA------------   72 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTC------------
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhH------------
Confidence            344566677778888888888877643   34457777777888888888888888777763211211            


Q ss_pred             CCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHH
Q 044628          377 LSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVF  453 (665)
Q Consensus       377 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~  453 (665)
                                           ....+..+...|.+.|++++|.+.|++..   ..+...|..+...|...|++++|++.|
T Consensus        73 ---------------------~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  131 (272)
T 3u4t_A           73 ---------------------KSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYM  131 (272)
T ss_dssp             ---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ---------------------HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHH
Confidence                                 11223445555666666666666666544   234556666666777777777777777


Q ss_pred             HHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC---hHHHHHHHHhC--
Q 044628          454 EKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL---LVEAYDLLASM--  527 (665)
Q Consensus       454 ~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~--  527 (665)
                      ++..+.  .|+ ...+..+...+...+++++|.+.|+.+.+.  .+.+...+..+..++...|+   +++|...++++  
T Consensus       132 ~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~  207 (272)
T 3u4t_A          132 EKQIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIE  207 (272)
T ss_dssp             GGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHH
T ss_pred             HHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHH
Confidence            666654  343 344444442333345777777777777662  22235566666666766666   66666666655  


Q ss_pred             --CCCCC------hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 044628          528 --PIEPR------SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER  581 (665)
Q Consensus       528 --~~~p~------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  581 (665)
                        ...|+      ..+|..+...+...|++++|...++++++++|+++.+...+..+....+
T Consensus       208 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          208 VCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence              11233      2467778888899999999999999999999999888887777665544

>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=99.52  E-value=7.8e-13  Score=126.95  Aligned_cols=197  Identities=8%  Similarity=-0.074  Sum_probs=163.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSAC  475 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  475 (665)
                      ...+..+...|...|++++|...|+++.   ..+...|..+...|...|++++|.+.|+++.+.. ..+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            4556677788888889998888888765   3567788888889999999999999999988863 23556788888888


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHH
Q 044628          476 SHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       476 ~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a  552 (665)
                      ...|++++|.++|+.+.+ .+..| +...+..+..++.+.|++++|.+.++++ ...| +...|..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999998876 33445 4667888888999999999999999887 3344 467788888889999999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          553 KWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       553 ~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ...++++++..|+++..+..++.+|...|++++|.+.++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999999999988889999999999999999999999887654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.52  E-value=1.2e-12  Score=122.93  Aligned_cols=198  Identities=12%  Similarity=0.065  Sum_probs=165.5

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA  474 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  474 (665)
                      +..++..+...|...|++++|.+.|+++.   ..+...|..+...|...|++++|.+.|+++.+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            45566778888889999999999988765   3567788889999999999999999999998863 3356678888889


Q ss_pred             HhcC-CcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHH
Q 044628          475 CSHG-GLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIG  550 (665)
Q Consensus       475 ~~~~-g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~  550 (665)
                      +... |++++|.++++.+.+ .+..|+ ...+..+..++.+.|++++|++.++++ ...| +...|..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            9999 999999999999887 333343 677888899999999999999999887 3344 4777888888999999999


Q ss_pred             HHHHHHHHHHhcCC-CCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          551 LAKWAAEKLLELEP-SKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       551 ~a~~~~~~~~~~~p-~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +|...++++++..| +++..+..++.++...|+.++|..+++.+.+..
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99999999999999 888888899999999999999999998887543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.50  E-value=2.8e-13  Score=129.11  Aligned_cols=197  Identities=12%  Similarity=0.084  Sum_probs=145.1

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA  474 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  474 (665)
                      ....+..+...+.+.|++++|...|+++.+   .+...|..+...|...|++++|++.|+++.+.. ..+..++..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            344556667778888888888888887653   466788888888889999999999999888763 3355677888888


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a  552 (665)
                      +...|++++|.++++.+.+.  .+.+...+..+...+.+.|++++|++.++++ ...| +...|..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            88899999999999988773  2346777888888899999999999998887 3334 567788888888899999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          553 KWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       553 ~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +..++++++..|+++..+..++.+|...|++++|.+.++++.+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999999888889999999999999999999998887643

>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=99.47  E-value=6.3e-12  Score=120.53  Aligned_cols=205  Identities=15%  Similarity=0.036  Sum_probs=160.6

Q ss_pred             chhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHH
Q 044628          329 VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINA  408 (665)
Q Consensus       329 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~  408 (665)
                      ...|..+...+...|++++|+..|+++....  |+                                  +..++..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~----------------------------------~~~~~~~la~~   80 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID--PS----------------------------------SADAHAALAVV   80 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC--TT----------------------------------CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CC----------------------------------hHHHHHHHHHH
Confidence            4567777778888888888888888776542  21                                  23344556667


Q ss_pred             HHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHH
Q 044628          409 YSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEG  484 (665)
Q Consensus       409 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a  484 (665)
                      |.+.|++++|.+.|+++.   ..+...|..+...|...|++++|++.|+++.+.+..|+. ..+..+...+...|++++|
T Consensus        81 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  160 (252)
T 2ho1_A           81 FQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQA  160 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHH
Confidence            777788888887777654   246678888888899999999999999998874445644 5677788889999999999


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          485 LRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       485 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      .++|+.+.+.  .+.+...+..+..++.+.|++++|.+.++++ ...| +...+..+...+...|+.++|.+.++++++.
T Consensus       161 ~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          161 KEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            9999998873  2345778889999999999999999999988 4444 4667788888899999999999999999999


Q ss_pred             CCCCCchHH
Q 044628          563 EPSKPVNYA  571 (665)
Q Consensus       563 ~p~~~~~~~  571 (665)
                      .|+++....
T Consensus       239 ~p~~~~~~~  247 (252)
T 2ho1_A          239 YPGSLEYQE  247 (252)
T ss_dssp             CTTSHHHHH
T ss_pred             CCCCHHHHH
Confidence            999766544

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.47  E-value=2.2e-12  Score=130.91  Aligned_cols=242  Identities=12%  Similarity=0.083  Sum_probs=168.6

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCC-HHHHHHHHHHhCCCCc-hHhHHHHHHHHHHhCCCCchhHHHHHHHH
Q 044628          331 SWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD-EVTLASILSSCGSLSI-SCETRQVHAYAIKNGVQAFLSIENALINA  408 (665)
Q Consensus       331 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~-~~~a~~i~~~~~~~g~~~~~~~~~~li~~  408 (665)
                      .|+.+...+.+.|++++|+..|++.+..  .|+ ...|..+-.++...|+ +++|...+..+++.. +.+..+|+.+..+
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            4555555555566666666666655543  232 3344444444445553 555555555555543 2345566777778


Q ss_pred             HHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhc-CCcHHH
Q 044628          409 YSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSH-GGLVSE  483 (665)
Q Consensus       409 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~-~g~~~~  483 (665)
                      |.+.|++++|...|+++.   ..+...|..+..++...|++++|++.|+++++.  .| +...|..+..++.. .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchH
Confidence            888888888888888776   357788888888888899999999999998886  45 45678888888877 566566


Q ss_pred             H-----HHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcC--ChHHHHHHHHhCCCCCC-hhHHHHHHHHHHhcC-------
Q 044628          484 G-----LRYFNLMISDYHILP-DSEHYTCLTDLLGRVG--LLVEAYDLLASMPIEPR-SDTLGAFIGACKVHG-------  547 (665)
Q Consensus       484 a-----~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~p~-~~~~~~ll~~~~~~g-------  547 (665)
                      |     ++.|+..++   +.| +...|..+..+|.+.|  ++++|++.++++...|+ ...+..+...+...|       
T Consensus       254 A~~~~el~~~~~Al~---l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIK---LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            6     477888776   345 4677888888888888  68888888887755554 556777777777763       


Q ss_pred             --CHHHHHHHHHHH-HhcCCCCCchHHHHHHHHHhc
Q 044628          548 --SIGLAKWAAEKL-LELEPSKPVNYALVSNVYASE  580 (665)
Q Consensus       548 --~~~~a~~~~~~~-~~~~p~~~~~~~~l~~~y~~~  580 (665)
                        ..++|+.+++++ ++++|.....|..++..+...
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence              258899999999 899998888888777766543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.47  E-value=1.2e-11  Score=129.47  Aligned_cols=344  Identities=8%  Similarity=-0.060  Sum_probs=225.2

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCc---HHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 044628          233 VMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSS---KLGRQIHGLVIKQSFDLDVLVATSLVDMYA  309 (665)
Q Consensus       233 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  309 (665)
                      .+...+.+.|++++|+++|++..+.|-   ...+..+-..+...|+.   ++|...++...+.    +...+..|..++.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            356677888999999999999988763   33344444555566777   8999999888854    4555666666555


Q ss_pred             hcC-----CHHHHHHHHhccCCC-CchhHHHHHHHHHcCCChH---HHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCch
Q 044628          310 KNG-----NIDDACRVFDGMTAK-NVVSWNTMVVGFGQNGDGR---EAVKLLRDMLQGSFCPDEVTLASILSSCGSLSIS  380 (665)
Q Consensus       310 ~~g-----~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  380 (665)
                      ..|     +.++|...|++..++ +...+..|...|...+..+   ++++.+......|. |.  ....+-..+...+.+
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~-~~--a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY-PE--AGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC-TT--HHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC-HH--HHHHHHHHHHcCCCc
Confidence            555     788999999887653 5567888888888766544   45555555555553 22  233333444444544


Q ss_pred             HhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC---CHHHHHHHHhcCCC---CChhHHHHHHHHHHhc----CChHHHH
Q 044628          381 CETRQVHAYAIKNGVQAFLSIENALINAYSKCG---SIAGALQCFGSVKE---PDLVTWTSIIGAYAFH----GLSKESI  450 (665)
Q Consensus       381 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~----g~~~~A~  450 (665)
                      +.+........+.-...+...+..|..+|.+.|   +.++|.+.|++..+   ++...+..+...|...    ++.++|+
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            444444333333323334447888999999999   89999999987753   4444556777777554    6899999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-H--hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-----ChHHHHH
Q 044628          451 EVFEKMLSHAVRPDSIAFLEVLSA-C--SHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVG-----LLVEAYD  522 (665)
Q Consensus       451 ~~~~~m~~~g~~p~~~t~~~ll~a-~--~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-----~~~~A~~  522 (665)
                      +.|++.. .|   +...+..+... +  ...+++++|.++|++..+ .|   +...+..|..+|. .|     ++++|++
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~-~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRA-AD---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            9999987 33   34455555554 3  458999999999999887 23   6777788888887 55     9999999


Q ss_pred             HHHhCCCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCCHHHHHHHHHHHh
Q 044628          523 LLASMPIEPRSDTLGAFIGACKV----HGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS----ERCWFDVARLRKMMR  594 (665)
Q Consensus       523 ~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~A~~~~~~m~  594 (665)
                      .|++.- .-+...+..|...|..    ..+.++|...++++.+.  .++.+...|+.+|..    ..+.++|...+++..
T Consensus       309 ~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~  385 (452)
T 3e4b_A          309 HFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAK  385 (452)
T ss_dssp             HHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHH
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence            999987 5567777777766655    34999999999998874  457889999999985    458999999999998


Q ss_pred             hCCC
Q 044628          595 DNCD  598 (665)
Q Consensus       595 ~~~~  598 (665)
                      +.|.
T Consensus       386 ~~g~  389 (452)
T 3e4b_A          386 AQDT  389 (452)
T ss_dssp             TTCC
T ss_pred             HCCC
Confidence            8875

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.47  E-value=7.3e-13  Score=126.22  Aligned_cols=215  Identities=14%  Similarity=0.097  Sum_probs=151.4

Q ss_pred             CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHH
Q 044628          328 NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALIN  407 (665)
Q Consensus       328 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~  407 (665)
                      ....|..+...+...|++++|+..|+++....  |+                                  +...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--~~----------------------------------~~~~~~~la~   65 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN--KE----------------------------------DAIPYINFAN   65 (243)
T ss_dssp             --------------------CCTTHHHHHTTC--TT----------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC--cc----------------------------------cHHHHHHHHH
Confidence            34556666777777777777777777776532  21                                  2334455666


Q ss_pred             HHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHH
Q 044628          408 AYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEG  484 (665)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  484 (665)
                      .|.+.|++++|.+.|+++.   ..+...|..+...|...|++++|++.++++.+.. ..+...+..+...+...|++++|
T Consensus        66 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A  144 (243)
T 2q7f_A           66 LLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLA  144 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHH
Confidence            7777788888887777654   3467788888889999999999999999998863 33566788888889999999999


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          485 LRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       485 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      .++++.+.+.  .+.+...+..+...+.+.|++++|++.++++ ...| +..+|..+...+...|+.++|...+++++++
T Consensus       145 ~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          145 LPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            9999998873  3346778889999999999999999999988 3334 4778888999999999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhcC
Q 044628          563 EPSKPVNYALVSNVYASER  581 (665)
Q Consensus       563 ~p~~~~~~~~l~~~y~~~g  581 (665)
                      +|+++.++..++.+....|
T Consensus       223 ~p~~~~~~~~~~~l~~~~~  241 (243)
T 2q7f_A          223 QPDHMLALHAKKLLGHHHH  241 (243)
T ss_dssp             CTTCHHHHHHHTC------
T ss_pred             CcchHHHHHHHHHHHhhcc
Confidence            9999888877766654433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.47  E-value=3.9e-12  Score=115.52  Aligned_cols=165  Identities=15%  Similarity=0.110  Sum_probs=139.7

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHH
Q 044628          429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCL  507 (665)
Q Consensus       429 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  507 (665)
                      +...|..+...|...|++++|++.|++.++.  .| +..++..+..++.+.|++++|.+.++.....  .+.+...+..+
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~   79 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYIL   79 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHH
Confidence            5667888888899999999999999998885  55 4467888888889999999999999988762  33456677778


Q ss_pred             HHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHH
Q 044628          508 TDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFD  585 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  585 (665)
                      ...+...+++++|.+.+++. ...| +...|..+...+...|++++|+..++++++++|+++.+|..++.+|.+.|++++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            88889999999999998887 4445 467788888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCC
Q 044628          586 VARLRKMMRDNC  597 (665)
Q Consensus       586 A~~~~~~m~~~~  597 (665)
                      |.+.+++..+..
T Consensus       160 A~~~~~~al~~~  171 (184)
T 3vtx_A          160 AVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            999999887654

>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=99.46  E-value=1.3e-11  Score=120.03  Aligned_cols=224  Identities=11%  Similarity=-0.081  Sum_probs=159.7

Q ss_pred             CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHH
Q 044628          328 NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALIN  407 (665)
Q Consensus       328 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~  407 (665)
                      +..++..+...|...|++++|+..|++..+.+   +...                                   +..+..
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a-----------------------------------~~~lg~   46 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSG-----------------------------------CFNLGV   46 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHH-----------------------------------HHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHH-----------------------------------HHHHHH
Confidence            45566777777777788888888887776622   2222                                   234445


Q ss_pred             HHHh----cCCHHHHHHHHhcCCC-CChhHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-
Q 044628          408 AYSK----CGSIAGALQCFGSVKE-PDLVTWTSIIGAYAF----HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSH-  477 (665)
Q Consensus       408 ~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~-  477 (665)
                      .|..    .|++++|...|++..+ .+...+..+...|..    .+++++|++.|++..+.+   +...+..+...+.. 
T Consensus        47 ~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~  123 (273)
T 1ouv_A           47 LYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDG  123 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHC
T ss_pred             HHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcC
Confidence            5555    6666666666665542 356667777777777    788888888888877764   55667777777777 


Q ss_pred             ---CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCChHHHHHHHHhCCCCCChhHHHHHHHHHHh----c
Q 044628          478 ---GGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR----VGLLVEAYDLLASMPIEPRSDTLGAFIGACKV----H  546 (665)
Q Consensus       478 ---~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~  546 (665)
                         .+++++|+++|+...+. +   +...+..+..+|.+    .+++++|++.+++.--..+...+..+...+..    .
T Consensus       124 ~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          124 KVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             SSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSC
T ss_pred             CCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCC
Confidence               78888888888887762 2   55667777777777    78888888888776111345667777777777    8


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCCHHHHHHHHHHHhhCCC
Q 044628          547 GSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS----ERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       547 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~A~~~~~~m~~~~~  598 (665)
                      ++.++|+..++++++.+|  +..+..++.+|..    .|++++|.+.+++..+.+.
T Consensus       200 ~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          200 KNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            888888888888888866  5778888888888    8888888888888876653

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.45  E-value=2e-12  Score=125.72  Aligned_cols=219  Identities=11%  Similarity=-0.103  Sum_probs=181.8

Q ss_pred             hCCCCchHhHHHHHHHHHHhCC---CCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChH
Q 044628          374 CGSLSISCETRQVHAYAIKNGV---QAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSK  447 (665)
Q Consensus       374 ~~~~~~~~~a~~i~~~~~~~g~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  447 (665)
                      ....|+++.|...+..+.+...   +.+..++..+...|...|++++|...|+++.   ..+...|..+...|...|+++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHH
Confidence            3456889999999999988642   2356788899999999999999999999876   356889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          448 ESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      +|++.|+++.+.. +.+..++..+...+...|++++|.++|+.+.+   +.|+..........+.+.|++++|.+.+++.
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            9999999999863 33567888999999999999999999999987   3566555555666677889999999999776


Q ss_pred             -C-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          528 -P-IEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS----KPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       528 -~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                       . ..++...| .++..+...++.+.|...++++++..|.    ++..+..++.+|...|++++|...+++.....
T Consensus       171 ~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence             2 23344444 4677778888999999999999987774    36788999999999999999999999998654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.45  E-value=5.1e-13  Score=138.56  Aligned_cols=265  Identities=10%  Similarity=0.017  Sum_probs=174.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccCC--CC-c----hhHHHHHHHHHcCCChHHHHHHHHHHhhCCC-CCCHHHHHHHH
Q 044628          300 VATSLVDMYAKNGNIDDACRVFDGMTA--KN-V----VSWNTMVVGFGQNGDGREAVKLLRDMLQGSF-CPDEVTLASIL  371 (665)
Q Consensus       300 ~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll  371 (665)
                      .+..+...+...|++++|...|++..+  ++ .    ..|..+...|...|++++|+..|++.....- ..+.       
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------  122 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDR-------  122 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH-------
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCc-------
Confidence            344556666777777777777766643  22 2    3566666777777777777777776543200 0000       


Q ss_pred             HHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---------CChhHHHHHHHHHHh
Q 044628          372 SSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---------PDLVTWTSIIGAYAF  442 (665)
Q Consensus       372 ~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~  442 (665)
                                              .....++..+...|...|++++|...|++..+         .....|..+...|..
T Consensus       123 ------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  178 (411)
T 4a1s_A          123 ------------------------LGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHA  178 (411)
T ss_dssp             ------------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             ------------------------hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHH
Confidence                                    11223345555666666666666666655432         123466667777777


Q ss_pred             cCC-----------------hHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC
Q 044628          443 HGL-----------------SKESIEVFEKMLSH----AVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD  500 (665)
Q Consensus       443 ~g~-----------------~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~  500 (665)
                      .|+                 +++|++.+++..+.    +-.|. ..++..+...+...|++++|++++++..+...-.++
T Consensus       179 ~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  258 (411)
T 4a1s_A          179 KGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGD  258 (411)
T ss_dssp             HHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCC
Confidence            777                 77777777776542    11121 236677777888888888888888887662211122


Q ss_pred             ----hhhHHHHHHHHHhcCChHHHHHHHHhC-CCC---C----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--
Q 044628          501 ----SEHYTCLTDLLGRVGLLVEAYDLLASM-PIE---P----RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK--  566 (665)
Q Consensus       501 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~---p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--  566 (665)
                          ...+..+..+|...|++++|++.+++. ...   .    ...++..+...+...|++++|...+++++++.+..  
T Consensus       259 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  338 (411)
T 4a1s_A          259 RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGD  338 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC
Confidence                236778888888999999998888876 111   1    14567777888899999999999999998765442  


Q ss_pred             ----CchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          567 ----PVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       567 ----~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                          ...+..++.+|...|++++|...+++..+
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence                34788899999999999999999988754

>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=99.44  E-value=1.8e-11  Score=119.03  Aligned_cols=225  Identities=14%  Similarity=0.000  Sum_probs=171.4

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhccCCC-CchhHHHHHHHHHc----CCChHHHHHHHHHHhhCCCCCCHHHHHHH
Q 044628          296 LDVLVATSLVDMYAKNGNIDDACRVFDGMTAK-NVVSWNTMVVGFGQ----NGDGREAVKLLRDMLQGSFCPDEVTLASI  370 (665)
Q Consensus       296 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  370 (665)
                      .+...+..+...|.+.|++++|...|++..++ +..++..+...|..    .+++++|+..|++..+.+   +...+   
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~---   77 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC---   77 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH---
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH---
Confidence            36677888999999999999999999987654 55678888899999    999999999999987764   33333   


Q ss_pred             HHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHhcCCC-CChhHHHHHHHHHHh---
Q 044628          371 LSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSK----CGSIAGALQCFGSVKE-PDLVTWTSIIGAYAF---  442 (665)
Q Consensus       371 l~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~---  442 (665)
                                                      ..+..+|..    .+++++|...|++..+ .+...+..+...|..   
T Consensus        78 --------------------------------~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~  125 (273)
T 1ouv_A           78 --------------------------------HLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKV  125 (273)
T ss_dssp             --------------------------------HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSS
T ss_pred             --------------------------------HHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCC
Confidence                                            334445555    6666666666665542 456677777777777   


Q ss_pred             -cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----CCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----
Q 044628          443 -HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSH----GGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR----  513 (665)
Q Consensus       443 -~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----  513 (665)
                       .+++++|++.|++..+.+   +...+..+...+..    .+++++|++.|+...+.    .+...+..+..+|.+    
T Consensus       126 ~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~  198 (273)
T 1ouv_A          126 VTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGA  198 (273)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSS
T ss_pred             cccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCC
Confidence             888888888888888765   45566666666766    78888888888888762    346677788888888    


Q ss_pred             cCChHHHHHHHHhC-CCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCC
Q 044628          514 VGLLVEAYDLLASM-PIEPRSDTLGAFIGACKV----HGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       514 ~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      .+++++|++.+++. ...| ...+..+...+..    .++.++|...++++++++|++
T Consensus       199 ~~~~~~A~~~~~~a~~~~~-~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          199 TKNFKEALARYSKACELEN-GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             CccHHHHHHHHHHHHhCCC-HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            88999999988887 3333 6667777777887    889999999999999988864

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.44  E-value=1.2e-11  Score=116.13  Aligned_cols=208  Identities=15%  Similarity=0.026  Sum_probs=160.9

Q ss_pred             CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHH
Q 044628          328 NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALIN  407 (665)
Q Consensus       328 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~  407 (665)
                      +...|..+...+...|++++|+..|+++....  |+                                  +..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~----------------------------------~~~~~~~l~~   50 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD--PK----------------------------------NELAWLVRAE   50 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT----------------------------------CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--cc----------------------------------chHHHHHHHH
Confidence            34566777777777777777777777776532  22                                  2234455666


Q ss_pred             HHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhc-CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHH
Q 044628          408 AYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFH-GLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVS  482 (665)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~  482 (665)
                      .|...|++++|.+.|+++.   ..+...|..+...|... |++++|++.++++.+.+..|+ ...+..+..++...|+++
T Consensus        51 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  130 (225)
T 2vq2_A           51 IYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFG  130 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHH
Confidence            7777788888888777664   34667888889999999 999999999999988434454 357888888999999999


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC--ChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          483 EGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP--RSDTLGAFIGACKVHGSIGLAKWAAEKL  559 (665)
Q Consensus       483 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~  559 (665)
                      +|++.|+.+.+.  .+.+...+..+..++.+.|++++|.+.++++ ...|  +...+..+...+...|+.+.+...++.+
T Consensus       131 ~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          131 LAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            999999999873  2335788899999999999999999999988 3333  4666777777788999999999999999


Q ss_pred             HhcCCCCCchHHHH
Q 044628          560 LELEPSKPVNYALV  573 (665)
Q Consensus       560 ~~~~p~~~~~~~~l  573 (665)
                      .+..|+++.....+
T Consensus       209 ~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          209 QANFPYSEELQTVL  222 (225)
T ss_dssp             HHHCTTCHHHHHHH
T ss_pred             HHhCCCCHHHHHHh
Confidence            99999987766544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.44  E-value=2.5e-12  Score=132.90  Aligned_cols=266  Identities=12%  Similarity=0.039  Sum_probs=147.8

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhccCC--C-C----chhHHHHHHHHHcCCChHHHHHHHHHHhhC----CCCCCH
Q 044628          296 LDVLVATSLVDMYAKNGNIDDACRVFDGMTA--K-N----VVSWNTMVVGFGQNGDGREAVKLLRDMLQG----SFCPDE  364 (665)
Q Consensus       296 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~  364 (665)
                      .....+..+...+.+.|++++|...|++..+  + +    ...|..+...|...|++++|+..|++....    +-.|. 
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~-   85 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG-   85 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH-
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH-
Confidence            3445566677777778888888888776643  2 2    245667777777788888888777776432    11111 


Q ss_pred             HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----hhHHHH
Q 044628          365 VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----PD----LVTWTS  435 (665)
Q Consensus       365 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~  435 (665)
                                                       ...++..+...|...|++++|...|++..+     .+    ..++..
T Consensus        86 ---------------------------------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  132 (406)
T 3sf4_A           86 ---------------------------------EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYN  132 (406)
T ss_dssp             ---------------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             ---------------------------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHH
Confidence                                             122233444455555555555555544331     11    224555


Q ss_pred             HHHHHHhcCC--------------------hHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHH
Q 044628          436 IIGAYAFHGL--------------------SKESIEVFEKMLSH----AVRPD-SIAFLEVLSACSHGGLVSEGLRYFNL  490 (665)
Q Consensus       436 li~~~~~~g~--------------------~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~  490 (665)
                      +...|...|+                    +++|++.+++..+.    +-.|. ..++..+...+...|++++|.+.++.
T Consensus       133 l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  212 (406)
T 3sf4_A          133 LGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQ  212 (406)
T ss_dssp             HHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHH
T ss_pred             HHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            5555555666                    66666665554431    11111 12455555566666666666666666


Q ss_pred             HHHhcCCCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCC----hhHHHHHHHHHHhcCCHHHHHHHHHH
Q 044628          491 MISDYHILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPR----SDTLGAFIGACKVHGSIGLAKWAAEK  558 (665)
Q Consensus       491 ~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~  558 (665)
                      ..+...-.++    ...+..+..+|...|++++|.+.+++.    +..++    ..++..+...+...|++++|...+++
T Consensus       213 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  292 (406)
T 3sf4_A          213 RLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLK  292 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            5542111111    225556666666666666666666655    11111    33455556666666777777777766


Q ss_pred             HHhcCCCC------CchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          559 LLELEPSK------PVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       559 ~~~~~p~~------~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ++++.+..      ...+..++.+|...|++++|...+++..+
T Consensus       293 a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          293 HLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66554332      34566666777777777777766666543

>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=99.43  E-value=2.9e-12  Score=130.09  Aligned_cols=225  Identities=11%  Similarity=0.068  Sum_probs=191.6

Q ss_pred             HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC-HHHHHHHHhcCCC---CChhHHHHHHHHH
Q 044628          365 VTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGS-IAGALQCFGSVKE---PDLVTWTSIIGAY  440 (665)
Q Consensus       365 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~---~~~~~~~~li~~~  440 (665)
                      ..+..+-..+...|++++|...+..+++.. +.+..+|+.+...|.+.|+ +++|...|+++.+   .+...|+.+...+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            345556666778899999999999999876 4467788899999999997 9999999998863   6788999999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHh-cCCh
Q 044628          441 AFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGR-VGLL  517 (665)
Q Consensus       441 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~-~g~~  517 (665)
                      ...|++++|+..|+++++.  .| +...|..+..++...|++++|++.|+++++   +.| +...|+.+..+|.+ .|..
T Consensus       177 ~~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~---l~P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCcc
Confidence            9999999999999999996  55 557899999999999999999999999998   344 67889999999999 6766


Q ss_pred             HHH-----HHHHHhC-CCCC-ChhHHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC-------
Q 044628          518 VEA-----YDLLASM-PIEP-RSDTLGAFIGACKVHG--SIGLAKWAAEKLLELEPSKPVNYALVSNVYASER-------  581 (665)
Q Consensus       518 ~~A-----~~~~~~~-~~~p-~~~~~~~ll~~~~~~g--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g-------  581 (665)
                      ++|     ++.++++ .+.| +...|..+...+...|  +.++|...++++ +.+|+++.++..++++|.+.|       
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            888     4777777 5566 4678988888888888  689999999998 999999999999999999975       


Q ss_pred             --CHHHHHHHHHHH-hhC
Q 044628          582 --CWFDVARLRKMM-RDN  596 (665)
Q Consensus       582 --~~~~A~~~~~~m-~~~  596 (665)
                        ..++|.++++++ .+.
T Consensus       331 ~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          331 EDILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence              358999999988 543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.43  E-value=1.1e-12  Score=138.33  Aligned_cols=192  Identities=12%  Similarity=0.030  Sum_probs=165.1

Q ss_pred             chhHHHHHHHHHHhcCCH-HHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 044628          398 FLSIENALINAYSKCGSI-AGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLS  473 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~-~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  473 (665)
                      +...+..+...|...|++ ++|.+.|++..   ..+...|..+...|...|++++|++.|++..+.  .|+...+..+..
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~  178 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSM  178 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHH
Confidence            455566677777777888 88888877765   245778999999999999999999999999985  688788888899


Q ss_pred             HHhcC---------CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc--------CChHHHHHHHHhC-CCCC----
Q 044628          474 ACSHG---------GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRV--------GLLVEAYDLLASM-PIEP----  531 (665)
Q Consensus       474 a~~~~---------g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~-~~~p----  531 (665)
                      .+...         |++++|++.|++..+.  .+.+...|..+..+|...        |++++|++.|+++ ...|    
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~  256 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASS  256 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGG
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCccc
Confidence            99999         9999999999999872  233578899999999998        9999999999998 5556    


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          532 RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       532 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      +...|..+..++...|++++|+..++++++++|+++.++..++.++...|++++|.+.+.++
T Consensus       257 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          257 NPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            67789999999999999999999999999999999999999999999999999999765443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.43  E-value=1.6e-11  Score=119.13  Aligned_cols=239  Identities=10%  Similarity=0.033  Sum_probs=186.8

Q ss_pred             HhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCch----hHHHHH
Q 044628          263 YFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA--KNVV----SWNTMV  336 (665)
Q Consensus       263 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~----~~~~li  336 (665)
                      ...+......+...|+++.|...++.+++.. +.+..++..+...|.+.|++++|...|++..+  ++..    +|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            3455666778889999999999999999875 45666888999999999999999999998765  2322    388999


Q ss_pred             HHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH
Q 044628          337 VGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIA  416 (665)
Q Consensus       337 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  416 (665)
                      ..|...|++++|+..|++..+..  |+                                  +..++..+...|.+.|+++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~--~~----------------------------------~~~~~~~l~~~~~~~~~~~  125 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD--TT----------------------------------RLDMYGQIGSYFYNKGNFP  125 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TT----------------------------------CTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC--cc----------------------------------cHHHHHHHHHHHHHccCHH
Confidence            99999999999999999987732  22                                  2345567888999999999


Q ss_pred             HHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCc---HHHHHHHHH
Q 044628          417 GALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGL---VSEGLRYFN  489 (665)
Q Consensus       417 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~---~~~a~~~~~  489 (665)
                      +|...|++..+   .+...|..+...+...+++++|++.|+++.+.  .|+ ...+..+..++...|+   .++|...++
T Consensus       126 ~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  203 (272)
T 3u4t_A          126 LAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYE  203 (272)
T ss_dssp             HHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHH
T ss_pred             HHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHH
Confidence            99999998874   45667777773444556999999999999986  454 5667777777777777   888999999


Q ss_pred             HHHHhcCCCCC------hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHH
Q 044628          490 LMISDYHILPD------SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFI  540 (665)
Q Consensus       490 ~~~~~~~~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll  540 (665)
                      .+.+...-.|+      ...|..+...|.+.|++++|.+.++++ .+.|+ ...+..+.
T Consensus       204 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~  262 (272)
T 3u4t_A          204 KLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLK  262 (272)
T ss_dssp             HHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC
T ss_pred             HHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhh
Confidence            88774333344      257888999999999999999999998 55665 44444443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.43  E-value=1.7e-12  Score=134.10  Aligned_cols=283  Identities=14%  Similarity=0.049  Sum_probs=177.8

Q ss_pred             HHHHhccCCcHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHHHHhccCC---------CCchhHHHHH
Q 044628          270 VNSCGTLGSSKLGRQIHGLVIKQSFDLD----VLVATSLVDMYAKNGNIDDACRVFDGMTA---------KNVVSWNTMV  336 (665)
Q Consensus       270 l~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li  336 (665)
                      ...+...|++++|...++.+++.+ +.+    ..++..+...|...|++++|...|++..+         ....+|..+.
T Consensus        16 g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la   94 (406)
T 3sf4_A           16 GERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLG   94 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            333444444444444444444442 111    23455556666666666666666555421         1234567777


Q ss_pred             HHHHcCCChHHHHHHHHHHhhCCC-CCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC-
Q 044628          337 VGFGQNGDGREAVKLLRDMLQGSF-CPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGS-  414 (665)
Q Consensus       337 ~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~-  414 (665)
                      ..|...|++++|+..|++...... .++...                               ...++..+...|...|+ 
T Consensus        95 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~-------------------------------~~~~~~~l~~~~~~~g~~  143 (406)
T 3sf4_A           95 NTLKVLGNFDEAIVCCQRHLDISRELNDKVG-------------------------------EARALYNLGNVYHAKGKS  143 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH-------------------------------HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhcccccc-------------------------------hHHHHHHHHHHHHHcCCc
Confidence            788888888888888877654210 011100                               01122334444445555 


Q ss_pred             -------------------HHHHHHHHhcCCC---------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC-
Q 044628          415 -------------------IAGALQCFGSVKE---------PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV-RPD-  464 (665)
Q Consensus       415 -------------------~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-  464 (665)
                                         +++|...|++..+         .....|..+...|...|++++|++.+++..+... .++ 
T Consensus       144 ~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  223 (406)
T 3sf4_A          144 FGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK  223 (406)
T ss_dssp             CC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCc
Confidence                               5555554443321         1234677778888888888888888888775311 122 


Q ss_pred             ---HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCC-
Q 044628          465 ---SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPR-  532 (665)
Q Consensus       465 ---~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~-  532 (665)
                         ..++..+...+...|++++|...++.......-.++    ...+..+...|.+.|++++|.+.+++.    +..++ 
T Consensus       224 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  303 (406)
T 3sf4_A          224 AAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDR  303 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCc
Confidence               136777788888999999999999887652211122    557788888999999999999998877    11122 


Q ss_pred             ---hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CCchHHHHHHHHHhcCCHH
Q 044628          533 ---SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS------KPVNYALVSNVYASERCWF  584 (665)
Q Consensus       533 ---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~y~~~g~~~  584 (665)
                         ..++..+...+...|++++|...+++++++.+.      ...++..++.+|...|+..
T Consensus       304 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          304 IGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence               556778888899999999999999999876433      3557778889998888764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.42  E-value=1.4e-12  Score=130.64  Aligned_cols=265  Identities=12%  Similarity=0.049  Sum_probs=177.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCC--C-C----chhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 044628          301 ATSLVDMYAKNGNIDDACRVFDGMTA--K-N----VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSS  373 (665)
Q Consensus       301 ~~~li~~~~~~g~~~~A~~~~~~~~~--~-~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  373 (665)
                      +......+...|++++|...|++..+  + +    ...|..+...|...|++++|+..+++.....              
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------------   73 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA--------------   73 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--------------
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--------------
Confidence            33445556666666666666665532  2 1    2345556666666666666666666544310              


Q ss_pred             hCCCCchHhHHHHHHHHHHhCCC-CchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----hhHHHHHHHHHHhc
Q 044628          374 CGSLSISCETRQVHAYAIKNGVQ-AFLSIENALINAYSKCGSIAGALQCFGSVKE-----PD----LVTWTSIIGAYAFH  443 (665)
Q Consensus       374 ~~~~~~~~~a~~i~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~  443 (665)
                                       .+.+.. ....++..+...|...|++++|...|++..+     .+    ..++..+...|...
T Consensus        74 -----------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~  136 (338)
T 3ro2_A           74 -----------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAK  136 (338)
T ss_dssp             -----------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------hcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHc
Confidence                             000111 1133455666677777777777777766542     22    33677777778888


Q ss_pred             CC--------------------hHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC
Q 044628          444 GL--------------------SKESIEVFEKMLSH----AVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHIL  498 (665)
Q Consensus       444 g~--------------------~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  498 (665)
                      |+                    +++|.+.+++....    +-.|. ..++..+...+...|++++|.+.++...+...-.
T Consensus       137 ~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~  216 (338)
T 3ro2_A          137 GKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEF  216 (338)
T ss_dssp             HHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             CcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhc
Confidence            88                    88888888776542    11121 2357777788888999999999998887532111


Q ss_pred             CC----hhhHHHHHHHHHhcCChHHHHHHHHhC-C---CCCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          499 PD----SEHYTCLTDLLGRVGLLVEAYDLLASM-P---IEPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       499 p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      ++    ...+..+...+.+.|++++|.+.+++. .   ..++    ..++..+...+...|++++|...+++++++.|..
T Consensus       217 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  296 (338)
T 3ro2_A          217 GDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  296 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhc
Confidence            22    337788888999999999999998876 1   1112    4567777888999999999999999998875543


Q ss_pred             ------CchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          567 ------PVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       567 ------~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                            ..++..++.+|...|++++|...+++..+.
T Consensus       297 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          297 KDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             CCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                  347889999999999999999999988764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.42  E-value=7.2e-12  Score=117.17  Aligned_cols=192  Identities=15%  Similarity=0.028  Sum_probs=90.4

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 044628          295 DLDVLVATSLVDMYAKNGNIDDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASIL  371 (665)
Q Consensus       295 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  371 (665)
                      +++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+.  .|+.       
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~-------   72 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRY-------   72 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC-------
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCc-------
Confidence            34555556666666666666666666665533   23445566666666666666666666665543  2322       


Q ss_pred             HHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhc-----------CCHHHHHHHHhcCCC---CChhHHHHHH
Q 044628          372 SSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKC-----------GSIAGALQCFGSVKE---PDLVTWTSII  437 (665)
Q Consensus       372 ~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~-----------g~~~~A~~~~~~~~~---~~~~~~~~li  437 (665)
                                                 ...+..+...|.+.           |++++|...|++..+   .+...|..+.
T Consensus        73 ---------------------------~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg  125 (217)
T 2pl2_A           73 ---------------------------LGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRG  125 (217)
T ss_dssp             ---------------------------HHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ---------------------------HHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence                                       12222333333333           555555555554431   2344455555


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCh
Q 044628          438 GAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLL  517 (665)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  517 (665)
                      ..|...|++++|++.|++..+..  .+...+..+..++...|++++|+..|+.+.+.  -+.+...+..+..++.+.|++
T Consensus       126 ~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~  201 (217)
T 2pl2_A          126 LVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKA  201 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC----
T ss_pred             HHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCH
Confidence            55555555555555555555543  34444555555555555555555555555441  112344445555555555555


Q ss_pred             HHHHHHHHh
Q 044628          518 VEAYDLLAS  526 (665)
Q Consensus       518 ~~A~~~~~~  526 (665)
                      ++|++.+++
T Consensus       202 ~~A~~~~~~  210 (217)
T 2pl2_A          202 EEAARAAAL  210 (217)
T ss_dssp             ---------
T ss_pred             HHHHHHHHH
Confidence            555555544

>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=99.39  E-value=1e-09  Score=118.92  Aligned_cols=409  Identities=12%  Similarity=0.044  Sum_probs=244.5

Q ss_pred             CcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCC---hHHHHHHHhccCC-----CCchhHH
Q 044628          161 DHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGF---VEDARRVFDEVLC-----RDLVLWN  232 (665)
Q Consensus       161 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~-----~~~~~~~  232 (665)
                      |..+|..++..+.+.+.++.+..+++.+++. ++.....|...+..-.+.|.   ++.+..+|++...     +++..|.
T Consensus        65 d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~  143 (679)
T 4e6h_A           65 DIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWL  143 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            4455555555555556666666666666655 34455556666666666666   6666666665522     4555555


Q ss_pred             HHHHHHHhcCCc----hH----HHHHHHHHHH-CCC-CCCH-hhHHHHHHHHh---------ccCCcHHHHHHHHHHHHh
Q 044628          233 VMVSCYALNCLG----DG----AIAVFNLMRL-EGM-KGDY-FTFSSLVNSCG---------TLGSSKLGRQIHGLVIKQ  292 (665)
Q Consensus       233 ~li~~~~~~g~~----~~----A~~~~~~m~~-~g~-~p~~-~t~~~ll~~~~---------~~~~~~~a~~~~~~~~~~  292 (665)
                      .-+....+.++.    ++    ..++|+.... .|. .|+. ..|...+....         ..++++.+..+|..++..
T Consensus       144 ~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~i  223 (679)
T 4e6h_A          144 SYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQ  223 (679)
T ss_dssp             HHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhC
Confidence            555544443332    12    2345554332 244 3432 33333333221         112344555666655532


Q ss_pred             CCCCchhHHHHHHHHHH-------------hcCCHHHHHHHHhcc-------CC--C--------------C------ch
Q 044628          293 SFDLDVLVATSLVDMYA-------------KNGNIDDACRVFDGM-------TA--K--------------N------VV  330 (665)
Q Consensus       293 g~~~~~~~~~~li~~~~-------------~~g~~~~A~~~~~~~-------~~--~--------------~------~~  330 (665)
                      ....-..+|......--             ...+++.|...+.++       ..  |              +      ..
T Consensus       224 P~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~  303 (679)
T 4e6h_A          224 PMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLL  303 (679)
T ss_dssp             CCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHH
Confidence            11111122211111100             011233344444331       10  0              0      12


Q ss_pred             hHHHHHHHHHcCC-------ChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHH-HHHHHHHHhCCCCchhHH
Q 044628          331 SWNTMVVGFGQNG-------DGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETR-QVHAYAIKNGVQAFLSIE  402 (665)
Q Consensus       331 ~~~~li~~~~~~g-------~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~-~i~~~~~~~g~~~~~~~~  402 (665)
                      .|...+.---.++       ..+.+..+|++....- .-+...|.....-+...|+.+.|. .++...+.. .+.+..++
T Consensus       304 lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lw  381 (679)
T 4e6h_A          304 IWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLA  381 (679)
T ss_dssp             HHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHH
T ss_pred             HHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHH
Confidence            3555554333332       1234556777776542 234455555555556667888886 999988864 35567778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCC-------------CC------------hhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 044628          403 NALINAYSKCGSIAGALQCFGSVKE-------------PD------------LVTWTSIIGAYAFHGLSKESIEVFEKML  457 (665)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~~~~-------------~~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~  457 (665)
                      -.++...-+.|++++|.++|+++.+             |+            ...|-..+....+.|..+.|..+|.+.+
T Consensus       382 l~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~  461 (679)
T 4e6h_A          382 FSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCR  461 (679)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888999999999999999998763             21            2368888888888899999999999998


Q ss_pred             Hc-CCCCCHHHHH--HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC--
Q 044628          458 SH-AVRPDSIAFL--EVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP--  531 (665)
Q Consensus       458 ~~-g~~p~~~t~~--~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p--  531 (665)
                      +. + .+....|.  +.+.-. ..++.+.|..+|+...+.  .+-+...|...++.....|+.+.|..+|++. ...|  
T Consensus       462 ~~~~-~~~~~lyi~~A~lE~~-~~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          462 RLKK-LVTPDIYLENAYIEYH-ISKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             HTGG-GSCTHHHHHHHHHHHT-TTSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             HhcC-CCChHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            86 2 11223333  333322 245699999999999984  4446667788899999999999999999998 3333  


Q ss_pred             --ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 044628          532 --RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVY  577 (665)
Q Consensus       532 --~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  577 (665)
                        ....|...+..-..+|+.+.+..+.+++.+..|+++ ....+++-|
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~-~~~~f~~ry  584 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN-KLEEFTNKY  584 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC-HHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc-HHHHHHHHh
Confidence              246799999888999999999999999999999864 334444444

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.37  E-value=1.2e-11  Score=112.39  Aligned_cols=167  Identities=18%  Similarity=0.104  Sum_probs=145.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA  474 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  474 (665)
                      +..+|..|...|.+.|++++|.+.|++..   ..+...|..+...|...|++++|+..+++..... .-+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            56788899999999999999999999876   3577889999999999999999999999998863 3345667777788


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a  552 (665)
                      +...++++.|.+.+....+.  .+.+...+..+..+|.+.|++++|++.|++. ...| +..+|..+..++...|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            89999999999999999872  3346788899999999999999999999988 5555 577899999999999999999


Q ss_pred             HHHHHHHHhcCCCCC
Q 044628          553 KWAAEKLLELEPSKP  567 (665)
Q Consensus       553 ~~~~~~~~~~~p~~~  567 (665)
                      +..++++++++|+++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999999999753

>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=99.35  E-value=1.2e-11  Score=135.74  Aligned_cols=162  Identities=19%  Similarity=0.242  Sum_probs=142.4

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHH
Q 044628          429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTC  506 (665)
Q Consensus       429 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  506 (665)
                      +...|+.|...|.+.|++++|++.|++.++.  .|+ ..++..+..++.+.|++++|++.|++..+   +.| +...|..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~---l~P~~~~a~~n   82 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR---ISPTFADAYSN   82 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHH
Confidence            3567888899999999999999999999885  665 46788889999999999999999999887   345 4778999


Q ss_pred             HHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHH
Q 044628          507 LTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWF  584 (665)
Q Consensus       507 l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~  584 (665)
                      +..+|.+.|++++|++.|++. .+.|+ ...|..+..++...|++++|+..++++++++|+++.++..|+.+|...|+|+
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            999999999999999999988 56664 7789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 044628          585 DVARLRKMMRD  595 (665)
Q Consensus       585 ~A~~~~~~m~~  595 (665)
                      +|.+.+++..+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998877653

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.34  E-value=6.8e-12  Score=130.00  Aligned_cols=270  Identities=14%  Similarity=0.055  Sum_probs=194.4

Q ss_pred             hhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCch----hHHHHHHHHHHhcCCHHHHHHHHhccCC---------CCch
Q 044628          264 FTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDV----LVATSLVDMYAKNGNIDDACRVFDGMTA---------KNVV  330 (665)
Q Consensus       264 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~---------~~~~  330 (665)
                      ..+..+...+...|++++|...++.+++.+ +.+.    .++..+...|...|++++|...|++..+         ....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            345556667889999999999999999985 3333    5788899999999999999999887643         1335


Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhCCCC-CCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 044628          331 SWNTMVVGFGQNGDGREAVKLLRDMLQGSFC-PDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAY  409 (665)
Q Consensus       331 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~  409 (665)
                      +|..+...|...|++++|+..|++....... .+.                               .....++..+...|
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~~l~~~~  176 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDR-------------------------------LSEGRALYNLGNVY  176 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-------------------------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhch-------------------------------HHHHHHHHHHHHHH
Confidence            6888888999999999999999887652100 000                               01122334455556


Q ss_pred             HhcCC-----------------HHHHHHHHhcCCC---------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-
Q 044628          410 SKCGS-----------------IAGALQCFGSVKE---------PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVR-  462 (665)
Q Consensus       410 ~~~g~-----------------~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-  462 (665)
                      ...|+                 +++|.+.|++..+         .....|..+...|...|++++|++.|++..+.... 
T Consensus       177 ~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  256 (411)
T 4a1s_A          177 HAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREF  256 (411)
T ss_dssp             HHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhc
Confidence            66666                 6666665554431         12346777888888899999999988887763111 


Q ss_pred             CC----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC-CC----
Q 044628          463 PD----SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM-PI----  529 (665)
Q Consensus       463 p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~----  529 (665)
                      ++    ..++..+...+...|++++|.+.++.......-..+    ...+..+..+|.+.|++++|.+.+++. .+    
T Consensus       257 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  336 (411)
T 4a1s_A          257 GDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQEL  336 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHC
Confidence            12    126777888899999999999999888763211111    467788889999999999999999887 11    


Q ss_pred             --CC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          530 --EP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       530 --~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                        .+ ...++..+...+...|+.++|...+++++++.+.
T Consensus       337 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  375 (411)
T 4a1s_A          337 GDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXX  375 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCH
T ss_pred             CChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhh
Confidence              11 1346777888899999999999999999988765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.34  E-value=2.8e-10  Score=112.66  Aligned_cols=185  Identities=11%  Similarity=0.026  Sum_probs=125.1

Q ss_pred             HhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-Chh-HHHHHHHHHHhcCChHHHHHHHHHH
Q 044628          381 CETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE--P-DLV-TWTSIIGAYAFHGLSKESIEVFEKM  456 (665)
Q Consensus       381 ~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m  456 (665)
                      ++|..+++..++.-.+.+...+..++..+.+.|++++|..+|++..+  | +.. .|..++..+.+.|+.++|..+|++.
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  160 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            55555555555421223445666777777777888888888877653  3 333 6888888888888888888888888


Q ss_pred             HHcCCCCCHHHHHHHHHHH-hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-C---CCC
Q 044628          457 LSHAVRPDSIAFLEVLSAC-SHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-P---IEP  531 (665)
Q Consensus       457 ~~~g~~p~~~t~~~ll~a~-~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~p  531 (665)
                      .+.. +++...|....... ...|++++|.++|+...+.  .+-+...|..+++.+.+.|++++|..+|+++ .   +.|
T Consensus       161 ~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p  237 (308)
T 2ond_A          161 REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCH
Confidence            7753 22334444333322 2368888888888888763  2335677778888888888888888888877 2   344


Q ss_pred             C--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044628          532 R--SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       532 ~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                      +  ...|..++......|+.+.|..+++++++..|+++.
T Consensus       238 ~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~~~~  276 (308)
T 2ond_A          238 EKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYE  276 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTS
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccccc
Confidence            3  557777777778888888888888888888887553

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.33  E-value=2.2e-11  Score=121.87  Aligned_cols=236  Identities=16%  Similarity=0.064  Sum_probs=145.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCC---------CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCC-CCCHHHHH
Q 044628          299 LVATSLVDMYAKNGNIDDACRVFDGMTA---------KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSF-CPDEVTLA  368 (665)
Q Consensus       299 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~  368 (665)
                      .++..+...|...|++++|.+.|++..+         ....+|..+...|...|++++|+..|++...... .++...  
T Consensus        44 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~--  121 (338)
T 3ro2_A           44 AIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVG--  121 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH--
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchH--
Confidence            3445555556666666666665554321         1234566777778888888888888777654210 011110  


Q ss_pred             HHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC--------------------HHHHHHHHhcCCC-
Q 044628          369 SILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGS--------------------IAGALQCFGSVKE-  427 (665)
Q Consensus       369 ~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~--------------------~~~A~~~~~~~~~-  427 (665)
                                                   ...++..+...|...|+                    +++|.+.+++..+ 
T Consensus       122 -----------------------------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~  172 (338)
T 3ro2_A          122 -----------------------------EARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSL  172 (338)
T ss_dssp             -----------------------------HHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------------------HHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence                                         01122333444444444                    4555544443321 


Q ss_pred             --------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 044628          428 --------PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV-RPD----SIAFLEVLSACSHGGLVSEGLRYFNLMISD  494 (665)
Q Consensus       428 --------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  494 (665)
                              .....+..+...|...|++++|.+.+++..+... .++    ..++..+...+...|++++|.++++.....
T Consensus       173 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  252 (338)
T 3ro2_A          173 VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLL  252 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                    1133566777778888888888888887765310 111    126677777888888999998888887652


Q ss_pred             cCCCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC-CC---CCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          495 YHILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM-PI---EPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       495 ~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~---~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      ..-.++    ...+..+...|...|++++|.+.++++ ..   .++    ..++..+...+...|++++|...+++++++
T Consensus       253 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          253 ARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            211122    456778888899999999999988876 11   111    446777888899999999999999999988


Q ss_pred             CCC
Q 044628          563 EPS  565 (665)
Q Consensus       563 ~p~  565 (665)
                      .+.
T Consensus       333 ~~~  335 (338)
T 3ro2_A          333 SRE  335 (338)
T ss_dssp             ---
T ss_pred             HHh
Confidence            765

>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=99.32  E-value=4.1e-09  Score=114.17  Aligned_cols=413  Identities=9%  Similarity=0.013  Sum_probs=281.5

Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCC---CCchhHHHHHHHHHhcCC---chHHHHHHHHHH
Q 044628          182 RRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLC---RDLVLWNVMVSCYALNCL---GDGAIAVFNLMR  255 (665)
Q Consensus       182 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~  255 (665)
                      ...++..++.. +-|...|..++..+.+.+.++.++.+|+++..   .....|...+..-.+.|.   .+.+..+|++..
T Consensus        52 i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal  130 (679)
T 4e6h_A           52 IGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCL  130 (679)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHH
Confidence            33445555554 45899999999999999999999999998843   356678888888888898   999999999998


Q ss_pred             HCC-CCCCHhhHHHHHHHHhccCCc--------HHHHHHHHHHHHh-CC-CC-chhHHHHHHHHHHh---------cCCH
Q 044628          256 LEG-MKGDYFTFSSLVNSCGTLGSS--------KLGRQIHGLVIKQ-SF-DL-DVLVATSLVDMYAK---------NGNI  314 (665)
Q Consensus       256 ~~g-~~p~~~t~~~ll~~~~~~~~~--------~~a~~~~~~~~~~-g~-~~-~~~~~~~li~~~~~---------~g~~  314 (665)
                      ... ..|+...|..-+.-....++.        +...++|+.++.. |. .+ +...|...+.....         .+++
T Consensus       131 ~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~  210 (679)
T 4e6h_A          131 SKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRV  210 (679)
T ss_dssp             CSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHH
T ss_pred             HhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHH
Confidence            764 237777777666655444443        3445778777653 65 45 34688888876543         3457


Q ss_pred             HHHHHHHhccCC-CC--c-hhH---HHHHHHHH----------cCCChHHHHHHHHHHhh--CCCC--------------
Q 044628          315 DDACRVFDGMTA-KN--V-VSW---NTMVVGFG----------QNGDGREAVKLLRDMLQ--GSFC--------------  361 (665)
Q Consensus       315 ~~A~~~~~~~~~-~~--~-~~~---~~li~~~~----------~~g~~~~A~~~~~~m~~--~g~~--------------  361 (665)
                      +.+..+|++... |.  . .+|   ..+...+.          ...+++.|...+.++..  .++.              
T Consensus       211 ~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~  290 (679)
T 4e6h_A          211 QYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESN  290 (679)
T ss_dssp             HHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTT
T ss_pred             HHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhcc
Confidence            889999998875 21  1 223   22222210          01123445555554321  1111              


Q ss_pred             -C-----C---HHHHHHHHHHhCCCC-------chHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH-HHHhc
Q 044628          362 -P-----D---EVTLASILSSCGSLS-------ISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGAL-QCFGS  424 (665)
Q Consensus       362 -p-----~---~~t~~~ll~~~~~~~-------~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~-~~~~~  424 (665)
                       |     +   ...|...+.---..+       ..+....+|+..+.. ++....+|-..+..+.+.|+.++|. ++|++
T Consensus       291 ~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~r  369 (679)
T 4e6h_A          291 LPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKL  369 (679)
T ss_dssp             SCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHH
T ss_pred             CCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence             1     0   012222222211111       123345667776664 3446677777888888899999996 99988


Q ss_pred             CCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---------CCC------------HHHHHHHHHHHhcCCc
Q 044628          425 VKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV---------RPD------------SIAFLEVLSACSHGGL  480 (665)
Q Consensus       425 ~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---------~p~------------~~t~~~ll~a~~~~g~  480 (665)
                      ...   .+...|-..+...-..|++++|.++|++++....         .|+            ...|...+....+.|.
T Consensus       370 Ai~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~  449 (679)
T 4e6h_A          370 GQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQG  449 (679)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCC
Confidence            753   4666788888899999999999999999987410         142            2357777777778899


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-ChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 044628          481 VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVG-LLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKWAAE  557 (665)
Q Consensus       481 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  557 (665)
                      .+.|..+|..+.+.. -.+....|...+.+-.+.| +.+.|.++|+..  ...-+...|...+......|+.+.|+.+|+
T Consensus       450 l~~AR~vf~~A~~~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lfe  528 (679)
T 4e6h_A          450 LAASRKIFGKCRRLK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFE  528 (679)
T ss_dssp             HHHHHHHHHHHHHTG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            999999999998731 1123445555555555655 489999999988  222356678888888888999999999999


Q ss_pred             HHHhcCCC---CCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          558 KLLELEPS---KPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       558 ~~~~~~p~---~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ++++..|+   ....|..+...-.+.|+.+.+.++.+++.+.-
T Consensus       529 ral~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          529 SSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             HHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99998883   44667788888889999999999999997543

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.31  E-value=5.1e-11  Score=107.77  Aligned_cols=160  Identities=15%  Similarity=-0.006  Sum_probs=95.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 044628          434 TSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR  513 (665)
Q Consensus       434 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  513 (665)
                      ..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|.++++.+.+.  .+.+...+..+...+..
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           12 RDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHH
Confidence            334444444444444444444444321 112334444444555555555555555555441  12234555555666666


Q ss_pred             cCChHHHHHHHHhC-CCC-CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHH
Q 044628          514 VGLLVEAYDLLASM-PIE-PRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       514 ~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~  591 (665)
                      .|++++|.+.++++ ... .+...|..+...+...|++++|...++++++..|+++..+..++.+|...|++++|.+.++
T Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  168 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFK  168 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            66666666666655 222 2455666777777777888888888888888888777778888888888888888888877


Q ss_pred             HHhhC
Q 044628          592 MMRDN  596 (665)
Q Consensus       592 ~m~~~  596 (665)
                      +..+.
T Consensus       169 ~~~~~  173 (186)
T 3as5_A          169 KANEL  173 (186)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            76543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.30  E-value=1.7e-10  Score=118.33  Aligned_cols=228  Identities=11%  Similarity=0.009  Sum_probs=118.4

Q ss_pred             HHHHHHhcCCHHHHHHHHhccCC-----C----CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCC-CCHHHHHHHHHH
Q 044628          304 LVDMYAKNGNIDDACRVFDGMTA-----K----NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFC-PDEVTLASILSS  373 (665)
Q Consensus       304 li~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~~  373 (665)
                      ....+...|++++|...|++..+     +    ...+|..+...|...|++++|+..+.+....-.. ++..        
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~--------  180 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYN--------  180 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTH--------
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccch--------
Confidence            44556667777777777766533     1    1245666667777777777777776665431000 0000        


Q ss_pred             hCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----hhHHHHHHHHHHhcC
Q 044628          374 CGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----PD----LVTWTSIIGAYAFHG  444 (665)
Q Consensus       374 ~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g  444 (665)
                                            .....+++.+...|...|++++|...|++..+     .+    ..++..+...|...|
T Consensus       181 ----------------------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g  238 (383)
T 3ulq_A          181 ----------------------IRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQS  238 (383)
T ss_dssp             ----------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             ----------------------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCC
Confidence                                  00122345556666666666666666655431     11    135666666677777


Q ss_pred             ChHHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCC
Q 044628          445 LSKESIEVFEKMLSH----AVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD---SEHYTCLTDLLGRVGL  516 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~----g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~  516 (665)
                      ++++|++.|++..+.    +..|+. .++..+...+...|++++|.+.+++..+...-..+   ...+..+...+...|+
T Consensus       239 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~  318 (383)
T 3ulq_A          239 QYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPD  318 (383)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCC
T ss_pred             CHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence            777777777666651    221322 35666666666667777776666665542111111   1123444455555555


Q ss_pred             ---hHHHHHHHHhCCCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044628          517 ---LVEAYDLLASMPIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLE  561 (665)
Q Consensus       517 ---~~~A~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  561 (665)
                         +++|++++++.+..|+ ...+..+...+...|++++|...++++++
T Consensus       319 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          319 EEAIQGFFDFLESKMLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               5555555555533222 22333344444444555555554444443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.29  E-value=4.1e-12  Score=125.95  Aligned_cols=239  Identities=15%  Similarity=0.122  Sum_probs=133.0

Q ss_pred             chhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHH
Q 044628          329 VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINA  408 (665)
Q Consensus       329 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~  408 (665)
                      ..+|..+...|...|++++|+.+|+++......                            ......+....++..+...
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~----------------------------~~~~~~~~~~~~~~~la~~   78 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEK----------------------------TSGHDHPDVATMLNILALV   78 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH----------------------------HHCSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH----------------------------HcCCCCHHHHHHHHHHHHH
Confidence            456788888888899999999888887652000                            0000001112223344445


Q ss_pred             HHhcCCHHHHHHHHhcCCC-----------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCCCH-HHHHH
Q 044628          409 YSKCGSIAGALQCFGSVKE-----------PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH------AVRPDS-IAFLE  470 (665)
Q Consensus       409 ~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~-~t~~~  470 (665)
                      |...|++++|...|++..+           .....|..+...|...|++++|.+.|+++.+.      +-.|+. ..+..
T Consensus        79 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~  158 (311)
T 3nf1_A           79 YRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNN  158 (311)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHH
Confidence            5555555555555544321           12345566666667777777777777766653      222322 35666


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhc-----CCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-C---------CCCC-h
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDY-----HILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-P---------IEPR-S  533 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~-----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---------~~p~-~  533 (665)
                      +...+...|++++|+++|+.+.+..     +..| ....+..+..+|.+.|++++|.+.++++ .         ..+. .
T Consensus       159 la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  238 (311)
T 3nf1_A          159 LALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENK  238 (311)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------C
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchH
Confidence            6677777777777777777776521     1112 2445667777777777777777777665 1         1111 1


Q ss_pred             hHHHH------HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          534 DTLGA------FIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       534 ~~~~~------ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ..|..      +...+...+.+.++...++++.+..|..+.++..++.+|.+.|++++|.+.+++..+
T Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          239 PIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             CHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            12222      222233444555666677777777788788888899999999999999988887754

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.28  E-value=8.2e-11  Score=110.87  Aligned_cols=164  Identities=10%  Similarity=-0.065  Sum_probs=83.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHH
Q 044628          430 LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLT  508 (665)
Q Consensus       430 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~  508 (665)
                      ...|......+...|++++|++.|++..+....++...+..+..++...|++++|++.|+...+   ..| +...|..+.
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~l~   83 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK---KNYNLANAYIGKS   83 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---TTCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH---hCcchHHHHHHHH
Confidence            3444444445555555555555555555443223444444444455555555555555555544   122 234444555


Q ss_pred             HHHHhcCChHHHHHHHHhC-CCCCC-h-------hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCchHHHHHHHH
Q 044628          509 DLLGRVGLLVEAYDLLASM-PIEPR-S-------DTLGAFIGACKVHGSIGLAKWAAEKLLELEPS--KPVNYALVSNVY  577 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~-~~~p~-~-------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~y  577 (665)
                      .+|.+.|++++|++.+++. ...|+ .       ..|..+...+...|++++|+..++++++++|+  ++.++..++.+|
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~  163 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLF  163 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHH
Confidence            5555555555555555544 22222 2       23444444445555555555555555555555  555555555555


Q ss_pred             HhcCCH---------------------------HHHHHHHHHHhhC
Q 044628          578 ASERCW---------------------------FDVARLRKMMRDN  596 (665)
Q Consensus       578 ~~~g~~---------------------------~~A~~~~~~m~~~  596 (665)
                      ...|+.                           ++|...+++..+.
T Consensus       164 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          164 YNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            555544                           8888888877754

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.27  E-value=3.7e-10  Score=111.79  Aligned_cols=212  Identities=8%  Similarity=-0.016  Sum_probs=162.9

Q ss_pred             hHHHHHHHHHHhCCCCchhHHHHHHHHHH-------hcCCH-------HHHHHHHhcCCC----CChhHHHHHHHHHHhc
Q 044628          382 ETRQVHAYAIKNGVQAFLSIENALINAYS-------KCGSI-------AGALQCFGSVKE----PDLVTWTSIIGAYAFH  443 (665)
Q Consensus       382 ~a~~i~~~~~~~g~~~~~~~~~~li~~~~-------~~g~~-------~~A~~~~~~~~~----~~~~~~~~li~~~~~~  443 (665)
                      .|..+++.+++.. +.+..+|..++..+.       +.|++       ++|..+|++..+    .+...|..++..+...
T Consensus        34 ~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~  112 (308)
T 2ond_A           34 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            3444444444432 234444555555544       45776       899999997653    3556899999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCH-H-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH-hcCChHHH
Q 044628          444 GLSKESIEVFEKMLSHAVRPDS-I-AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLG-RVGLLVEA  520 (665)
Q Consensus       444 g~~~~A~~~~~~m~~~g~~p~~-~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~~~A  520 (665)
                      |++++|.++|++..+.  .|+. . .|..+...+.+.|++++|..+|++..+.  .+++...|...+.... ..|++++|
T Consensus       113 ~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          113 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             CCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999984  6653 3 7888889999999999999999999872  2344555554444432 37999999


Q ss_pred             HHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCC-CCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          521 YDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLEL---EPS-KPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       521 ~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~p~-~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      .++|+++ ...| +...|..++..+...|+.++|+.+++++++.   .|+ ....|..++..+.+.|++++|..+++++.
T Consensus       189 ~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          189 FKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999988 3334 5778999999999999999999999999995   553 56788899999999999999999999988


Q ss_pred             hCCC
Q 044628          595 DNCD  598 (665)
Q Consensus       595 ~~~~  598 (665)
                      +...
T Consensus       269 ~~~p  272 (308)
T 2ond_A          269 TAFR  272 (308)
T ss_dssp             HHTT
T ss_pred             HHcc
Confidence            6544

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.26  E-value=6.3e-11  Score=124.85  Aligned_cols=178  Identities=11%  Similarity=-0.020  Sum_probs=156.8

Q ss_pred             HHHHHHHHhcCC---CCChhHHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHH
Q 044628          415 IAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLS-KESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFN  489 (665)
Q Consensus       415 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~  489 (665)
                      +++|...+++..   ..+...|..+...|...|++ ++|++.|++..+.  .|+ ...+..+..++...|++++|++.|+
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL--EPELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            455566665543   35778899999999999999 9999999999986  554 6789999999999999999999999


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHhc---------CChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhc--------CCHH
Q 044628          490 LMISDYHILPDSEHYTCLTDLLGRV---------GLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVH--------GSIG  550 (665)
Q Consensus       490 ~~~~~~~~~p~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~--------g~~~  550 (665)
                      ...+   +.|+...+..+..+|...         |++++|++.++++ ...| +...|..+..++...        |+++
T Consensus       162 ~al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            9987   568888899999999999         9999999999998 4555 477899999999888        9999


Q ss_pred             HHHHHHHHHHhcCC---CCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          551 LAKWAAEKLLELEP---SKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       551 ~a~~~~~~~~~~~p---~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +|+..++++++++|   +++.+|..++.+|...|++++|.+.+++..+..
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999   899999999999999999999999999987654

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.25  E-value=2.6e-10  Score=103.02  Aligned_cols=168  Identities=15%  Similarity=0.026  Sum_probs=144.5

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS  476 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  476 (665)
                      ..+..+...|...|++++|...|+++.+   .+...|..+...+...|++++|.+.++++.+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            4456678889999999999999999874   467789999999999999999999999999863 335678888889999


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHH
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKW  554 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~  554 (665)
                      ..|++++|.++++.+.+.  .+.+...+..+..++.+.|++++|.+.++++ ...| +...|..+...+...|+.++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999873  3456788899999999999999999999988 3334 56788889999999999999999


Q ss_pred             HHHHHHhcCCCCCchH
Q 044628          555 AAEKLLELEPSKPVNY  570 (665)
Q Consensus       555 ~~~~~~~~~p~~~~~~  570 (665)
                      .++++++..|+++...
T Consensus       166 ~~~~~~~~~~~~~~~~  181 (186)
T 3as5_A          166 HFKKANELDEGASVEL  181 (186)
T ss_dssp             HHHHHHHHHHCCCGGG
T ss_pred             HHHHHHHcCCCchhhH
Confidence            9999999999876543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.25  E-value=4.6e-11  Score=122.53  Aligned_cols=195  Identities=11%  Similarity=0.020  Sum_probs=146.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC-----hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCH---
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVKE-----PD-----LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV-RPDS---  465 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~---  465 (665)
                      .++..+...|...|++++|...+++..+     ++     ..+++.+...|...|++++|++.|++..+... .++.   
T Consensus       144 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  223 (383)
T 3ulq_A          144 EFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLM  223 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHH
Confidence            3456667777788888887777766542     21     35788889999999999999999999886311 1222   


Q ss_pred             -HHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CC-CCChhhHHHHHHHHHhcCChHHHHHHHHhC-CC-----CCC-h
Q 044628          466 -IAFLEVLSACSHGGLVSEGLRYFNLMISDY---HI-LPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PI-----EPR-S  533 (665)
Q Consensus       466 -~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-----~p~-~  533 (665)
                       .++..+...+...|++++|++.|++..+..   +. +....++..+...|.+.|++++|.+.+++. .+     .|. .
T Consensus       224 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  303 (383)
T 3ulq_A          224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYL  303 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence             378888899999999999999999987621   22 223567889999999999999999999887 11     222 2


Q ss_pred             hHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          534 DTLGAFIGACKVHGS---IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ..+..+...+...|+   .++|...+++. ...|.....+..++.+|...|++++|...+++..+
T Consensus       304 ~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          304 SEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            234556677778888   77777777776 33344556788999999999999999999998865

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.25  E-value=1.2e-11  Score=122.52  Aligned_cols=236  Identities=14%  Similarity=0.086  Sum_probs=148.1

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhccCC--------C---CchhHHHHHHHHHcCCChHHHHHHHHHHhhC------
Q 044628          296 LDVLVATSLVDMYAKNGNIDDACRVFDGMTA--------K---NVVSWNTMVVGFGQNGDGREAVKLLRDMLQG------  358 (665)
Q Consensus       296 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------  358 (665)
                      .+..++..+...|...|++++|..+|+++.+        .   ...+|..+...|...|++++|+..|++....      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            3567789999999999999999999988754        1   2356788888999999999999999887653      


Q ss_pred             CCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----------
Q 044628          359 SFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----------  427 (665)
Q Consensus       359 g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----------  427 (665)
                      +-.|.                                  ...++..+...|...|++++|...|++..+           
T Consensus       105 ~~~~~----------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  150 (311)
T 3nf1_A          105 KDHPA----------------------------------VAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHP  150 (311)
T ss_dssp             TTCHH----------------------------------HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             CCChH----------------------------------HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCCh
Confidence            11111                                  122233444445555555555555444321           


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhc-----
Q 044628          428 PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH------AVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDY-----  495 (665)
Q Consensus       428 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----  495 (665)
                      .....|..+...|...|++++|++.|+++.+.      +-.|+. .++..+...+...|++++|.++++.+.+..     
T Consensus       151 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  230 (311)
T 3nf1_A          151 DVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREF  230 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence            12345666777777778888888887777663      223322 356777777888888888888888776521     


Q ss_pred             -CCCCCh-------hhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          496 -HILPDS-------EHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       496 -~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                       ...+..       ..+..+...+...+.+.+|...++.. ...| +..+|..+..++...|++++|...+++++++.|+
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          231 GSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             C------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             CCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence             111211       12223333445566677777777776 3344 3667888899999999999999999999998775

>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=99.24  E-value=3.5e-10  Score=106.54  Aligned_cols=204  Identities=12%  Similarity=0.037  Sum_probs=114.9

Q ss_pred             CHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHH
Q 044628          363 DEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGA  439 (665)
Q Consensus       363 ~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  439 (665)
                      |...+...-..+...|++++|...+...++....++...+..+...|.+.|++++|...|++..+   .+...|..+...
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   85 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAA   85 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHH
Confidence            33445555555566666666666666666655434444444466666666666666666665442   234455666666


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCC-H-------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHH
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRPD-S-------IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD---SEHYTCLT  508 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p~-~-------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~  508 (665)
                      |...|++++|++.|++..+.  .|+ .       ..+..+...+...|++++|++.|+.+.+   +.|+   ...|..+.
T Consensus        86 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHH
Confidence            66666666666666666654  332 2       2344455555566666666666666654   2343   34455555


Q ss_pred             HHHHhcCChHHHHHHHHhC-CC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          509 DLLGRVGLLVEAYDLLASM-PI-EPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      .+|...|+.     .++++ .+ ..+...+....  ....+.+++|+..++++++++|+++.+...+..+..
T Consensus       161 ~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          161 VLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            555444432     11221 00 11122222221  223445699999999999999999888887777653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.22  E-value=3.2e-09  Score=108.18  Aligned_cols=195  Identities=11%  Similarity=-0.067  Sum_probs=131.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC-------C----ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--C--CHH
Q 044628          402 ENALINAYSKCGSIAGALQCFGSVKE-------P----DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVR--P--DSI  466 (665)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~  466 (665)
                      ...+...|...|++++|...+++...       +    ....+..+...+...|++++|...+++.......  +  ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            34556667777777777777765531       1    1234556777788888888888888887764221  1  124


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHH-----HHHHHHHhcCChHHHHHHHHhC-CCCCC-----hhH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYT-----CLTDLLGRVGLLVEAYDLLASM-PIEPR-----SDT  535 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~  535 (665)
                      ++..+...+...|++++|...++.......-......+.     ..+..+...|++++|.+.+++. ...|.     ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            566677778888999999998888765211111111222     2334477889999999999887 22221     224


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKLLELEPSK------PVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +..+...+...|+.++|...++++++..+..      ...+..++.+|...|++++|...+++....
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            5666778888899999999999887654321      236677888999999999999988877643

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.17  E-value=3.5e-10  Score=115.64  Aligned_cols=194  Identities=13%  Similarity=0.056  Sum_probs=123.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCC-----C-----ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----H
Q 044628          401 IENALINAYSKCGSIAGALQCFGSVKE-----P-----DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV-RPD----S  465 (665)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~~~~-----~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~  465 (665)
                      ++..+...|...|+++.|...+++..+     +     ...+++.+...|...|++++|++.|++..+..- .++    .
T Consensus       143 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  222 (378)
T 3q15_A          143 FHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIA  222 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            445566666667776666666555431     1     134566777778888888888888877765210 111    1


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCCChhhHHHHHHHHHhcCChHHHHHHHHhC----CC--CCC-hhH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDY---HILPDSEHYTCLTDLLGRVGLLVEAYDLLASM----PI--EPR-SDT  535 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~--~p~-~~~  535 (665)
                      .++..+...+...|++++|++.|++.....   +.+....++..+..+|.+.|++++|.+.+++.    ..  .|. ...
T Consensus       223 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  302 (378)
T 3q15_A          223 ISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKEL  302 (378)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            356667777888888888888888776511   12223566777788888888888888888776    11  222 223


Q ss_pred             HHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          536 LGAFIGACKVHGS---IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       536 ~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      +..+...+...++   .++|...+++. ...|.....+..++.+|...|++++|...+++..+
T Consensus       303 ~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          303 FLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4444445556666   66666666652 22233345677888899999999999888877753

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.14  E-value=8.2e-09  Score=105.40  Aligned_cols=224  Identities=9%  Similarity=0.030  Sum_probs=151.0

Q ss_pred             HHHcCCChHHHHHHHHHHhhCCC-CCC----HHHHHHHHHHhCCCCchHhHHHHHHHHHHhC--C---C-CchhHHHHHH
Q 044628          338 GFGQNGDGREAVKLLRDMLQGSF-CPD----EVTLASILSSCGSLSISCETRQVHAYAIKNG--V---Q-AFLSIENALI  406 (665)
Q Consensus       338 ~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g--~---~-~~~~~~~~li  406 (665)
                      .+...|++++|+..|++....-. .++    ..++..+-..+...|+++.|...+....+..  .   . ....+++.+.
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            34455555555555555543210 111    1233344444555555555555555443321  0   1 1234566778


Q ss_pred             HHHHhcCCHHHHHHHHhcCCC-----CC----hhHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCC-HHHHHHH
Q 044628          407 NAYSKCGSIAGALQCFGSVKE-----PD----LVTWTSIIGAYAFHGLSKESIEVFEKMLS-----HAVRPD-SIAFLEV  471 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~-~~t~~~l  471 (665)
                      ..|...|++++|.+.|++..+     .+    ..+++.+...|...|++++|++.|++..+     .  .|+ ..++..+
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~--~~~~~~~~~~l  267 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKV--PDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHC--GGGHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhC--ChhHHHHHHHH
Confidence            888888888888888876542     22    34677888899999999999999999887     3  233 4578888


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCC---hHHHHHHHHhCCCCCC-hhHHHHHHHHHH
Q 044628          472 LSACSHGGLVSEGLRYFNLMISDYHILPD---SEHYTCLTDLLGRVGL---LVEAYDLLASMPIEPR-SDTLGAFIGACK  544 (665)
Q Consensus       472 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~-~~~~~~ll~~~~  544 (665)
                      ...+.+.|++++|.+++++..+...-..+   ...+..+...+...|+   +++|++.+++.+..|+ ...+..+...+.
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHH
Confidence            88999999999999999998874322222   3345666677778888   9999999999755454 345667778899


Q ss_pred             hcCCHHHHHHHHHHHHhcC
Q 044628          545 VHGSIGLAKWAAEKLLELE  563 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~  563 (665)
                      ..|+.++|...++++++..
T Consensus       348 ~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHH
Confidence            9999999999999987643

>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=99.10  E-value=8.2e-10  Score=107.36  Aligned_cols=221  Identities=13%  Similarity=0.081  Sum_probs=156.3

Q ss_pred             CCCCchHhHHHHHHHHHHh-------CCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----------CChhHHHHH
Q 044628          375 GSLSISCETRQVHAYAIKN-------GVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----------PDLVTWTSI  436 (665)
Q Consensus       375 ~~~~~~~~a~~i~~~~~~~-------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~l  436 (665)
                      ...|+++.|...+....+.       ..+....++..+...|...|++++|...|++..+           ....+|..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4678888888888876552       2233567788899999999999999999887652           234578888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc-----CCCC-Chhh
Q 044628          437 IGAYAFHGLSKESIEVFEKMLSH------AVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDY-----HILP-DSEH  503 (665)
Q Consensus       437 i~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~~~p-~~~~  503 (665)
                      ...|...|++++|++.|++..+.      .-.|+ ..++..+...+...|++++|.++|+++.+..     +..| ....
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998874      11233 3578888889999999999999999987731     1122 3567


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-C---------CCCC-hhHHHHHHHHHHhcCC------HHHHHHHHHHHHhcCCCC
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASM-P---------IEPR-SDTLGAFIGACKVHGS------IGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~-~---------~~p~-~~~~~~ll~~~~~~g~------~~~a~~~~~~~~~~~p~~  566 (665)
                      +..+..+|.+.|++++|++.++++ .         ..+. ...|..+.......+.      +..+...++.+....|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            888899999999999999999876 1         2333 3344444433333222      333344444444445666


Q ss_pred             CchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          567 PVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       567 ~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      +..+..++.+|...|++++|...+++..+
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            67889999999999999999999998764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.09  E-value=4.5e-09  Score=101.15  Aligned_cols=84  Identities=10%  Similarity=-0.008  Sum_probs=68.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhc----------CCHHHHHHHHHHHhhCCCccCCc
Q 044628          537 GAFIGACKVHGSIGLAKWAAEKLLELEPSKP---VNYALVSNVYASE----------RCWFDVARLRKMMRDNCDHKVPG  603 (665)
Q Consensus       537 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~----------g~~~~A~~~~~~m~~~~~~~~~~  603 (665)
                      ..+...+...|+++.|+..++++++..|+++   .++..++.+|...          |++++|...++++.+..      
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~------  225 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF------  225 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC------
Confidence            5567788999999999999999999999854   5788999999977          99999999999987643      


Q ss_pred             eeEEEECCEEEEEEeCCCCCcchHHHHHHHHHHHHHHHhh
Q 044628          604 CSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLMEEN  643 (665)
Q Consensus       604 ~s~i~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~  643 (665)
                                       ..+|...+....+.++...+++.
T Consensus       226 -----------------p~~~~~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          226 -----------------PDSPLLRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             -----------------TTCTHHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------CCChHHHHHHHHHHHHHHHHHHh
Confidence                             23566677777777777766543

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.07  E-value=6.2e-10  Score=122.11  Aligned_cols=163  Identities=15%  Similarity=0.158  Sum_probs=143.7

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLS  473 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  473 (665)
                      +...++.|...|.+.|++++|.+.|++..+   .+...|+.+...|.+.|++++|++.|++.++.  .|+ ...+..+..
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 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            456788899999999999999999998763   56789999999999999999999999999985  665 468999999


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHH
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIG  550 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~  550 (665)
                      ++...|++++|++.|++..+   +.| +...|..+..+|.+.|++++|++.|+++ .+.|+ ...|..+..++...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~---l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQ---INPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            99999999999999999987   345 5788999999999999999999999998 66675 678999999999999999


Q ss_pred             HHHHHHHHHHhcCCC
Q 044628          551 LAKWAAEKLLELEPS  565 (665)
Q Consensus       551 ~a~~~~~~~~~~~p~  565 (665)
                      +|++.+++++++.|+
T Consensus       163 ~A~~~~~kal~l~~~  177 (723)
T 4gyw_A          163 DYDERMKKLVSIVAD  177 (723)
T ss_dssp             THHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChh
Confidence            999999999876543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.05  E-value=2.4e-09  Score=105.06  Aligned_cols=201  Identities=10%  Similarity=-0.006  Sum_probs=147.1

Q ss_pred             chHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----hhHHHHHHHHHHhcCChHHH
Q 044628          379 ISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----PD----LVTWTSIIGAYAFHGLSKES  449 (665)
Q Consensus       379 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A  449 (665)
                      ++++|...+...               ...|...|++++|...|.+..+     .+    ..+|+.+...|...|++++|
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               3467888999999988876642     12    46888999999999999999


Q ss_pred             HHHHHHHHHcCCC-CC----HHHHHHHHHHHhcC-CcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCChHH
Q 044628          450 IEVFEKMLSHAVR-PD----SIAFLEVLSACSHG-GLVSEGLRYFNLMISDYHILPD----SEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       450 ~~~~~~m~~~g~~-p~----~~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~  519 (665)
                      +..|++..+.... .+    ..++..+...|... |++++|++.|++..+...-..+    ..++..+...|.+.|++++
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            9999988763111 11    24788888899996 9999999999998863211111    3568889999999999999


Q ss_pred             HHHHHHhC-CCCCChh--------HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch-----HHHHHHHHH--hcCCH
Q 044628          520 AYDLLASM-PIEPRSD--------TLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN-----YALVSNVYA--SERCW  583 (665)
Q Consensus       520 A~~~~~~~-~~~p~~~--------~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~y~--~~g~~  583 (665)
                      |++.|++. ...|+..        .|..+..++...|+++.|+..++++++++|+....     +..++..|.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            99999988 3333311        46677778889999999999999999999986543     344566665  45789


Q ss_pred             HHHHHHHHHHh
Q 044628          584 FDVARLRKMMR  594 (665)
Q Consensus       584 ~~A~~~~~~m~  594 (665)
                      ++|...++++.
T Consensus       257 ~~A~~~~~~~~  267 (292)
T 1qqe_A          257 SEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHTTSS
T ss_pred             HHHHHHhccCC
Confidence            99888886554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.04  E-value=1.5e-08  Score=94.94  Aligned_cols=178  Identities=12%  Similarity=0.078  Sum_probs=105.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC--CC----hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH----HHHHH
Q 044628          402 ENALINAYSKCGSIAGALQCFGSVKE--PD----LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI----AFLEV  471 (665)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~l  471 (665)
                      +..+...+.+.|++++|...|+++.+  |+    ...+..+..+|.+.|++++|++.|+++.+.  .|+..    .+..+
T Consensus         7 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            7 IYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHH
Confidence            33445556666777777766666542  22    234555666666667777777777666664  23221    23233


Q ss_pred             HHHHhc------------------CCcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCChHHHHHHHHhCCCCCC
Q 044628          472 LSACSH------------------GGLVSEGLRYFNLMISDYHILPDS-EHYTCLTDLLGRVGLLVEAYDLLASMPIEPR  532 (665)
Q Consensus       472 l~a~~~------------------~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~  532 (665)
                      ..++..                  .|+.++|+..|+.+.+.   .|+. ..+.....+    +......           
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l----~~~~~~~-----------  146 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRL----VFLKDRL-----------  146 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHH----HHHHHHH-----------
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHH----HHHHHHH-----------
Confidence            333322                  34445555555554441   1221 111111000    0000000           


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP---VNYALVSNVYASERCWFDVARLRKMMRDNCDH  599 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~  599 (665)
                      ......+...+...|+++.|+..++++++..|+++   .++..++.+|.+.|++++|.+.++.+...+.+
T Consensus       147 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          147 AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence            00112445667889999999999999999999975   56889999999999999999999999887654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.04  E-value=4.8e-09  Score=102.85  Aligned_cols=242  Identities=9%  Similarity=-0.049  Sum_probs=151.7

Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhc--C-CHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhh
Q 044628          281 LGRQIHGLVIKQSFDLDVLVATSLVDMYAKN--G-NIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQ  357 (665)
Q Consensus       281 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~--g-~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  357 (665)
                      +|.+++.+..+.- ++....+     .|.+.  + ++++|...|++.           ...|...|++++|+..|.+...
T Consensus         3 ~a~~~~~~a~k~~-~~~~~~~-----~~~~~~~~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~   65 (292)
T 1qqe_A            3 DPVELLKRAEKKG-VPSSGFM-----KLFSGSDSYKFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAAD   65 (292)
T ss_dssp             CHHHHHHHHHHHS-SCCCTHH-----HHHSCCSHHHHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHh-CcCCCcc-----hhcCCCCCccHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHH
Confidence            4566666666652 3222222     12233  2 477887776554           6677788888888888877654


Q ss_pred             CCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC--
Q 044628          358 GSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQA-FLSIENALINAYSKCGSIAGALQCFGSVKE-----PD--  429 (665)
Q Consensus       358 ~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~--  429 (665)
                      ....                               .|-.+ ...+++.+..+|.+.|++++|...|++..+     .+  
T Consensus        66 ~~~~-------------------------------~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~  114 (292)
T 1qqe_A           66 YQKK-------------------------------AGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFR  114 (292)
T ss_dssp             HHHH-------------------------------TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHH-------------------------------hCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            2100                               00000 122344555556666666666655554432     11  


Q ss_pred             --hhHHHHHHHHHHhc-CChHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh
Q 044628          430 --LVTWTSIIGAYAFH-GLSKESIEVFEKMLSHAVR-PD----SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDS  501 (665)
Q Consensus       430 --~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~-p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~  501 (665)
                        ..+|+.+...|... |++++|++.|++..+.... .+    ..++..+...+...|++++|+..|+...+...-.+..
T Consensus       115 ~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~  194 (292)
T 1qqe_A          115 RGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLS  194 (292)
T ss_dssp             HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTT
T ss_pred             HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcc
Confidence              34677888888886 9999999999988774111 11    2467788888999999999999999988732111121


Q ss_pred             -----hhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChh------HHHHHHHHHH--hcCCHHHHHHHHHHHHhcCCCCC
Q 044628          502 -----EHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSD------TLGAFIGACK--VHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       502 -----~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~------~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                           ..|..+..++...|++++|+..+++. .+.|+..      .+..++.++.  ..+++++|+..++++.+++|...
T Consensus       195 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~  274 (292)
T 1qqe_A          195 QWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKI  274 (292)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHH
T ss_pred             cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHH
Confidence                 14677788899999999999999988 5555422      2444555554  35678999999988888888654


Q ss_pred             chH
Q 044628          568 VNY  570 (665)
Q Consensus       568 ~~~  570 (665)
                      ..+
T Consensus       275 ~~~  277 (292)
T 1qqe_A          275 TIL  277 (292)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.02  E-value=5.8e-08  Score=98.83  Aligned_cols=50  Identities=20%  Similarity=0.272  Sum_probs=24.7

Q ss_pred             HHHhcCCHHHHHHHHhcCCCCC-------hhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 044628          408 AYSKCGSIAGALQCFGSVKEPD-------LVTWTSIIGAYAFHGLSKESIEVFEKML  457 (665)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~  457 (665)
                      .+...|++++|...+++...++       ...+..+...+...|++++|...+++..
T Consensus       224 ~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~  280 (373)
T 1hz4_A          224 YWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELN  280 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445566666666655554311       1123444445555555555555555543

>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=99.00  E-value=6e-09  Score=88.21  Aligned_cols=123  Identities=16%  Similarity=0.149  Sum_probs=70.2

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCH
Q 044628          472 LSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSI  549 (665)
Q Consensus       472 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~  549 (665)
                      ...+...|++++|..+++.+.+.  .+.+...+..+...+...|++++|.+.++++ ...| +...|..+...+...|++
T Consensus         8 ~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   85 (136)
T 2fo7_A            8 GNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDY   85 (136)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCH
Confidence            33344444444444444444331  1123334444445555555555555555544 1122 344566666666777777


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          550 GLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       550 ~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ++|...++++++..|.++..+..++.+|...|++++|...++++...
T Consensus        86 ~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           86 DEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            77777777777777777777777777777777777777777766543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.99  E-value=6.2e-08  Score=93.19  Aligned_cols=174  Identities=14%  Similarity=0.049  Sum_probs=99.7

Q ss_pred             HHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          418 ALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       418 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                      |...|++..   .++..++..+..++...|++++|++++.+.+..|..++. ..+..++..+.+.|+++.|.+.++.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            444455443   234444455666666667777777777666554322222 3555566666677777777777776654


Q ss_pred             hcCCCC-----ChhhHHHHHHH--HHhcC--ChHHHHHHHHhC-CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhc-
Q 044628          494 DYHILP-----DSEHYTCLTDL--LGRVG--LLVEAYDLLASM-PIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLEL-  562 (665)
Q Consensus       494 ~~~~~p-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-  562 (665)
                         ..|     +..+...|+.+  ....|  ++++|..+|+++ ...|+..+-..++.++...|++++|+..++.+.+. 
T Consensus       165 ---~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 ---AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             ---HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             ---cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence               344     23333444433  22223  677777777776 33344223333344666677777777777766654 


Q ss_pred             ---------CCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          563 ---------EPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       563 ---------~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                               +|+++.++..++.+....|+  +|.+++.++...
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence                     36666666666666666665  667777776654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.99  E-value=2.8e-10  Score=99.14  Aligned_cols=139  Identities=12%  Similarity=0.017  Sum_probs=99.3

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCC
Q 044628          439 AYAFHGLSKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGL  516 (665)
Q Consensus       439 ~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  516 (665)
                      .+...|++++|++.+++....  .|+. ..+..+...|.+.|++++|++.|++..+   +.| +...|..+..+|.+.|+
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN---VQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCc
Confidence            344556677777777666542  3332 3455666677777777777777777776   234 46677777788888888


Q ss_pred             hHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHH-HHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          517 LVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWA-AEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       517 ~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~-~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      +++|+..|++. .+.|+ ...|..+...+...|+.++|.+. ++++++++|+++.+|...+.++...|+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            88888887777 55564 66788888888888887665554 588999999999999888888888875

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.99  E-value=5.6e-09  Score=100.48  Aligned_cols=186  Identities=16%  Similarity=0.071  Sum_probs=139.4

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-C---hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC-HHHHH
Q 044628          398 FLSIENALINAYSKCGSIAGALQCFGSVKE--P-D---LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV-RPD-SIAFL  469 (665)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~t~~  469 (665)
                      +...+-.+...+.+.|++++|...|+++.+  | +   ...|..+..+|.+.|++++|+..|++..+... .|+ ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            344555667778889999999999998763  3 3   56788888899999999999999999998622 122 24566


Q ss_pred             HHHHHHhc--------CCcHHHHHHHHHHHHHhcCCCCC-hhhH-----------------HHHHHHHHhcCChHHHHHH
Q 044628          470 EVLSACSH--------GGLVSEGLRYFNLMISDYHILPD-SEHY-----------------TCLTDLLGRVGLLVEAYDL  523 (665)
Q Consensus       470 ~ll~a~~~--------~g~~~~a~~~~~~~~~~~~~~p~-~~~~-----------------~~l~~~~~~~g~~~~A~~~  523 (665)
                      .+..++..        .|++++|+..|+.+.+.+   |+ ....                 ..+...|.+.|++++|+..
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY---PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC---TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHC---cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            67777777        899999999999998742   43 2333                 4568889999999999999


Q ss_pred             HHhC-CCCCC----hhHHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCCc---hHHHHHHHHHhcCCHHH
Q 044628          524 LASM-PIEPR----SDTLGAFIGACKVH----------GSIGLAKWAAEKLLELEPSKPV---NYALVSNVYASERCWFD  585 (665)
Q Consensus       524 ~~~~-~~~p~----~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~y~~~g~~~~  585 (665)
                      |+++ ...|+    ...+..+..++...          |++++|+..++++++..|+++.   ++..+..++.+.|++++
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHHHHhhh
Confidence            9988 33343    34666777777765          8999999999999999999853   44566666666665554


Q ss_pred             H
Q 044628          586 V  586 (665)
Q Consensus       586 A  586 (665)
                      +
T Consensus       251 ~  251 (261)
T 3qky_A          251 D  251 (261)
T ss_dssp             C
T ss_pred             h
Confidence            3

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.97  E-value=1.4e-09  Score=119.85  Aligned_cols=143  Identities=9%  Similarity=-0.066  Sum_probs=63.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHH
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLT  508 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~  508 (665)
                      ..|..+...|...|++++|++.|++..+.  .| +...+..+..++...|++++|++.|+++.+   +.| +...|..+.
T Consensus       434 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---l~P~~~~~~~~lg  508 (681)
T 2pzi_A          434 ELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAELLTGDYDSATKHFTEVLD---TFPGELAPKLALA  508 (681)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HSTTCSHHHHHHH
T ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCChHHHHHHH
Confidence            34444444444444444444444444442  22 223344444444444444444444444443   122 233444444


Q ss_pred             HHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 044628          509 DLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  579 (665)
                      .+|.+.|++++ ++.|+++ ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|..
T Consensus       509 ~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          509 ATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC-
T ss_pred             HHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHc
Confidence            44444444444 4444444 2223 233444444444444444444444444444444444444444444433

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.97  E-value=1.6e-08  Score=85.47  Aligned_cols=131  Identities=21%  Similarity=0.253  Sum_probs=102.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLL  511 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  511 (665)
                      .|..+...+...|++++|.++|+++.+.+ ..+...+..+...+...|++++|..+++.+.+.  .+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            56777778888888888888888887753 234566777777888888888888888888762  234566777888888


Q ss_pred             HhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          512 GRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       512 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      .+.|++++|.+.++++ ...| +...|..+...+...|+.++|...++++++.+|+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            8888888888888877 3333 4667888888888999999999999999888886

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.96  E-value=1.3e-08  Score=99.43  Aligned_cols=174  Identities=6%  Similarity=-0.137  Sum_probs=140.7

Q ss_pred             HHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 044628          416 AGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISD  494 (665)
Q Consensus       416 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  494 (665)
                      +.....+......+...+..+...+...|++++|...|++..+.  .|+ ...+..+...+...|++++|.+.++.+.. 
T Consensus       103 ~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~-  179 (287)
T 3qou_A          103 EAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPL-  179 (287)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG-
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCch-
Confidence            34444455544455667777888899999999999999999986  564 46788888999999999999999999876 


Q ss_pred             cCCCCChhhHHHHH-HHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--Cch
Q 044628          495 YHILPDSEHYTCLT-DLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK--PVN  569 (665)
Q Consensus       495 ~~~~p~~~~~~~l~-~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~  569 (665)
                        ..|+........ ..+.+.|+.++|++.+++. ...| +...+..+...+...|+.++|+..++++++.+|++  ..+
T Consensus       180 --~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a  257 (287)
T 3qou_A          180 --QDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQT  257 (287)
T ss_dssp             --GGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHH
T ss_pred             --hhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchH
Confidence              356654333333 3367788889999998887 4455 47788899999999999999999999999999997  889


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          570 YALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       570 ~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      +..++.+|...|+.++|...+++..
T Consensus       258 ~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          258 RXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            9999999999999999998877653

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.93  E-value=2.3e-08  Score=96.98  Aligned_cols=164  Identities=12%  Similarity=0.049  Sum_probs=100.7

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC-----------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCC
Q 044628          400 SIENALINAYSKCGSIAGALQCFGSVKE-----------PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH------AVR  462 (665)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~  462 (665)
                      .++..+...|...|++++|...|++..+           .....|..+...|...|++++|++.|+++.+.      +-.
T Consensus        86 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  165 (283)
T 3edt_B           86 ATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDD  165 (283)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC
Confidence            3445556666666666666666655431           12346777777888888888888888887764      113


Q ss_pred             CC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc------CCCCC-hhhHHHHHHHHHhc------CChHHHHHHHHhCC
Q 044628          463 PD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDY------HILPD-SEHYTCLTDLLGRV------GLLVEAYDLLASMP  528 (665)
Q Consensus       463 p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~------~~~p~-~~~~~~l~~~~~~~------g~~~~A~~~~~~~~  528 (665)
                      |+ ..++..+...+...|++++|.++++.+.+..      ...+. ...|..+...+...      ..+.++...++...
T Consensus       166 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (283)
T 3edt_B          166 PNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACK  245 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCC
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcC
Confidence            32 3467778888888899999999888887521      11222 33344444444332      33455555555553


Q ss_pred             -CCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044628          529 -IEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELE  563 (665)
Q Consensus       529 -~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  563 (665)
                       ..|+ ..++..+...+...|++++|...++++++..
T Consensus       246 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          246 VDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence             3343 5567888899999999999999999998753

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.91  E-value=1.3e-09  Score=95.02  Aligned_cols=122  Identities=8%  Similarity=-0.072  Sum_probs=102.9

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcC
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHG  547 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g  547 (665)
                      |...+...|++++|++.++....   ..| +...+..+..+|.+.|++++|++.|++. .+.| +..+|..+...+...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            44556778899999999998865   334 3556778899999999999999999998 5666 5778999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHH-HHHHhh
Q 044628          548 SIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARL-RKMMRD  595 (665)
Q Consensus       548 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~-~~~m~~  595 (665)
                      ++++|+..++++++++|+++.++..++.+|.+.|++++|.+. +++..+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987776 476654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.90  E-value=1.3e-07  Score=90.84  Aligned_cols=240  Identities=10%  Similarity=0.021  Sum_probs=163.4

Q ss_pred             HHhcCCHHHHHHHHhccCCCCc-hhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHH
Q 044628          308 YAKNGNIDDACRVFDGMTAKNV-VSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQV  386 (665)
Q Consensus       308 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i  386 (665)
                      ..-.|.+..++.-...+...+. ..-.-+.++|...|++...         ..-.|....+..+...+. .+    +...
T Consensus        23 ~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~~-~~----a~~~   88 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFLD-TK----NIEE   88 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHHT-TT----CCHH
T ss_pred             HHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHhc-cc----HHHH
Confidence            3456777777775555543222 2223345777777776531         122344434443333332 22    4555


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 044628          387 HAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-----PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV  461 (665)
Q Consensus       387 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  461 (665)
                      ++...+.+ .++......+...|...|++++|++++.+...     .+...+..++..+.+.|+.+.|.+.+++|.+.  
T Consensus        89 l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--  165 (310)
T 3mv2_B           89 LENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--  165 (310)
T ss_dssp             HHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--
Confidence            55555444 33444445788899999999999999998743     35567788899999999999999999999885  


Q ss_pred             CC-----CHHHHHHHHHH--Hh--cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CC--
Q 044628          462 RP-----DSIAFLEVLSA--CS--HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PI--  529 (665)
Q Consensus       462 ~p-----~~~t~~~ll~a--~~--~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~--  529 (665)
                      .|     +..+...+..+  ..  ..++..+|..+|+++...   .|+...-..+..++.+.|++++|.+.++.+ ..  
T Consensus       166 ~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p  242 (310)
T 3mv2_B          166 IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYY  242 (310)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHH
T ss_pred             CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            67     35666666655  22  234899999999999763   355334444555899999999999999865 21  


Q ss_pred             --------CC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 044628          530 --------EP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       530 --------~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  569 (665)
                              .| |+.+...++......|+  .|.++++++.+..|+++.+
T Consensus       243 ~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i  289 (310)
T 3mv2_B          243 SVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFI  289 (310)
T ss_dssp             HTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHH
T ss_pred             cccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHH
Confidence                    25 46666677767777787  8899999999999998654

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.90  E-value=8.1e-09  Score=92.63  Aligned_cols=155  Identities=8%  Similarity=-0.039  Sum_probs=97.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HH
Q 044628          435 SIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDL-LG  512 (665)
Q Consensus       435 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~  512 (665)
                      .+...+...|++++|+..|++..+.  .|+ ...+..+...+...|++++|+..|+.+..   ..|+...+..+... +.
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~---~~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDE--LQSRGDVKLAKADCLLETKQFELAQELLATIPL---EYQDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHH--HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG---GGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh---ccCChHHHHHHHHHHHH
Confidence            3444455555555555555555443  332 23455555555556666666666655544   12322222221111 11


Q ss_pred             hcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--CchHHHHHHHHHhcCCHHHHHH
Q 044628          513 RVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK--PVNYALVSNVYASERCWFDVAR  588 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~y~~~g~~~~A~~  588 (665)
                      +.+...+|++.+++. ...| +...+..+...+...|++++|+..++++++.+|+.  +.++..++.+|...|+.++|..
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            222233456666665 4455 46778888888999999999999999999999875  5588899999999999999999


Q ss_pred             HHHHHh
Q 044628          589 LRKMMR  594 (665)
Q Consensus       589 ~~~~m~  594 (665)
                      .+++..
T Consensus       166 ~y~~al  171 (176)
T 2r5s_A          166 KYRRQL  171 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887664

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.90  E-value=1e-07  Score=88.35  Aligned_cols=172  Identities=8%  Similarity=-0.119  Sum_probs=136.4

Q ss_pred             HHHHHhcCC-CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC----cHHHHHHHHHHHH
Q 044628          418 ALQCFGSVK-EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGG----LVSEGLRYFNLMI  492 (665)
Q Consensus       418 A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g----~~~~a~~~~~~~~  492 (665)
                      |.+.|++.. ..+...+..+...|...+++++|++.|++..+.|   +...+..+...|.. +    +.++|.++|+...
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            344444433 3567778888888888899999999999988865   55666677777777 6    8999999999987


Q ss_pred             HhcCCCCChhhHHHHHHHHHh----cCChHHHHHHHHhC-CCCCC---hhHHHHHHHHHHh----cCCHHHHHHHHHHHH
Q 044628          493 SDYHILPDSEHYTCLTDLLGR----VGLLVEAYDLLASM-PIEPR---SDTLGAFIGACKV----HGSIGLAKWAAEKLL  560 (665)
Q Consensus       493 ~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~~----~g~~~~a~~~~~~~~  560 (665)
                      +    .-+...+..|..+|..    .+++++|+++|++. ...|.   ...+..|...+..    .++.++|+..++++.
T Consensus        81 ~----~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 E----AGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             H----TTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             H----CCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            6    2356777888888877    88999999999988 44443   6778888888887    789999999999999


Q ss_pred             hcCCCCCchHHHHHHHHHhc-C-----CHHHHHHHHHHHhhCCC
Q 044628          561 ELEPSKPVNYALVSNVYASE-R-----CWFDVARLRKMMRDNCD  598 (665)
Q Consensus       561 ~~~p~~~~~~~~l~~~y~~~-g-----~~~~A~~~~~~m~~~~~  598 (665)
                      +. |.++.++..|+.+|... |     ++++|...+++..+.|.
T Consensus       157 ~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          157 SL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             Hc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            98 66678999999999865 3     89999999999887663

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.87  E-value=1e-08  Score=88.82  Aligned_cols=101  Identities=7%  Similarity=-0.058  Sum_probs=89.1

Q ss_pred             CCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          497 ILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       497 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      +.| +...+..+...+.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|+++.+|..+
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~l  110 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHT  110 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHH
Confidence            344 3557778888899999999999999988 5556 577899999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          574 SNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       574 ~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +.+|...|++++|...+++..+..
T Consensus       111 g~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          111 GQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999999987654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.85  E-value=5.9e-08  Score=95.75  Aligned_cols=220  Identities=13%  Similarity=-0.037  Sum_probs=150.0

Q ss_pred             CCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 044628          342 NGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQC  421 (665)
Q Consensus       342 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  421 (665)
                      .|++++|.+++++..+... ..         .+...++++.|...+..+               ...|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            4566777777776654211 10         011145666666665543               3466777888888777


Q ss_pred             HhcCCC-----CC----hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HHHHHHHHHHHhcCCcHHHHHHH
Q 044628          422 FGSVKE-----PD----LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV---RPD--SIAFLEVLSACSHGGLVSEGLRY  487 (665)
Q Consensus       422 ~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~t~~~ll~a~~~~g~~~~a~~~  487 (665)
                      |.+..+     .+    ..+|+.+...|...|++++|+..|++..+.-.   .|.  ..++..+...|.. |++++|++.
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~  137 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHL  137 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            776542     11    34778888899999999999999998776311   122  2467778888888 999999999


Q ss_pred             HHHHHHhcCCCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC-CC---CCC----hhHHHHHHHHHHhcCCHHHHHHH
Q 044628          488 FNLMISDYHILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM-PI---EPR----SDTLGAFIGACKVHGSIGLAKWA  555 (665)
Q Consensus       488 ~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~---~p~----~~~~~~ll~~~~~~g~~~~a~~~  555 (665)
                      |++....+.-..+    ..++..+..+|.+.|++++|++.|++. .+   .++    ...+..+...+...|++++|+..
T Consensus       138 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~  217 (307)
T 2ifu_A          138 YQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKC  217 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9988763211111    467888899999999999999999987 21   111    22556666677788999999999


Q ss_pred             HHHHHhcCCCCCch-----HHHHHHHHHhcCCHHHHHHH
Q 044628          556 AEKLLELEPSKPVN-----YALVSNVYASERCWFDVARL  589 (665)
Q Consensus       556 ~~~~~~~~p~~~~~-----~~~l~~~y~~~g~~~~A~~~  589 (665)
                      +++++ ++|.....     ...++..| ..|+.+.+.++
T Consensus       218 ~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          218 VRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            99999 99975433     33455555 56777666654

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.84  E-value=3.2e-08  Score=107.06  Aligned_cols=159  Identities=11%  Similarity=0.030  Sum_probs=125.7

Q ss_pred             cCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHH
Q 044628          412 CGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRY  487 (665)
Q Consensus       412 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~  487 (665)
                      .|++++|.+.|++..+   .+...|..+...|...|++++|++.|++..+.  .| +...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4789999999998874   45788999999999999999999999999985  55 456888899999999999999999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhc---CCHHHHHHHHHHHHhc
Q 044628          488 FNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVH---GSIGLAKWAAEKLLEL  562 (665)
Q Consensus       488 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~  562 (665)
                      |++..+.  .+.+...+..+..+|.+.|++++|++.+++. ...| +...+..+...+...   |+.++|...++++++.
T Consensus        80 ~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9999873  2335788999999999999999999999998 4455 467888888999999   9999999999999999


Q ss_pred             CCCCCchHHHHH
Q 044628          563 EPSKPVNYALVS  574 (665)
Q Consensus       563 ~p~~~~~~~~l~  574 (665)
                      +|++...+..++
T Consensus       158 ~p~~~~~~~~l~  169 (568)
T 2vsy_A          158 GVGAVEPFAFLS  169 (568)
T ss_dssp             TCCCSCHHHHTT
T ss_pred             CCcccChHHHhC
Confidence            999988888776

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.81  E-value=6.1e-08  Score=89.54  Aligned_cols=153  Identities=11%  Similarity=0.027  Sum_probs=112.9

Q ss_pred             HHHHhcCCHHHHHHHHhcCCC--C-ChhHHHH----------------HHHHHHhcCChHHHHHHHHHHHHcCCCC-CHH
Q 044628          407 NAYSKCGSIAGALQCFGSVKE--P-DLVTWTS----------------IIGAYAFHGLSKESIEVFEKMLSHAVRP-DSI  466 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~----------------li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~  466 (665)
                      ..+.+.|++++|...|++..+  | +...|..                +...|...|++++|+..|++..+.  .| +..
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~   89 (208)
T 3urz_A           12 SAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--APNNVD   89 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHH
Confidence            345566666666666666543  2 2334444                888899999999999999999986  55 456


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCC--hHHHHHHHHhCCCCCC--hhHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGL--LVEAYDLLASMPIEPR--SDTLGAFIG  541 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~p~--~~~~~~ll~  541 (665)
                      .+..+..++...|++++|++.|+++.+   +.| +...|..+..+|...|.  .+++...++.. ..|+  ...|..+..
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~a~~~~g~  165 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQ---LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKL-SSPTKMQYARYRDGL  165 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHH-hCCCchhHHHHHHHH
Confidence            788888999999999999999999987   345 57788888888876654  44566667666 2333  334455556


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          542 ACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       542 ~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      ++...|++++|+..+++++++.|+
T Consensus       166 ~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          166 SKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC
Confidence            677789999999999999999997

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.80  E-value=2.6e-08  Score=83.59  Aligned_cols=108  Identities=14%  Similarity=0.029  Sum_probs=68.5

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  544 (665)
                      .+......+.+.|++++|++.|++.++.  -+.+...|..+..+|.+.|++++|++.+++. .+.| +...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            4555566666666666666666666651  2234556666666666666666666666665 3344 3556666666777


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALVSNV  576 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  576 (665)
                      ..|++++|+..++++++++|+++.++..|+++
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            77777777777777777777776666665544

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.80  E-value=8.6e-08  Score=105.60  Aligned_cols=191  Identities=16%  Similarity=0.058  Sum_probs=148.5

Q ss_pred             CCCCchHhHHHHHHHHHH-------hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcC
Q 044628          375 GSLSISCETRQVHAYAIK-------NGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHG  444 (665)
Q Consensus       375 ~~~~~~~~a~~i~~~~~~-------~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g  444 (665)
                      ...|++++|.+.++.+.+       ...+.+...+..+...|.+.|++++|.+.|++..+   .+...|..+..+|...|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g  481 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTG  481 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHT
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcC
Confidence            667777777777777761       12244566778888999999999999999998873   57789999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHH
Q 044628          445 LSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYD  522 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~  522 (665)
                      ++++|++.|++..+.  .| +...+..+..++...|++++ ++.|+++.+   +.| +...|..+..+|.+.|++++|++
T Consensus       482 ~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          482 DYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWS---TNDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             CHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHH---hCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999986  56 45778889999999999999 999999987   344 57789999999999999999999


Q ss_pred             HHHhC-CCCCC-hhHHHHHHHHHHhcCC-----HHHHHHHHHHHHhcCCCCCchHH
Q 044628          523 LLASM-PIEPR-SDTLGAFIGACKVHGS-----IGLAKWAAEKLLELEPSKPVNYA  571 (665)
Q Consensus       523 ~~~~~-~~~p~-~~~~~~ll~~~~~~g~-----~~~a~~~~~~~~~~~p~~~~~~~  571 (665)
                      .|+++ ...|+ ...|..+..++...++     .+...++.+.+.++.++++....
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~~~~  611 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPRVLQ  611 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTTHHH
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHHHHH
Confidence            99999 67786 5567777777655554     34555555555566665555443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.79  E-value=7e-08  Score=104.32  Aligned_cols=145  Identities=8%  Similarity=-0.091  Sum_probs=81.9

Q ss_pred             CchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHH
Q 044628          378 SISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFE  454 (665)
Q Consensus       378 ~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~  454 (665)
                      |++++|...++.+.+.. +.+...+..+...|.+.|++++|.+.|++..+   .+...|..+...|...|++++|.+.|+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            55666666666665543 23455666666677777777777777766542   345566666677777777777777777


Q ss_pred             HHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc---CChHHHHHHHHhC
Q 044628          455 KMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRV---GLLVEAYDLLASM  527 (665)
Q Consensus       455 ~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~  527 (665)
                      +..+.  .| +...+..+..++...|++++|.+.|++..+.  .+.+...+..+..++...   |+.++|.+.+++.
T Consensus        82 ~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           82 QASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            76664  33 3456666666677777777777777776652  122455666666677666   7777777776666

>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=98.77  E-value=2.8e-08  Score=86.12  Aligned_cols=97  Identities=9%  Similarity=-0.016  Sum_probs=84.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVY  577 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  577 (665)
                      +...+..+...+.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            4556777888889999999999999887 4455 5778888888999999999999999999999999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHhhC
Q 044628          578 ASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       578 ~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...|++++|.+.+++..+.
T Consensus       100 ~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999988754

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.76  E-value=4.1e-08  Score=96.92  Aligned_cols=196  Identities=11%  Similarity=-0.045  Sum_probs=149.3

Q ss_pred             CCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 044628          377 LSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKM  456 (665)
Q Consensus       377 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  456 (665)
                      .|++++|.++++...+.... .         .+...+++++|...|.+           ....|...|++++|.+.|.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~a   62 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQE   62 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHH
Confidence            56788888888877654221 0         12115788888887765           366788999999999999988


Q ss_pred             HHcCC---CCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC--C--ChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          457 LSHAV---RPD--SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHIL--P--DSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       457 ~~~g~---~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~--p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      .+...   .+.  ..+|..+...|...|++++|++.|++..+.+.-.  +  ...++..+..+|.+ |++++|++.+++.
T Consensus        63 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~A  141 (307)
T 2ifu_A           63 AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQA  141 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            76321   111  2478888889999999999999999887632111  1  14578888899988 9999999999887


Q ss_pred             -CCCC---C----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC------chHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          528 -PIEP---R----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP------VNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       528 -~~~p---~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                       .+.|   +    ..++..+...+...|++++|+..+++++++.|++.      ..+..++.+|...|++++|...+++.
T Consensus       142 l~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          142 AAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence             2111   1    45678888999999999999999999999876643      26677888999999999999999988


Q ss_pred             h
Q 044628          594 R  594 (665)
Q Consensus       594 ~  594 (665)
                      .
T Consensus       222 l  222 (307)
T 2ifu_A          222 Y  222 (307)
T ss_dssp             T
T ss_pred             h
Confidence            7

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.76  E-value=4.2e-08  Score=82.27  Aligned_cols=100  Identities=11%  Similarity=0.017  Sum_probs=89.9

Q ss_pred             CCCC-hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          497 ILPD-SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       497 ~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      +.|+ ...+......|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|+++.+|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            4454 456778899999999999999999998 5556 577899999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhC
Q 044628          574 SNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       574 ~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +.+|...|++++|.+.+++..+.
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999999988764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.75  E-value=2.1e-07  Score=87.10  Aligned_cols=184  Identities=11%  Similarity=-0.039  Sum_probs=131.6

Q ss_pred             HHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCC--chhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CCh----hHHHHH
Q 044628          365 VTLASILSSCGSLSISCETRQVHAYAIKNGVQA--FLSIENALINAYSKCGSIAGALQCFGSVKE--PDL----VTWTSI  436 (665)
Q Consensus       365 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~----~~~~~l  436 (665)
                      ..+......+...|++++|...+..+++.....  ....+..+...|.+.|++++|...|+++.+  |+.    ..+..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            344455566788899999999999998865332  235677889999999999999999998763  332    145555


Q ss_pred             HHHHHh------------------cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC
Q 044628          437 IGAYAF------------------HGLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGLVSEGLRYFNLMISDYHI  497 (665)
Q Consensus       437 i~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  497 (665)
                      ..++..                  .|+.++|+..|+++++.  .|+.. .......          ...+...+.     
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~~-----  147 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRLA-----  147 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHHH-----
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHHH-----
Confidence            555554                  57899999999999985  56543 2211110          001111111     


Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 044628          498 LPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       498 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  569 (665)
                          .....+...|.+.|++++|+..|+++ ...|+    ...+..+..++...|+.++|+..++++....|++..+
T Consensus       148 ----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          148 ----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             ----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             ----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence                12235678899999999999999988 33444    2467888899999999999999999999999987654

>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=98.74  E-value=1.4e-07  Score=87.36  Aligned_cols=127  Identities=11%  Similarity=-0.112  Sum_probs=63.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 044628          433 WTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLG  512 (665)
Q Consensus       433 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  512 (665)
                      +..+...+...|++++|++.|++.    +.|+...+..+..++...|++++|++.|+...+.  .+.+...|..+..+|.
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHH
Confidence            344445555556666666555544    2445555555555555555555555555555541  1223444555555555


Q ss_pred             hcCChHHHHHHHHhC-CCCCC-----------------hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          513 RVGLLVEAYDLLASM-PIEPR-----------------SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~-~~~p~-----------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      +.|++++|++.+++. ...|+                 ...|..+..++...|++++|...+++++++.|+
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            555555555555544 11111                 134444444555555555555555555555543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.73  E-value=7.8e-08  Score=88.79  Aligned_cols=160  Identities=7%  Similarity=-0.026  Sum_probs=123.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHH----------------HHHHHhcCCcHHHHHHHHHHHHHh
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-IAFLE----------------VLSACSHGGLVSEGLRYFNLMISD  494 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~----------------ll~a~~~~g~~~~a~~~~~~~~~~  494 (665)
                      .+-.....+...|++++|+..|++..+.  .|+. ..+..                +..++...|++++|+..|+...+ 
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~-   82 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ-   82 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-
Confidence            3444556778999999999999999985  5654 45666                78889999999999999999987 


Q ss_pred             cCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCC--HHHHHHHHHHHHhcCCCCCch
Q 044628          495 YHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGS--IGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       495 ~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~--~~~a~~~~~~~~~~~p~~~~~  569 (665)
                        +.| +...+..+..+|...|++++|++.|++. .+.|+ ...|..+...+...|+  .+.+...++++....|. ...
T Consensus        83 --~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a  159 (208)
T 3urz_A           83 --KAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKM-QYA  159 (208)
T ss_dssp             --HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHH-HHH
T ss_pred             --HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCch-hHH
Confidence              345 6788999999999999999999999998 55664 6678888877765543  45566666666544433 234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          570 YALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       570 ~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +..++..+...|++++|...+++..+..
T Consensus       160 ~~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          160 RYRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            5677888999999999999999987654

>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=98.70  E-value=1.7e-06  Score=84.51  Aligned_cols=161  Identities=9%  Similarity=-0.055  Sum_probs=121.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHH
Q 044628          435 SIIGAYAFHGLSKESIEVFEKMLSHAV-RPDSI----AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD----SEHYT  505 (665)
Q Consensus       435 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~  505 (665)
                      ..+..+...|++++|.+++++..+... .|+..    .+..+...+...|++++|++.|+.+.....-.++    ...++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346678889999999999999887421 22221    2334666777888999999999999872222223    23688


Q ss_pred             HHHHHHHhcCChHHHHHHHHhC-----C--CC-CC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CchH
Q 044628          506 CLTDLLGRVGLLVEAYDLLASM-----P--IE-PR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK------PVNY  570 (665)
Q Consensus       506 ~l~~~~~~~g~~~~A~~~~~~~-----~--~~-p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~  570 (665)
                      .+...|...|++++|++.++++     .  .. +. ..++..+...|...|++++|+..+++++++.+..      +..|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            8999999999999999998887     1  11 12 3467888899999999999999999999865443      5678


Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHhh
Q 044628          571 ALVSNVYASERC-WFDVARLRKMMRD  595 (665)
Q Consensus       571 ~~l~~~y~~~g~-~~~A~~~~~~m~~  595 (665)
                      ..++.+|.+.|+ +++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            899999999995 6999999887753

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.70  E-value=1.4e-06  Score=84.67  Aligned_cols=179  Identities=12%  Similarity=0.145  Sum_probs=92.7

Q ss_pred             CHHHHHHHHhcCC---CCChhHHHHHHHHH----Hhc---CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHH-
Q 044628          414 SIAGALQCFGSVK---EPDLVTWTSIIGAY----AFH---GLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVS-  482 (665)
Q Consensus       414 ~~~~A~~~~~~~~---~~~~~~~~~li~~~----~~~---g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~-  482 (665)
                      +++++++.++.+.   ..+...|+.-...+    ...   +++++++++++++.+.. .-|..++..-.-.+.+.|.++ 
T Consensus        84 ~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~  162 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHND  162 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTC
T ss_pred             cHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccCh
Confidence            4555555555443   13444444433333    333   45566666666666542 223345544444444555555 


Q ss_pred             -HHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC------hHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCC-HHHH
Q 044628          483 -EGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL------LVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGS-IGLA  552 (665)
Q Consensus       483 -~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~------~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~-~~~a  552 (665)
                       +++++++.+.+.  -.-|-..|+.-..++.+.|+      ++++++.++++ ...| |...|+-+...+...|+ .+..
T Consensus       163 ~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~  240 (306)
T 3dra_A          163 AKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQL  240 (306)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGG
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHH
Confidence             566666666552  12244445444444544444      56666665555 3333 45556655555555554 3334


Q ss_pred             HHHHHHHHhcC---CCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          553 KWAAEKLLELE---PSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       553 ~~~~~~~~~~~---p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ...++++++++   |.++.++..++++|.+.|+.++|.++++.+.+
T Consensus       241 ~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          241 EEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            44555555554   55556666666666666666666666666653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.70  E-value=1.2e-07  Score=92.53  Aligned_cols=132  Identities=8%  Similarity=-0.080  Sum_probs=112.1

Q ss_pred             CCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHH
Q 044628          463 PDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAF  539 (665)
Q Consensus       463 p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l  539 (665)
                      |+. ..+..+...+...|++++|.+.|+++.+   ..| +...+..+..+|.+.|++++|.+.++++ ...|+.......
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQ---LSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHH
Confidence            444 5677778889999999999999999987   345 5778899999999999999999999999 556765544433


Q ss_pred             H-HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          540 I-GACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       540 l-~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      . ..+...++.+.|+..++++++.+|+++.++..++.+|...|++++|...++++....
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~  249 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXD  249 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc
Confidence            3 336677888889999999999999999999999999999999999999999998654

>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=98.69  E-value=8.1e-07  Score=82.06  Aligned_cols=129  Identities=12%  Similarity=0.079  Sum_probs=111.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcH
Q 044628          402 ENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLV  481 (665)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  481 (665)
                      +..+...+.+.|++++|...|++..+++...|..+...|...|++++|++.|++..+.. ..+...+..+..++...|++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            34566788899999999999999998899999999999999999999999999999863 33556888899999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCh----------------hhHHHHHHHHHhcCChHHHHHHHHhC-CCCCCh
Q 044628          482 SEGLRYFNLMISDYHILPDS----------------EHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRS  533 (665)
Q Consensus       482 ~~a~~~~~~~~~~~~~~p~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~  533 (665)
                      ++|++.|+...+.  .+.+.                ..+..+..+|.+.|++++|.+.++++ ...|+.
T Consensus        88 ~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           88 DLAIKDLKEALIQ--LRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHHHHHHHHT--TTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHh--CCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            9999999999872  22222                67889999999999999999999998 666764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.69  E-value=9e-06  Score=85.36  Aligned_cols=201  Identities=9%  Similarity=-0.037  Sum_probs=111.6

Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH-HHHHhcC
Q 044628          347 EAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGA-LQCFGSV  425 (665)
Q Consensus       347 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A-~~~~~~~  425 (665)
                      .+..+|+++.... +-+...|...+.-+.+.|+.+.|..++...++.  +.+...+.    .|+...+.++. ..+.+..
T Consensus       197 Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~~~~l~~~~  269 (493)
T 2uy1_A          197 RMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAVYGDLKRKY  269 (493)
T ss_dssp             HHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHHHHHHHHHH
Confidence            4556777766542 233445555555556677777888888777776  33333332    22222111111 1111111


Q ss_pred             C------------CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH--HHHHHhcCCcHHHHHHHHHHH
Q 044628          426 K------------EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLE--VLSACSHGGLVSEGLRYFNLM  491 (665)
Q Consensus       426 ~------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~--ll~a~~~~g~~~~a~~~~~~~  491 (665)
                      .            ......|-..+..+.+.++.+.|..+|++. +.. ..+...|..  .+... ..++.+.|..+|+..
T Consensus       270 ~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~-~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          270 SMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYY-ATGSRATPYNIFSSG  346 (493)
T ss_dssp             C----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHH-HHCCSHHHHHHHHHH
T ss_pred             HhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHH-HCCChHHHHHHHHHH
Confidence            0            011234666666666667777888888777 321 123333322  22221 123577788888877


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044628          492 ISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLE  561 (665)
Q Consensus       492 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  561 (665)
                      .+.++  -+...+...++...+.|+.+.|..+|+++.  .....|...+..-..+|+.+.+..++++.++
T Consensus       347 l~~~~--~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          347 LLKHP--DSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            76432  234455666777777788888888888762  2456677777766777777777777776653

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.69  E-value=1.5e-07  Score=84.16  Aligned_cols=155  Identities=13%  Similarity=0.028  Sum_probs=119.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-Hhc
Q 044628          402 ENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA-CSH  477 (665)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~  477 (665)
                      ...+...+.+.|++++|...|++..+   .+...|..+...+...|++++|+..|++....  .|+......+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHh
Confidence            34566778889999999999999884   56778999999999999999999999998765  3444332222111 122


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC---hhHHHHHHHHHHhcCCHHHH
Q 044628          478 GGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR---SDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~~~g~~~~a  552 (665)
                      .+...+|++.++...+   ..| +...+..+..++.+.|++++|++.++++ ...|+   ...+..+...+...|+.++|
T Consensus        87 ~~~~~~a~~~~~~al~---~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           87 QAAESPELKRLEQELA---ANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHTSCHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hcccchHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            2223357888888876   345 5788899999999999999999999988 55654   55888899999999999999


Q ss_pred             HHHHHHHHh
Q 044628          553 KWAAEKLLE  561 (665)
Q Consensus       553 ~~~~~~~~~  561 (665)
                      ...+++.+.
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988764

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.67  E-value=5e-07  Score=88.39  Aligned_cols=163  Identities=9%  Similarity=-0.079  Sum_probs=120.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hh
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-----IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD----SE  502 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  502 (665)
                      .+...+..+...|++++|++.+++..+.....+.     ..+..+...+...|++++|++.++...+...-..+    ..
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            4455677788889999999999888775322111     12334555677888999999999988752111111    44


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC----CCCCC-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CC
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM----PIEPR-----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS------KP  567 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~  567 (665)
                      .|+.+...|...|++++|++.++++    ...|+     ..++..+...|...|++++|...+++++++.++      ..
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            7888899999999999999998876    11222     257888889999999999999999999876532      14


Q ss_pred             chHHHHHHHHHhcCCHHHH-HHHHHHHh
Q 044628          568 VNYALVSNVYASERCWFDV-ARLRKMMR  594 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A-~~~~~~m~  594 (665)
                      .+|..++.+|...|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            6788999999999999999 77677664

>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=98.65  E-value=3.3e-07  Score=80.74  Aligned_cols=127  Identities=8%  Similarity=-0.023  Sum_probs=96.8

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  544 (665)
                      .+..+...+...|++++|...|+...+.  .+.+...+..+..++...|++++|++.+++. ...| +...|..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3555556666777777777777777662  2335667777778888888888888888776 3334 4667888888899


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHH--HHHHHhcCCHHHHHHHHHHHhh
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALV--SNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l--~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ..|++++|...++++++++|++...+..+  +..+...|++++|.+.++....
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999999988877544  4448889999999999877653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.64  E-value=3.6e-07  Score=75.78  Aligned_cols=114  Identities=18%  Similarity=0.172  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGAC  543 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~  543 (665)
                      ..+..+...+...|++++|.++|+.+.+.  .+.+...+..+...+.+.|++++|+..++++ ...| +..+|..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            45555666666777777777777776652  2234566677777777777888877777776 2233 466778888888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASER  581 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  581 (665)
                      ...|++++|...++++++..|+++..+..++.++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            88999999999999999999998888888888877654

>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=98.64  E-value=8.5e-08  Score=93.17  Aligned_cols=190  Identities=10%  Similarity=-0.045  Sum_probs=135.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSA  474 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a  474 (665)
                      ...+..+...|.+.|++++|...|++..   ..+...|..+...|...|++++|++.+++..+.  .|+ ...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            4455667788889999999999998775   247788899999999999999999999999875  554 4678888889


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDS-EHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAK  553 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~  553 (665)
                      +...|++++|+..|+...+.   .|+. ..+...+....+.++...... .......++...... +..+. .|+.++|.
T Consensus        82 ~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~-l~~l~-~~~~~~A~  155 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSY-LTRLI-AAEREREL  155 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHH-HHHHH-HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHH-HHHHH-HHHHHHHH
Confidence            99999999999999988762   2321 112122222222222122222 222233334444333 33333 68999999


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhc-CCHHHHHHHHHHHhhC
Q 044628          554 WAAEKLLELEPSKPVNYALVSNVYASE-RCWFDVARLRKMMRDN  596 (665)
Q Consensus       554 ~~~~~~~~~~p~~~~~~~~l~~~y~~~-g~~~~A~~~~~~m~~~  596 (665)
                      +.++++++++|++......+..++.+. +++++|.++|+++.+.
T Consensus       156 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          156 EECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999999877777888888877 7899999999988754

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.64  E-value=3.1e-07  Score=78.79  Aligned_cols=96  Identities=8%  Similarity=-0.123  Sum_probs=81.8

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      ...+..+...+.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|+++..+..++.+|.
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            445666777888889999999888887 4445 57778888888999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHHHhhC
Q 044628          579 SERCWFDVARLRKMMRDN  596 (665)
Q Consensus       579 ~~g~~~~A~~~~~~m~~~  596 (665)
                      ..|++++|.+.+++..+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999888754

>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=98.63  E-value=1.5e-07  Score=94.06  Aligned_cols=94  Identities=14%  Similarity=0.033  Sum_probs=81.6

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      ...|..+..+|.+.|++++|++.++++ .+.| +...|..+..++...|++++|+..++++++++|+++.++..++.+|.
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            357788888899999999999998888 4455 57788889999999999999999999999999999999999999999


Q ss_pred             hcCCHHHH-HHHHHHHh
Q 044628          579 SERCWFDV-ARLRKMMR  594 (665)
Q Consensus       579 ~~g~~~~A-~~~~~~m~  594 (665)
                      ..|++++| ...++.|.
T Consensus       276 ~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999 44566653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.62  E-value=3.3e-07  Score=77.16  Aligned_cols=115  Identities=12%  Similarity=0.031  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGAC  543 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~  543 (665)
                      ..+..+...+...|++++|.+.|+...+.  .+.+...+..+..++...|++++|++.++++ ...| +...|..+..++
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            34555555556666666666666665541  2224555666666666666666666666665 2233 456777777888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      ...|++++|+..++++++.+|.+...+..++.+|...|+
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            888888999999999888888888888888888877664

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.61  E-value=3.2e-07  Score=76.86  Aligned_cols=116  Identities=13%  Similarity=-0.011  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGAC  543 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~  543 (665)
                      ..+..+...+...|++++|.+.|+.....  .+.+...+..+...+...|++++|++.+++. ...| +...|..+...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            45556666677777777777777777662  2335667777777888888888888887776 3334 466788888889


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCH
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCW  583 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~  583 (665)
                      ...|++++|...++++++..|+++..+..++.++...|++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999989999999999888875

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.58  E-value=1.5e-07  Score=84.25  Aligned_cols=120  Identities=10%  Similarity=0.027  Sum_probs=81.1

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHH-HHhcCCH--H
Q 044628          476 SHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGA-CKVHGSI--G  550 (665)
Q Consensus       476 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~-~~~~g~~--~  550 (665)
                      ...|++++|+..++...+.  .+.+...|..+...|...|++++|++.++++ ...| +...|..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            3456667777777766652  2234566777777777777777777777766 3333 45566666666 6677777  8


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          551 LAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       551 ~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +|+..++++++.+|+++..+..++.+|...|++++|...+++..+..
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            88888888888888877788888888888888888888887776543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.58  E-value=3.8e-05  Score=80.60  Aligned_cols=335  Identities=8%  Similarity=0.004  Sum_probs=167.3

Q ss_pred             CChHHHHHHHcccC--CCCcccHHHHHHHHHhCCCC-c--hHHHHHhhhC-CCCC-CcchHHHHHHHHhc----CCChHH
Q 044628          112 KAFDDMEKLFDEMR--VRNIVTWNTLISGIINCGGN-V--TPYFRRMLLD-NVRL-DHITFNSLLRACVQ----ADDIEV  180 (665)
Q Consensus       112 g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~~~~-~--~~~~~~m~~~-g~~p-~~~t~~~ll~~~~~----~~~~~~  180 (665)
                      |.++.++.+|++-.  .|++..|..-+....+.+.. +  ..+|+..... |..| +...|...+.-+..    .++++.
T Consensus        28 ~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~  107 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEK  107 (493)
T ss_dssp             TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHH
Confidence            45555555555433  24555555555555444422 1  4455544332 4323 33444444444332    345667


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHH-------------hCCChHHHHHHHhccC----CCCchhHHHHHHHHHhcCC
Q 044628          181 GRRLHSFILKVGFGLNCFVSSALVDLYG-------------KCGFVEDARRVFDEVL----CRDLVLWNVMVSCYALNCL  243 (665)
Q Consensus       181 a~~~~~~~~~~g~~~~~~~~~~li~~~~-------------~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~  243 (665)
                      +..+|+.+++.....-...|......-.             ..+.+..|+.+++.+.    ..+...|...+.--..++.
T Consensus       108 vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~  187 (493)
T 2uy1_A          108 IRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGM  187 (493)
T ss_dssp             HHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTT
T ss_pred             HHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCc
Confidence            7777777776321111122222111100             0012223333333221    1133456555544322211


Q ss_pred             -------chHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 044628          244 -------GDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDD  316 (665)
Q Consensus       244 -------~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  316 (665)
                             .+.+..+|+++.... +-+...|...+.-+...|+.+.|..+++.+++.  +.+...+..    |+...+.++
T Consensus       188 ~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~  260 (493)
T 2uy1_A          188 KLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEA  260 (493)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTH
T ss_pred             cCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhH
Confidence                   233566777776642 334566666666677788888888888888887  444444332    222111111


Q ss_pred             H-HHHHhccC------------CCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHH--HHHHHhCCCCchH
Q 044628          317 A-CRVFDGMT------------AKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLA--SILSSCGSLSISC  381 (665)
Q Consensus       317 A-~~~~~~~~------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~--~ll~~~~~~~~~~  381 (665)
                      . ..+.+...            ......|-..+....+.++.+.|..+|.+....+  .+...|.  +.+.... .++.+
T Consensus       261 ~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~--~~~~v~i~~A~lE~~~-~~d~~  337 (493)
T 2uy1_A          261 VYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIELGNEG--VGPHVFIYCAFIEYYA-TGSRA  337 (493)
T ss_dssp             HHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSC--CCHHHHHHHHHHHHHH-HCCSH
T ss_pred             HHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCC--CChHHHHHHHHHHHHH-CCChH
Confidence            1 11111110            0011345555665556677788888887772211  2333332  2222211 22577


Q ss_pred             hHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 044628          382 ETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLS  458 (665)
Q Consensus       382 ~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  458 (665)
                      .|+.+++...+.. +.+...+...++...+.|+.+.|+.+|+++. .....|...+.--..+|+.+.+.++++++..
T Consensus       338 ~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          338 TPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777777776653 2233445556676777777777777777774 3456677666666666777777776666654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.58  E-value=2.9e-05  Score=75.33  Aligned_cols=160  Identities=9%  Similarity=0.065  Sum_probs=126.9

Q ss_pred             CCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc------H
Q 044628          413 GSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSK--ESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGL------V  481 (665)
Q Consensus       413 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~------~  481 (665)
                      ++++++.++++++.   .+|...|+--.-.+.+.|.++  ++++.++++.+.. .-|...|..-.....+.|.      +
T Consensus       124 ~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhH
Confidence            78889999988876   378888988888888889888  9999999999874 3356677766666666666      8


Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHH-HHHHHHhC-CC----CCChhHHHHHHHHHHhcCCHHHHHHH
Q 044628          482 SEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVE-AYDLLASM-PI----EPRSDTLGAFIGACKVHGSIGLAKWA  555 (665)
Q Consensus       482 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~-~~----~p~~~~~~~ll~~~~~~g~~~~a~~~  555 (665)
                      +++++.++.++..  .+-|...|+-+..++.+.|+..+ +.++.++. ..    ..+...+..+...+...|+.++|.++
T Consensus       203 ~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          203 DEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            9999999999872  34477888888889999988555 55677776 22    23567888888999999999999999


Q ss_pred             HHHHHh-cCCCCCchHHHHHH
Q 044628          556 AEKLLE-LEPSKPVNYALVSN  575 (665)
Q Consensus       556 ~~~~~~-~~p~~~~~~~~l~~  575 (665)
                      ++.+.+ .+|.....|...+.
T Consensus       281 ~~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          281 YDLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHhccChHHHHHHHHHHh
Confidence            999996 89988777765543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.55  E-value=2.1e-07  Score=77.35  Aligned_cols=96  Identities=16%  Similarity=-0.013  Sum_probs=84.1

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  579 (665)
                      ..+..+...+.+.|++++|+..+++. ...| +...|..+..++...|+.++|+..++++++++|+++.++..++.+|..
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            34566778889999999999999988 4556 577888888999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHhhCC
Q 044628          580 ERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       580 ~g~~~~A~~~~~~m~~~~  597 (665)
                      .|++++|...+++..+..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            999999999999887654

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.53  E-value=4.8e-06  Score=76.87  Aligned_cols=173  Identities=7%  Similarity=-0.135  Sum_probs=133.5

Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-CChhHHHHHHHHHHhcC----ChHHHHHHHHHHH
Q 044628          383 TRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE-PDLVTWTSIIGAYAFHG----LSKESIEVFEKML  457 (665)
Q Consensus       383 a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g----~~~~A~~~~~~m~  457 (665)
                      |.+.+....+.|   +...+..|..+|...+++++|...|++..+ .+...+..|...|.. +    +.++|+++|++..
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            444555555543   455667778888889999999999988764 567788888888877 6    8999999999998


Q ss_pred             HcCCCCCHHHHHHHHHHHhc----CCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHh----cCChHHHHHHHHh
Q 044628          458 SHAVRPDSIAFLEVLSACSH----GGLVSEGLRYFNLMISDYHILPD---SEHYTCLTDLLGR----VGLLVEAYDLLAS  526 (665)
Q Consensus       458 ~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~----~g~~~~A~~~~~~  526 (665)
                      +.|   +...+..+...+..    .+++++|+++|+...+   ..|.   ...+..|..+|..    .+++++|++.|++
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~---~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAAR---DSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTS---STTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHH---cCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            754   55677777777777    7899999999999876   2343   6788888999988    8899999999999


Q ss_pred             C-CCCCChhHHHHHHHHHHhc-C-----CHHHHHHHHHHHHhcCCC
Q 044628          527 M-PIEPRSDTLGAFIGACKVH-G-----SIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       527 ~-~~~p~~~~~~~ll~~~~~~-g-----~~~~a~~~~~~~~~~~p~  565 (665)
                      . ...++...+..|...|... |     +.++|+..++++.+....
T Consensus       155 A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          155 SSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            8 3334566677777776543 3     899999999999988654

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.53  E-value=6.6e-07  Score=74.82  Aligned_cols=96  Identities=13%  Similarity=-0.022  Sum_probs=81.3

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      ...|..+...+.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|+++.+|..++.+|.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            345666777888888888888888887 4445 46788888888999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHHHhhC
Q 044628          579 SERCWFDVARLRKMMRDN  596 (665)
Q Consensus       579 ~~g~~~~A~~~~~~m~~~  596 (665)
                      ..|++++|...+++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            999999999999888754

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.49  E-value=6.8e-07  Score=72.52  Aligned_cols=99  Identities=12%  Similarity=-0.029  Sum_probs=83.3

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCchHHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS--KPVNYALVSN  575 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~  575 (665)
                      +...+..+...+.+.|++++|++.+++. ...| +...|..+...+...|++++|+..++++++..|+  ++..+..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            4556777788888888888888888877 3334 5667888888899999999999999999999999  8899999999


Q ss_pred             HHHhc-CCHHHHHHHHHHHhhCCC
Q 044628          576 VYASE-RCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       576 ~y~~~-g~~~~A~~~~~~m~~~~~  598 (665)
                      +|... |++++|.+.+++......
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhccc
Confidence            99999 999999999998876554

>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=98.49  E-value=2e-05  Score=76.91  Aligned_cols=158  Identities=9%  Similarity=-0.064  Sum_probs=119.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCC-----CC----hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CCH----HHHHH
Q 044628          405 LINAYSKCGSIAGALQCFGSVKE-----PD----LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVR-PDS----IAFLE  470 (665)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~----~t~~~  470 (665)
                      .+..+...|++++|...+++..+     ++    ...+..+...+...|++++|++.|++..+.... ++.    .+++.
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            46778899999999999988653     11    112334666677778999999999999984322 232    26888


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcC----CCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-------CCCCC-hhHHH
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDYH----ILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-------PIEPR-SDTLG  537 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~~----~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~  537 (665)
                      +...|...|++++|+++|+.+.+...    ..+ ....|..+...|.+.|++++|++.+++.       +..+. ..+|.
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            99999999999999999999885221    111 1347888999999999999999999877       12222 56788


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHhc
Q 044628          538 AFIGACKVHG-SIGLAKWAAEKLLEL  562 (665)
Q Consensus       538 ~ll~~~~~~g-~~~~a~~~~~~~~~~  562 (665)
                      .+..++...| +.++|...+++++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            8888999999 569999999998754

>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=98.48  E-value=3.1e-07  Score=79.41  Aligned_cols=108  Identities=12%  Similarity=-0.026  Sum_probs=83.9

Q ss_pred             CCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHH
Q 044628          462 RPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGA  538 (665)
Q Consensus       462 ~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~  538 (665)
                      .|+. ..+..+...+...|++++|+..|+.....  -+.+...|..+..+|.+.|++++|++.|+++ .+.| +...|..
T Consensus        17 ~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~   94 (148)
T 2vgx_A           17 SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFH   94 (148)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHH
T ss_pred             CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHH
Confidence            4533 45666677788888888888888888762  2336777888888888889999998888887 4445 4667888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLELEPSKPVNYA  571 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  571 (665)
                      +..++...|++++|+..+++++++.|+++....
T Consensus        95 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  127 (148)
T 2vgx_A           95 AAECLLQXGELAEAESGLFLAQELIANXPEFXE  127 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchH
Confidence            888899999999999999999999998776543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.47  E-value=1.2e-06  Score=75.79  Aligned_cols=103  Identities=12%  Similarity=-0.013  Sum_probs=88.5

Q ss_pred             CCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHH
Q 044628          461 VRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTL  536 (665)
Q Consensus       461 ~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~  536 (665)
                      +.|+. ..+..+...+.+.|++++|+..|+.+..   +.| +...|..+..+|.+.|++++|++.|+++ .+.|+ ...|
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~  107 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCI---YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPV  107 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHH
Confidence            35544 4677788889999999999999999987   345 6888999999999999999999999998 55564 6788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          537 GAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       537 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      ..+..++...|++++|+..+++++++.|++
T Consensus       108 ~~lg~~~~~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          108 FHTGQCQLRLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCH
Confidence            899999999999999999999999999985

>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=98.46  E-value=5.4e-07  Score=75.53  Aligned_cols=94  Identities=7%  Similarity=-0.079  Sum_probs=80.1

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-------hHHH
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV-------NYAL  572 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~  572 (665)
                      ..+..+...+.+.|++++|++.|+++ .+.| +...|..+..++...|++++|+..++++++++|++..       +|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            45667888888999999999999887 5556 4678888999999999999999999999999987654       6778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhh
Q 044628          573 VSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       573 l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ++.+|...|++++|.+.+++...
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            88999999999999999988764

>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=98.46  E-value=1.4e-06  Score=73.86  Aligned_cols=99  Identities=9%  Similarity=-0.095  Sum_probs=83.5

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 044628          499 PDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNV  576 (665)
Q Consensus       499 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  576 (665)
                      .+...|..+...+...|++++|++.|++. ...| +...|..+...+...|+++.|+..++++++++|+++.++..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            45677778888888888888888888877 3344 467788888888999999999999999999999999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHhhCC
Q 044628          577 YASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       577 y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      |...|++++|...+++..+..
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHC
Confidence            999999999999998887543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.45  E-value=1.1e-06  Score=83.40  Aligned_cols=182  Identities=9%  Similarity=-0.055  Sum_probs=117.7

Q ss_pred             hcCCHHHHHHHHhcCCC---CChhHHHHH-------HHHHHhcCChHHHHHHHHHHHHcCCCCCH---------------
Q 044628          411 KCGSIAGALQCFGSVKE---PDLVTWTSI-------IGAYAFHGLSKESIEVFEKMLSHAVRPDS---------------  465 (665)
Q Consensus       411 ~~g~~~~A~~~~~~~~~---~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~---------------  465 (665)
                      ..++.+.|.+.|.++.+   .....|+.+       ...+...++..+++..+..-..  +.|+.               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            46777777777777653   344567666       4555555555555555554443  22222               


Q ss_pred             -------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCCh----h
Q 044628          466 -------IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRS----D  534 (665)
Q Consensus       466 -------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~----~  534 (665)
                             .....+...+...|++++|.++|+.+..   ..|+......+...+.+.|++++|+..|+.....|+.    .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~---~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                   1223345566777888888888877764   2354335555666778888888888888776333322    3


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CC-CCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          535 TLGAFIGACKVHGSIGLAKWAAEKLLELE--PS-KPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       535 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .+..+..++...|++++|+..++++..-.  |. .+.....++.++.+.|+.++|...++++....
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            56666777888888888888888887433  44 34567778888888888888888888887543

>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=98.45  E-value=1.4e-06  Score=77.82  Aligned_cols=129  Identities=9%  Similarity=0.070  Sum_probs=99.8

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHhcCCh--
Q 044628          441 AFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDL-LGRVGLL--  517 (665)
Q Consensus       441 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~--  517 (665)
                      ...|++++|++.+++..+.. +.+...+..+...+...|++++|...|+.+.+.  .+.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcch
Confidence            45678888999998888752 335567888888899999999999999998873  23356777888888 7788998  


Q ss_pred             HHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHH
Q 044628          518 VEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYAL  572 (665)
Q Consensus       518 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  572 (665)
                      ++|++.++++ ...| +...|..+...+...|++++|+..++++++++|+++.....
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  154 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQL  154 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHHH
Confidence            9999999888 4445 46778888889999999999999999999999998665433

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.44  E-value=5.3e-06  Score=81.00  Aligned_cols=162  Identities=9%  Similarity=-0.090  Sum_probs=118.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCC---CCh------hHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HH
Q 044628          401 IENALINAYSKCGSIAGALQCFGSVKE---PDL------VTWTSIIGAYAFHGLSKESIEVFEKMLSHAV---RPD--SI  466 (665)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~  466 (665)
                      .+...+..+...|++++|.+.+.+..+   ...      ..+..+...+...|++++|++.+++..+...   .+.  ..
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            334567788899999999988875431   111      2234455667788899999999999886421   122  24


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-------h
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-----SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-------S  533 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-------~  533 (665)
                      ++..+...|...|++++|.++|+++.+.....|+     ...|..+...|.+.|++++|++.+++. .+.++       .
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            7888888999999999999999998742222233     257888999999999999999999887 11111       5


Q ss_pred             hHHHHHHHHHHhcCCHHHH-HHHHHHHHhc
Q 044628          534 DTLGAFIGACKVHGSIGLA-KWAAEKLLEL  562 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~~~~a-~~~~~~~~~~  562 (665)
                      .+|..+...+...|+.++| ...+++++++
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            6778888889999999999 7778888753

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.43  E-value=1.1e-06  Score=77.48  Aligned_cols=107  Identities=14%  Similarity=-0.058  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGAC  543 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~  543 (665)
                      ..+..+...+...|++++|++.|+...+.  .+.+...|..+..+|.+.|++++|++.+++. .+.| +...|..+..++
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            45666666777777777777777777662  2225666677777777777777777777766 3344 355666666777


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 044628          544 KVHGSIGLAKWAAEKLLELEPSKPVNYALVS  574 (665)
Q Consensus       544 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  574 (665)
                      ...|++++|+..++++++++|+++..+...+
T Consensus        90 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            7777777777777777777777766554443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.43  E-value=3.8e-06  Score=76.62  Aligned_cols=129  Identities=12%  Similarity=0.023  Sum_probs=72.3

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CC---CC-C----h
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDY---HILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PI---EP-R----S  533 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~---~p-~----~  533 (665)
                      ++..+...+...|++++|...+++.....   +..| ....+..+...|...|++++|++.+++. ..   .+ +    .
T Consensus        28 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  107 (203)
T 3gw4_A           28 ARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAAS  107 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHH
Confidence            44444444555555555555555444311   1111 1334555555666666666666665554 10   11 1    2


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--C----CchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          534 DTLGAFIGACKVHGSIGLAKWAAEKLLELEPS--K----PVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~----~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ..+..+...+...|++++|+..+++++++.+.  +    ...+..++.+|...|++++|.+.+++..+
T Consensus       108 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          108 ANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            34555666677777777777777777654321  1    12346778888888888888888776654

>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=98.42  E-value=1.9e-06  Score=70.49  Aligned_cols=94  Identities=13%  Similarity=0.044  Sum_probs=55.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  579 (665)
                      ..+..+...+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++.+|+++..+..++.+|..
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34445555555566666666655555 2223 344555555556666666666666666666666666666666666666


Q ss_pred             cCCHHHHHHHHHHHhh
Q 044628          580 ERCWFDVARLRKMMRD  595 (665)
Q Consensus       580 ~g~~~~A~~~~~~m~~  595 (665)
                      .|++++|.+.+++..+
T Consensus        85 ~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             TTCHHHHHHHHHHHHT
T ss_pred             HhhHHHHHHHHHHHHH
Confidence            6666666666665554

>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=98.42  E-value=3e-06  Score=69.24  Aligned_cols=109  Identities=16%  Similarity=0.099  Sum_probs=78.2

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  544 (665)
                      .+..+...+...|++++|.+.|+.....  .+.+...+..+...+.+.|++++|.+.+++. ...| +...|..+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4455556666677777777777776652  2235666677777777777777777777776 3334 4667777888888


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALVSNVY  577 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  577 (665)
                      ..|++++|...++++++.+|+++..+..++.+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            889999999999999999998877777776654

>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=98.41  E-value=1.6e-06  Score=79.11  Aligned_cols=169  Identities=11%  Similarity=-0.062  Sum_probs=102.0

Q ss_pred             HHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHH
Q 044628          408 AYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEG  484 (665)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  484 (665)
                      .....|++++|.+.|+.-.+   .....|..+...+...|++++|++.|++..+.  .|+...+...        ..+.-
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~--------~~~~~   82 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ--------ILLDK   82 (198)
T ss_dssp             ---------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH--------HHHHH
T ss_pred             hhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh--------hHHHH
Confidence            44445566666655554332   23445666666777777777777777777763  2221100000        00000


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          485 LRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       485 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      .   ..        .....|..+..+|.+.|++++|++.+++. ...| +...|..+..++...|+++.|+..+++++++
T Consensus        83 ~---~~--------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           83 K---KN--------IEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             H---HH--------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             H---HH--------HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            0   00        01356777788888888888888888877 4444 4677888889999999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhcCCHHHHH-HHHHHHhhCC
Q 044628          563 EPSKPVNYALVSNVYASERCWFDVA-RLRKMMRDNC  597 (665)
Q Consensus       563 ~p~~~~~~~~l~~~y~~~g~~~~A~-~~~~~m~~~~  597 (665)
                      +|+++.++..++.++...|+.+++. ..++.+-..+
T Consensus       152 ~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          152 NPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            9999999999999999998888877 5555555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.41  E-value=1.7e-06  Score=72.72  Aligned_cols=98  Identities=11%  Similarity=0.000  Sum_probs=88.8

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 044628          499 PDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNV  576 (665)
Q Consensus       499 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  576 (665)
                      .+...|..+...+.+.|++++|++.+++. ...| +...|..+...+...|++++|+..++++++.+|+++..+..++.+
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            34667888999999999999999999998 5556 577888888999999999999999999999999999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHhhC
Q 044628          577 YASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       577 y~~~g~~~~A~~~~~~m~~~  596 (665)
                      |...|++++|.+.+++..+.
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHh
Confidence            99999999999999988754

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.40  E-value=1.1e-06  Score=75.25  Aligned_cols=108  Identities=12%  Similarity=0.019  Sum_probs=79.2

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  544 (665)
                      .+..+...+...|++++|+..|+.+...  -+.+...|..+..+|.+.|++++|++.|++. ...| +...|..+..++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            4555566677778888888888777762  2235667777778888888888888888877 3444 4566777888888


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALVSNV  576 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  576 (665)
                      ..|++++|+..+++++++.|+++........+
T Consensus        98 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  129 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARALAAAQPAHEALAARA  129 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Confidence            89999999999999999988877665554433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.39  E-value=2.5e-06  Score=73.27  Aligned_cols=95  Identities=9%  Similarity=-0.121  Sum_probs=51.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSN  575 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  575 (665)
                      ...+..+...+.+.|++++|++.|++. ...|+    ...|..+...+...|++++|+..++++++.+|+++..+..++.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            334444455555555555555555554 33443    3445555555555555555555555555555555555555555


Q ss_pred             HHHhcCCHHHHHHHHHHHhh
Q 044628          576 VYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       576 ~y~~~g~~~~A~~~~~~m~~  595 (665)
                      +|...|++++|...+++..+
T Consensus       108 ~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.39  E-value=6.8e-07  Score=84.77  Aligned_cols=138  Identities=12%  Similarity=-0.018  Sum_probs=102.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC--hhhHHHHHHH
Q 044628          433 WTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD--SEHYTCLTDL  510 (665)
Q Consensus       433 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~  510 (665)
                      +-.....+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+...+. . .|.  ...+..+..+
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~a  180 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGVA  180 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHHH
Confidence            344566778889999999998888764  465545555556788889999999999866541 1 121  2356777888


Q ss_pred             HHhcCChHHHHHHHHhC---CCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 044628          511 LGRVGLLVEAYDLLASM---PIEPR--SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSN  575 (665)
Q Consensus       511 ~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  575 (665)
                      +.+.|++++|++.|++.   +..|.  ...+..+..++...|+.++|...++++++.+|+ +.++..|.+
T Consensus       181 l~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~  249 (282)
T 4f3v_A          181 AANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKD  249 (282)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHC
T ss_pred             HHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhC
Confidence            99999999999999988   22253  335667778889999999999999999999998 776666644

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.38  E-value=2.4e-06  Score=70.64  Aligned_cols=97  Identities=16%  Similarity=0.155  Sum_probs=87.2

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      ...+..+...+.+.|++++|++.++++ ...| +..+|..+...+...|++++|+..++++++..|+++..+..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            567888899999999999999999988 3334 57788889999999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHHHhhCC
Q 044628          579 SERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       579 ~~g~~~~A~~~~~~m~~~~  597 (665)
                      ..|++++|...++++.+..
T Consensus        89 ~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HhcCHHHHHHHHHHHHHhC
Confidence            9999999999999887643

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.38  E-value=2.3e-06  Score=75.32  Aligned_cols=94  Identities=15%  Similarity=-0.013  Sum_probs=57.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 044628          430 LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLT  508 (665)
Q Consensus       430 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  508 (665)
                      ...|..+...+...|++++|++.|++..+.  .| +...+..+..++...|++++|+..|+...+.  -+.+...|..+.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg   86 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            445566666666666666666666666664  33 3445666666666666666666666666652  122355666666


Q ss_pred             HHHHhcCChHHHHHHHHhC
Q 044628          509 DLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~  527 (665)
                      .+|.+.|++++|++.|++.
T Consensus        87 ~~~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHH
Confidence            6666666666666666665

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.37  E-value=2.1e-06  Score=75.39  Aligned_cols=64  Identities=9%  Similarity=-0.018  Sum_probs=57.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...|..+..++...|+++.|+..++++++++|+++.+|..++.+|...|++++|...+++....
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            4577788888899999999999999999999999999999999999999999999999888754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.37  E-value=3e-06  Score=77.40  Aligned_cols=154  Identities=13%  Similarity=-0.023  Sum_probs=104.8

Q ss_pred             HhcCCHHHHHH---HHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhcCCcH
Q 044628          410 SKCGSIAGALQ---CFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH----AVRPD-SIAFLEVLSACSHGGLV  481 (665)
Q Consensus       410 ~~~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~  481 (665)
                      ...|++++|.+   .+..-.......+..+...|...|++++|...+++..+.    +..|. ..++..+...+...|++
T Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ----CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             cccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            34677777777   554433345567777888888888888888888887762    11222 24567777788888999


Q ss_pred             HHHHHHHHHHHHhcCCCC-C----hhhHHHHHHHHHhcCChHHHHHHHHhC----CCCCC----hhHHHHHHHHHHhcCC
Q 044628          482 SEGLRYFNLMISDYHILP-D----SEHYTCLTDLLGRVGLLVEAYDLLASM----PIEPR----SDTLGAFIGACKVHGS  548 (665)
Q Consensus       482 ~~a~~~~~~~~~~~~~~p-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~----~~~~~~ll~~~~~~g~  548 (665)
                      ++|.+.+++..+...-.+ +    ...+..+...+...|++++|.+.+++.    ...++    ..++..+...+...|+
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            999888888766322122 2    345777788888899999998888776    11112    2335667778888999


Q ss_pred             HHHHHHHHHHHHhcC
Q 044628          549 IGLAKWAAEKLLELE  563 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~  563 (665)
                      +++|...+++++++.
T Consensus       163 ~~~A~~~~~~al~~~  177 (203)
T 3gw4_A          163 LLEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999998887654

>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=98.37  E-value=1.9e-06  Score=71.91  Aligned_cols=109  Identities=11%  Similarity=-0.079  Sum_probs=74.7

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  544 (665)
                      .+..+...+...|++++|++.|+...+.  .+.+...|..+..+|.+.|++++|++.+++. .+.| +...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            3445555666667777777777766652  2234566777777777777777777777766 3444 3567777778888


Q ss_pred             hcCCHHHHHHHHHHHHhcC------CCCCchHHHHHHHH
Q 044628          545 VHGSIGLAKWAAEKLLELE------PSKPVNYALVSNVY  577 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~y  577 (665)
                      ..|++++|+..++++++++      |++......+..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~  122 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKAS  122 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHH
Confidence            8888888888888888888      77666666665554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.36  E-value=5.8e-06  Score=70.92  Aligned_cols=111  Identities=11%  Similarity=-0.013  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAF  539 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l  539 (665)
                      ..+..+...+...|++++|.+.|+...+   ..|+    ...|..+...|.+.|++++|++.+++. ...| +...|..+
T Consensus        29 ~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           29 EQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            3455555555566666666666666554   2344    455666666777777777777777665 3334 45677777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 044628          540 IGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS  579 (665)
Q Consensus       540 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  579 (665)
                      ..++...|++++|...++++++++|++...+..+..+..+
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  145 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISGP  145 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHCS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHhh
Confidence            8888888999999999999999999887777776666543

>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=98.34  E-value=7e-06  Score=71.98  Aligned_cols=128  Identities=10%  Similarity=-0.045  Sum_probs=91.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDL  510 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  510 (665)
                      ..|..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|.+.++...+.  .+.+...|..+..+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            456667777888888888888888887752 234567777777888888888888888888762  23356778888888


Q ss_pred             HHhcCChHHHHHHHHhC-CCCC-ChhHHHH--HHHHHHhcCCHHHHHHHHHHHHh
Q 044628          511 LGRVGLLVEAYDLLASM-PIEP-RSDTLGA--FIGACKVHGSIGLAKWAAEKLLE  561 (665)
Q Consensus       511 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~--ll~~~~~~g~~~~a~~~~~~~~~  561 (665)
                      +.+.|++++|.+.++++ ...| +...+..  +...+...|++++|...+++..+
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            88888888888888877 3334 3344433  33336677888888888776654

>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=98.34  E-value=1.5e-06  Score=74.35  Aligned_cols=91  Identities=12%  Similarity=-0.115  Sum_probs=67.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHhC-CCCCC-------------hhHHHHHHHHHHhcCCHHHHHHHHHHHHhc-------CC
Q 044628          506 CLTDLLGRVGLLVEAYDLLASM-PIEPR-------------SDTLGAFIGACKVHGSIGLAKWAAEKLLEL-------EP  564 (665)
Q Consensus       506 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-------~p  564 (665)
                      .....+.+.|++++|++.|++. .+.|+             ...|..+..++...|++++|+..+++++++       +|
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~p   95 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQ   95 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCC
Confidence            3344445555555555555554 22222             237888888888888888888888888888       99


Q ss_pred             CCCchH----HHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          565 SKPVNY----ALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       565 ~~~~~~----~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +++.+|    ...+.+|...|++++|...+++..+.
T Consensus        96 d~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           96 DEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            988888    99999999999999999999888653

>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=98.34  E-value=2.1e-06  Score=90.06  Aligned_cols=114  Identities=12%  Similarity=0.016  Sum_probs=58.0

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChH
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLV  518 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  518 (665)
                      +.+.|++++|++.|++..+.  .|+ ..++..+..++.+.|++++|++.+++..+.  -+.+...|..+..+|.+.|+++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHH
Confidence            44555666666666665553  332 345555555666666666666666666551  1223455556666666666666


Q ss_pred             HHHHHHHhC-CCCCC-hhHHHHHHHH--HHhcCCHHHHHHHHH
Q 044628          519 EAYDLLASM-PIEPR-SDTLGAFIGA--CKVHGSIGLAKWAAE  557 (665)
Q Consensus       519 ~A~~~~~~~-~~~p~-~~~~~~ll~~--~~~~g~~~~a~~~~~  557 (665)
                      +|++.++++ ...|+ ...+..+..+  +...|++++|++.++
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            666666555 22232 2233333333  555566666666666

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.30  E-value=2.9e-06  Score=70.98  Aligned_cols=92  Identities=12%  Similarity=0.003  Sum_probs=64.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC-CCCCCh----hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHHHH
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASM-PIEPRS----DTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK---PVNYALVSNV  576 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~  576 (665)
                      ..+...+.+.|++++|++.|++. ...|+.    ..+..+..++...|++++|+..++++++..|++   +.++..++.+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            34455666777777777777766 223332    356666677777778888888888887777777   5667777788


Q ss_pred             HHhcCCHHHHHHHHHHHhhC
Q 044628          577 YASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       577 y~~~g~~~~A~~~~~~m~~~  596 (665)
                      |...|++++|...++++...
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            88888888888777777653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.29  E-value=4.1e-06  Score=69.89  Aligned_cols=98  Identities=12%  Similarity=0.073  Sum_probs=87.6

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVY  577 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  577 (665)
                      +...+..+...+...|++++|++.+++. ...| +...|..+...+...|++++|+..++++++..|+++..+..++.+|
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            4567788889999999999999999988 3344 5778888889999999999999999999999999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHhhCC
Q 044628          578 ASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       578 ~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ...|++++|...+++..+..
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~  110 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD  110 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS
T ss_pred             HHhCCHHHHHHHHHHHHhcC
Confidence            99999999999999887643

>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=98.27  E-value=4.3e-06  Score=87.28  Aligned_cols=145  Identities=14%  Similarity=0.014  Sum_probs=101.8

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 044628          429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLT  508 (665)
Q Consensus       429 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  508 (665)
                      ....|..+...|.+.|++++|+..|++.++.  .|+...+          . -++..+    ...     -....|..+.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~----------~-~~~~~~----~~~-----~~~~~~~nla  324 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGL----------S-EKESKA----SES-----FLLAAFLNLA  324 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSC----------C-HHHHHH----HHH-----HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccC----------C-hHHHHH----HHH-----HHHHHHHHHH
Confidence            3446667777777777777777777777763  2221100          0 011110    000     1145778888


Q ss_pred             HHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHH
Q 044628          509 DLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDV  586 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A  586 (665)
                      .+|.+.|++++|++.++++ .+.| +...|..+..++...|++++|+..++++++++|++..++..++.++...|++++|
T Consensus       325 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          325 MCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999998887 4445 4778888999999999999999999999999999999999999999999999988


Q ss_pred             HH-HHHHHhh
Q 044628          587 AR-LRKMMRD  595 (665)
Q Consensus       587 ~~-~~~~m~~  595 (665)
                      .+ .+++|..
T Consensus       405 ~~~~~~~~f~  414 (457)
T 1kt0_A          405 DRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHC--
T ss_pred             HHHHHHHHHh
Confidence            75 4566643

>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=98.26  E-value=4.5e-05  Score=74.82  Aligned_cols=179  Identities=11%  Similarity=0.007  Sum_probs=101.6

Q ss_pred             CHHHHHHHHhcCC---CCChhHHHHHHHHHHhc-C-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHH------
Q 044628          414 SIAGALQCFGSVK---EPDLVTWTSIIGAYAFH-G-LSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVS------  482 (665)
Q Consensus       414 ~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~------  482 (665)
                      .++++++.++.+.   .++...|+.-...+... + ++++++++++++.+.. .-|...+..-.-.+.+.|.++      
T Consensus       104 ~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~  182 (349)
T 3q7a_A          104 SLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQ  182 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHH
T ss_pred             hHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhh
Confidence            3566666665554   24555666555555554 5 6666666666666542 223444444433333333333      


Q ss_pred             --HHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC-------hHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCH--
Q 044628          483 --EGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL-------LVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSI--  549 (665)
Q Consensus       483 --~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-------~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~--  549 (665)
                        +++++++.+.+.  -.-|...|+....++.+.|+       ++++++.++++ ...| |...|.-+-..+...|+.  
T Consensus       183 ~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~  260 (349)
T 3q7a_A          183 WGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLV  260 (349)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcc
Confidence              666666666652  22355566666666666665       56677766665 3344 466666655555554432  


Q ss_pred             ------------------HHHHHHHHHHHhcC------CCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          550 ------------------GLAKWAAEKLLELE------PSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       550 ------------------~~a~~~~~~~~~~~------p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                                        .........++...      +.++.+...|+++|.+.|+.++|.++++.+.+
T Consensus       261 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          261 PILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             GGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence                              22222333333222      45566778999999999999999999999864

>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=98.26  E-value=1.3e-06  Score=79.80  Aligned_cols=119  Identities=5%  Similarity=-0.158  Sum_probs=85.4

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-----------------hhHHH
Q 044628          476 SHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-----------------SDTLG  537 (665)
Q Consensus       476 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-----------------~~~~~  537 (665)
                      ...|.++++.+.|+....+  .......+..+...+.+.|++++|++.|++. ...|+                 ..+|.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (198)
T 2fbn_A           15 ENLYFQGAKKSIYDYTDEE--KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNL   92 (198)
T ss_dssp             -------CCCSGGGCCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhccccCchhhCCHHH--HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHH
Confidence            3345555555554432221  1112445666677777788888888877776 22222                 26788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          538 AFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       538 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      .+..++...|++++|+..++++++++|+++.++..++.+|...|++++|.+.+++....
T Consensus        93 ~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           93 NLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            88889999999999999999999999999999999999999999999999999988754

>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=98.24  E-value=2e-06  Score=90.23  Aligned_cols=118  Identities=7%  Similarity=-0.030  Sum_probs=100.3

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCH
Q 044628          472 LSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSI  549 (665)
Q Consensus       472 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~  549 (665)
                      ...+.+.|++++|++.|++..+.  -+.+...|..+..+|.+.|++++|++.+++. .+.| +...|..+..++...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            34567889999999999999883  2335888999999999999999999999998 5566 477889999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHH--HHhcCCHHHHHHHHH
Q 044628          550 GLAKWAAEKLLELEPSKPVNYALVSNV--YASERCWFDVARLRK  591 (665)
Q Consensus       550 ~~a~~~~~~~~~~~p~~~~~~~~l~~~--y~~~g~~~~A~~~~~  591 (665)
                      ++|++.++++++++|+++.++..++.+  +.+.|++++|.+.++
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999999888  889999999999988

>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=98.23  E-value=6.7e-06  Score=69.56  Aligned_cols=100  Identities=10%  Similarity=-0.113  Sum_probs=69.9

Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHH
Q 044628          464 DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIG  541 (665)
Q Consensus       464 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~  541 (665)
                      +...+..+...+...|++++|...|+.....  .+.+...|..+..++...|++++|++.+++. ...| +...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            3455666666677777777777777776652  2234566777777777777777777777766 3334 4567777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          542 ACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       542 ~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      ++...|+++.|+..+++++++.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            888888888888888888888776

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.22  E-value=1.2e-06  Score=72.20  Aligned_cols=83  Identities=10%  Similarity=0.000  Sum_probs=55.2

Q ss_pred             cCChHHHHHHHHhC-CC---CCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHH
Q 044628          514 VGLLVEAYDLLASM-PI---EPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVAR  588 (665)
Q Consensus       514 ~g~~~~A~~~~~~~-~~---~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~  588 (665)
                      .|++++|++.|++. ..   .|+ ...|..+...+...|++++|+..++++++++|+++.++..++.+|...|++++|..
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            46666666666666 33   242 45566666777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHhhC
Q 044628          589 LRKMMRDN  596 (665)
Q Consensus       589 ~~~~m~~~  596 (665)
                      .+++....
T Consensus        83 ~~~~al~~   90 (117)
T 3k9i_A           83 LLLKIIAE   90 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77766543

>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=98.20  E-value=3.1e-06  Score=72.41  Aligned_cols=72  Identities=13%  Similarity=-0.071  Sum_probs=58.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC-CC-------CCC-hhHH----HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM-PI-------EPR-SDTL----GAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~-------~p~-~~~~----~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  569 (665)
                      .|..+..++.+.|++++|++.+++. .+       .|+ ...|    .....++...|++++|+..|+++++++|++...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            6777777777777777777777666 44       886 5578    889999999999999999999999999998876


Q ss_pred             HHHHH
Q 044628          570 YALVS  574 (665)
Q Consensus       570 ~~~l~  574 (665)
                      +.-+.
T Consensus       139 ~~~~~  143 (159)
T 2hr2_A          139 TPGKE  143 (159)
T ss_dssp             CTTHH
T ss_pred             HHHHH
Confidence            65443

>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=98.19  E-value=7.1e-06  Score=79.47  Aligned_cols=110  Identities=10%  Similarity=-0.091  Sum_probs=88.4

Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHH
Q 044628          464 DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIG  541 (665)
Q Consensus       464 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~  541 (665)
                      +...+..+...+...|++++|+..|+...+.  .+.+...|..+..+|.+.|++++|++.+++. ...|+ ...|..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4456777888888999999999999998872  2336778888999999999999999999887 66664 667888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 044628          542 ACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSN  575 (665)
Q Consensus       542 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  575 (665)
                      ++...|++++|+..++++++++|+++..+...++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~  114 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIP  114 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHH
Confidence            8999999999999999999998887554443333

>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=98.18  E-value=7.3e-06  Score=68.51  Aligned_cols=92  Identities=10%  Similarity=0.032  Sum_probs=46.0

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC--------hhHHHHHH
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR--------SDTLGAFI  540 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~--------~~~~~~ll  540 (665)
                      +...+.+.|++++|++.|++.++   +.| +...|..+..+|.+.|++++|++.+++. .+.|+        ..+|..+.
T Consensus        14 lG~~~~~~~~~~~A~~~y~~Al~---~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           14 LGNAAYKQKDFEKAHVHYDKAIE---LDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            33444444444444444444443   122 2334444444444444444444444443 11111        12455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          541 GACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       541 ~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      .++...|++++|++.++++++..|+
T Consensus        91 ~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            6677777777777777777777664

>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=98.18  E-value=0.00055  Score=67.13  Aligned_cols=229  Identities=12%  Similarity=0.045  Sum_probs=145.7

Q ss_pred             HcCCChHHHHHHHHHHhhCCCCCCHHH-HHHHHHHhCCCC-chHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhc-C-CH
Q 044628          340 GQNGDGREAVKLLRDMLQGSFCPDEVT-LASILSSCGSLS-ISCETRQVHAYAIKNGVQAFLSIENALINAYSKC-G-SI  415 (665)
Q Consensus       340 ~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~-~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~-g-~~  415 (665)
                      .+.+..++|++++.++...  .|+..| ++.--..+...| .++++..+...+++.. +.+..+|+.-...+.+. + ++
T Consensus        65 ~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            3344445566666666553  233322 222222222334 3566666666665543 23344445444455554 5 78


Q ss_pred             HHHHHHHhcCCC---CChhHHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc----
Q 044628          416 AGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSK--------ESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGL----  480 (665)
Q Consensus       416 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~----  480 (665)
                      +++.++++++.+   +|...|+--.-.+.+.|..+        ++++.++++.+.. .-|...|+.....+.+.+.    
T Consensus       142 ~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~  220 (349)
T 3q7a_A          142 VSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETS  220 (349)
T ss_dssp             HHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccc
Confidence            899999998875   56778877666666666666        9999999999974 3366778777777777775    


Q ss_pred             ---HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCh--------------------HHHHHHHHhC-CC-------
Q 044628          481 ---VSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLL--------------------VEAYDLLASM-PI-------  529 (665)
Q Consensus       481 ---~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~-~~-------  529 (665)
                         ++++++++++++..  .+-|...|+-+-.++.+.|+.                    .+..++..++ +.       
T Consensus       221 ~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          221 SRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             HHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             hHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence               78999999988872  334677787777778777764                    3445555555 22       


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHH-hcCCCCCchHHHHH
Q 044628          530 EPRSDTLGAFIGACKVHGSIGLAKWAAEKLL-ELEPSKPVNYALVS  574 (665)
Q Consensus       530 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-~~~p~~~~~~~~l~  574 (665)
                      .+....+.-|+..|...|+.++|.++++.+. +.+|-....+...+
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~  344 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRR  344 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence            2456678888899999999999999999997 78887655555443

>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=98.17  E-value=1.1e-05  Score=80.31  Aligned_cols=144  Identities=11%  Similarity=-0.026  Sum_probs=108.1

Q ss_pred             CHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----------------HHHHHHHHHH
Q 044628          414 SIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD----------------SIAFLEVLSA  474 (665)
Q Consensus       414 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~t~~~ll~a  474 (665)
                      ++++|...|+...+   .+...|..+...|.+.|++++|+..|++..+.  .|+                ...+..+..+
T Consensus       128 ~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          128 SFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             ecccccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            33444444443331   24557777888888888888888888888875  343                3678888888


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a  552 (665)
                      +.+.|++++|++.|+.+.+.  -+.+...|..+..+|...|++++|++.|+++ .+.| +...+..+..++...|+.++|
T Consensus       206 ~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALEL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998872  2346778888999999999999999999888 5556 466777888888888888888


Q ss_pred             -HHHHHHHHh
Q 044628          553 -KWAAEKLLE  561 (665)
Q Consensus       553 -~~~~~~~~~  561 (665)
                       ...++++++
T Consensus       284 ~~~~~~~~~~  293 (336)
T 1p5q_A          284 EKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence             456666654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.17  E-value=5.8e-06  Score=68.41  Aligned_cols=98  Identities=12%  Similarity=-0.056  Sum_probs=66.7

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHh
Q 044628          468 FLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKV  545 (665)
Q Consensus       468 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~  545 (665)
                      +..+...+.+.|++++|+..|+...+.  -+.+...|..+..++.+.|++++|++.+++. .+.| +...|..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            334455666777777777777777762  2235667777777778888888888887777 4455 35677777788888


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCC
Q 044628          546 HGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       546 ~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      .|+.++|+..++++++++|+++
T Consensus        98 ~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHC------
T ss_pred             cCCHHHHHHHHHHHHHhCcCCC
Confidence            8888888888888888888753

>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=98.16  E-value=5.1e-06  Score=69.38  Aligned_cols=108  Identities=8%  Similarity=-0.088  Sum_probs=60.3

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CC----CCC----hhHHHH
Q 044628          468 FLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PI----EPR----SDTLGA  538 (665)
Q Consensus       468 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~----~p~----~~~~~~  538 (665)
                      +..+...+...|++++|...|+...+.  .+.+...+..+...|.+.|++++|.+.++++ ..    .++    ..+|..
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            334444445555555555555555441  1223444555555555555555555555554 11    111    445666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      +..++...|+++.|...++++++..| ++.....+..++.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~  123 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHH
Confidence            66777777777777777777777777 3555555555543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.16  E-value=4.7e-06  Score=83.13  Aligned_cols=148  Identities=10%  Similarity=-0.056  Sum_probs=83.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 044628          430 LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTD  509 (665)
Q Consensus       430 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  509 (665)
                      ...|..+...+.+.|++++|+..|++....  .|+...       +...|+.+++...+.           ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHH
Confidence            456677777788888888888888888764  454432       233444444433221           136788888


Q ss_pred             HHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH-hcCCHHHH
Q 044628          510 LLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA-SERCWFDV  586 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~-~~g~~~~A  586 (665)
                      +|.+.|++++|++.+++. ...| +...|..+..++...|++++|+..++++++++|+++.++..|+.+.. ..+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999887 4455 56788888899999999999999999999999999999888888844 55677778


Q ss_pred             HHHHHHHhhCC
Q 044628          587 ARLRKMMRDNC  597 (665)
Q Consensus       587 ~~~~~~m~~~~  597 (665)
                      ...+++|....
T Consensus       319 ~~~~~~~l~~~  329 (338)
T 2if4_A          319 KEMYKGIFKGK  329 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHhhCCC
Confidence            88888876554

>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=98.16  E-value=6.6e-06  Score=68.67  Aligned_cols=96  Identities=14%  Similarity=0.088  Sum_probs=84.6

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-------CchHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK-------PVNYA  571 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~  571 (665)
                      ...|..+...+...|++++|++.+++. ...| +...|..+...+...|++++|...++++++..|++       +.++.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            356778889999999999999999988 3334 57788888899999999999999999999998876       77899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          572 LVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       572 ~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      .++.+|...|++++|.+.+++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999999999999999999988764

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.16  E-value=1.5e-05  Score=82.51  Aligned_cols=188  Identities=8%  Similarity=-0.101  Sum_probs=133.1

Q ss_pred             HHHHhcCCHHHHHHHHhcCCC--C---C---------------hhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCH
Q 044628          407 NAYSKCGSIAGALQCFGSVKE--P---D---------------LVTWTSIIGAYAFHGLSKESIEVFEKMLSHA-VRPDS  465 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~--~---~---------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~  465 (665)
                      ..+.+.|++++|.+.|..+.+  +   +               ..++..+...|...|++++|.+.+.++...- -.++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            345667788888877766542  1   0               1246778889999999999999998877621 11222


Q ss_pred             H----HHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCC-ChhhHHHHHHHHHhcCChHHHHHHHHhC-------CCC
Q 044628          466 I----AFLEVLSACSHGGLVSEGLRYFNLMISDY---HILP-DSEHYTCLTDLLGRVGLLVEAYDLLASM-------PIE  530 (665)
Q Consensus       466 ~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~  530 (665)
                      .    +.+.+-..+...|..+++.++++......   +..+ -...+..+...|...|++++|.+++++.       ..+
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence            1    23333344566789999999998876421   2222 2457788999999999999999998876       112


Q ss_pred             CC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---C----CchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          531 PR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS---K----PVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       531 p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~---~----~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      |. ..++..++..|...|++++|+..+++++...+.   .    ...+..++.++...|++++|...+....
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            22 456777889999999999999999998865422   1    2456678888999999999998876664

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.15  E-value=8.4e-06  Score=65.81  Aligned_cols=99  Identities=15%  Similarity=0.014  Sum_probs=60.9

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC---ChhHHHHHHHH
Q 044628          467 AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP---RSDTLGAFIGA  542 (665)
Q Consensus       467 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~ll~~  542 (665)
                      .+..+...+...|++++|...|+...+.  .+.+...|..+..++.+.|++++|++.+++. ...|   +...|..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            3444455555666666666666665552  1224455666666666666666666666665 2333   35566666677


Q ss_pred             HHhc-CCHHHHHHHHHHHHhcCCCCC
Q 044628          543 CKVH-GSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       543 ~~~~-g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      +... |+.++|++.++++++..|.++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            7777 777777777777777777643

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.13  E-value=2.1e-05  Score=65.53  Aligned_cols=103  Identities=11%  Similarity=0.011  Sum_probs=68.2

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-h---hhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----hhHHHHHHH
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDYHILPD-S---EHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR----SDTLGAFIG  541 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~  541 (665)
                      +...+...|++++|.+.|+.+.+.   .|+ .   ..+..+..++.+.|++++|++.+++. ...|+    ...+..+..
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            344455667777777777766652   232 2   35666677777777777777777766 23333    445666777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 044628          542 ACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNV  576 (665)
Q Consensus       542 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  576 (665)
                      ++...|+.++|+..++++++..|+++........+
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l  119 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERL  119 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            78888888999999988888888876554444333

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.12  E-value=8e-06  Score=71.05  Aligned_cols=93  Identities=10%  Similarity=-0.027  Sum_probs=59.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC----CCCCC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CCc
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM----PIEPR----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS------KPV  568 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~~  568 (665)
                      .+..+...+...|++++|.+.+++.    +..++    ..++..+...+...|++++|...+++++++.+.      ...
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            4445555555556666555555554    00111    334556666777778888888888777765321      234


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          569 NYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       569 ~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .+..++.+|...|++++|.+.+++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            677888899999999999988887654

>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=98.11  E-value=7.9e-05  Score=79.53  Aligned_cols=170  Identities=6%  Similarity=-0.090  Sum_probs=139.3

Q ss_pred             cCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhc
Q 044628          412 CGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGL----------SKESIEVFEKMLSHAVRP-DSIAFLEVLSACSH  477 (665)
Q Consensus       412 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~  477 (665)
                      ....++|.+.++++..   .+...|+.--..+...|+          ++++++.++++.+.  .| +..+|..-...+.+
T Consensus        42 ~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           42 GELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            3445677888887763   566788887777777777          89999999999986  45 45678888888888


Q ss_pred             CC--cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC-ChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhc------
Q 044628          478 GG--LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVG-LLVEAYDLLASM-PIEP-RSDTLGAFIGACKVH------  546 (665)
Q Consensus       478 ~g--~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~------  546 (665)
                      .|  ++++++++++.+.+.  -+-+...|+.-..++.+.| .++++++.++++ ...| |...|......+...      
T Consensus       120 l~~~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          120 LPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             cccccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            88  779999999999983  2346778888888888999 899999999998 6666 577898887776653      


Q ss_pred             --------CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHH
Q 044628          547 --------GSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFD  585 (665)
Q Consensus       547 --------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  585 (665)
                              +.++++.+.++++++++|++..+|..+..++.+.|+.++
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                    557999999999999999999999999999999998665

>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=98.11  E-value=1.3e-05  Score=80.87  Aligned_cols=138  Identities=13%  Similarity=-0.021  Sum_probs=106.0

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHH
Q 044628          430 LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLT  508 (665)
Q Consensus       430 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~  508 (665)
                      ...|..+...+.+.|++++|++.|++.++.  .|+..          .....       +...+   ..| +...|..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~-------~~~~~---~~~~~~~~~~nla  280 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAED-------ADGAK---LQPVALSCVLNIG  280 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCH-------HHHGG---GHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccCh-------HHHHH---HHHHHHHHHHHHH
Confidence            456777888888888899998888887762  11100          00011       11111   112 356788889


Q ss_pred             HHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHH
Q 044628          509 DLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDV  586 (665)
Q Consensus       509 ~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A  586 (665)
                      .+|.+.|++++|++.++++ ...|+ ...|..+..++...|++++|+..++++++++|++..++..++.++...++.+++
T Consensus       281 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          281 ACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999988 66664 678888889999999999999999999999999999999999999999988887


Q ss_pred             HHH
Q 044628          587 ARL  589 (665)
Q Consensus       587 ~~~  589 (665)
                      .+.
T Consensus       361 ~k~  363 (370)
T 1ihg_A          361 EKA  363 (370)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            654

>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=98.09  E-value=0.00036  Score=68.06  Aligned_cols=169  Identities=10%  Similarity=0.003  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHhcC--CHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 044628          401 IENALINAYSKCG--SIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGL-SKESIEVFEKMLSHAVRPDSIAFLEVLSA  474 (665)
Q Consensus       401 ~~~~li~~~~~~g--~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  474 (665)
                      +|+--...+.+.|  .++++..+++++.   ..|...|+--.-.+...|. .+++++.++++++.. .-|...|+.....
T Consensus       110 aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~l  188 (331)
T 3dss_A          110 TWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCL  188 (331)
T ss_dssp             HHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            3333333334444  2555665555554   2455555555555555555 356666666666542 1233333333222


Q ss_pred             HhcC--------------CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc-----------CChHHHHHHHHhC-C
Q 044628          475 CSHG--------------GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRV-----------GLLVEAYDLLASM-P  528 (665)
Q Consensus       475 ~~~~--------------g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~-~  528 (665)
                      +.+.              +.++++++++......  .+-|...|+-+-.++.+.           +.++++++.++++ .
T Consensus       189 l~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle  266 (331)
T 3dss_A          189 LPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQE  266 (331)
T ss_dssp             HHHHSCCC------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhccccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHh
Confidence            2221              3455566666655541  122344444333333333           3355555555555 4


Q ss_pred             CCCChhHHHHHHHHH-----HhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          529 IEPRSDTLGAFIGAC-----KVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       529 ~~p~~~~~~~ll~~~-----~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      ..||. .|..+..+.     ...|..++....+.++.+++|...+.|.-+
T Consensus       267 ~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~  315 (331)
T 3dss_A          267 LEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  315 (331)
T ss_dssp             HCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             hCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHH
Confidence            44443 343222111     123445555556666666666544444433

>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=98.09  E-value=0.00029  Score=68.72  Aligned_cols=180  Identities=11%  Similarity=0.063  Sum_probs=132.8

Q ss_pred             HHHHHHHHhcCC---CCChhHHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCc-HHHHHHHH
Q 044628          415 IAGALQCFGSVK---EPDLVTWTSIIGAYAFHGL--SKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGL-VSEGLRYF  488 (665)
Q Consensus       415 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-~~~a~~~~  488 (665)
                      ++++..+++.+.   .++..+|+.-.-.+...|+  +++++++++++.+.. .-|...|+.-...+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            567777777765   3688899988888888884  899999999999963 3366677777777777787 69999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhc--------------CChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhc------
Q 044628          489 NLMISDYHILPDSEHYTCLTDLLGRV--------------GLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVH------  546 (665)
Q Consensus       489 ~~~~~~~~~~p~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~------  546 (665)
                      +.+++.  -+-|...|+....++.+.              +.++++++.+.+. ...| |...|+-+-..+...      
T Consensus       169 ~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHH--CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHH--CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            999983  344677777777766655              5688999999888 4455 677887655554443      


Q ss_pred             -----CCHHHHHHHHHHHHhcCCCCCchHHHHHHHH---HhcCCHHHHHHHHHHHhhCC
Q 044628          547 -----GSIGLAKWAAEKLLELEPSKPVNYALVSNVY---ASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       547 -----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y---~~~g~~~~A~~~~~~m~~~~  597 (665)
                           +.++++++.++++++++|++.-.+..++.+.   ...|..+++...+.++.+.+
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC
Confidence                 4578999999999999999855444443322   24677888888888887543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.07  E-value=6.8e-06  Score=72.06  Aligned_cols=77  Identities=18%  Similarity=0.050  Sum_probs=63.0

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-chHHHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP-VNYALVSNVY  577 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~y  577 (665)
                      ...|..+..+|.+.|++++|+..+++. .+.| +...|..+..++...|++++|+..++++++++|+++ .+...+..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            457888888999999999999998887 4455 467888889999999999999999999999999987 4454554444

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.04  E-value=2.3e-05  Score=81.55  Aligned_cols=124  Identities=14%  Similarity=0.052  Sum_probs=93.0

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcC--CCC----ChhhHHHHHHHHHhcCChHHHHHHHHhC---------CCCCC-hhHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYH--ILP----DSEHYTCLTDLLGRVGLLVEAYDLLASM---------PIEPR-SDTLGA  538 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~--~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~  538 (665)
                      +...|++++|+.++++..+...  +.|    ...+++.|..+|...|++++|+.++++.         +..|+ ..+++.
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            4466777777777776655321  112    2456778888888888888888877765         34454 556888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh-----cCCCCCch---HHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLE-----LEPSKPVN---YALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~---~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      |...|..+|++++|+..++++++     ++|++|.+   ...+..++.+.|++++|+.+++++++...
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~  466 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAAL  466 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            88999999999999999999875     56776544   45788899999999999999999987543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.03  E-value=1.5e-05  Score=79.48  Aligned_cols=150  Identities=9%  Similarity=0.011  Sum_probs=82.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 044628          399 LSIENALINAYSKCGSIAGALQCFGSVKE--PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACS  476 (665)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  476 (665)
                      ...+..+...|.+.|++++|...|++...  ++..       .+...|+..++...+.          ...+..+..++.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-------~~~~~~~~~~~~~~l~----------~~~~~nla~~~~  241 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-------MFQLYGKYQDMALAVK----------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-------HHTCCHHHHHHHHHHH----------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-------hhhhcccHHHHHHHHH----------HHHHHHHHHHHH
Confidence            34567788889999999999999998653  3222       1223334444433221          136777888899


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHH-HHhcCCHHHHH
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGA-CKVHGSIGLAK  553 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~-~~~~g~~~~a~  553 (665)
                      +.|++++|+..++...+.  -+.+...|..+..+|...|++++|++.|+++ .+.|+ ...+..+... ....+..+.+.
T Consensus       242 ~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999872  2336788899999999999999999999998 66675 3445444444 23456778889


Q ss_pred             HHHHHHHhcCCCCC
Q 044628          554 WAAEKLLELEPSKP  567 (665)
Q Consensus       554 ~~~~~~~~~~p~~~  567 (665)
                      ..++++++..|+++
T Consensus       320 ~~~~~~l~~~p~~~  333 (338)
T 2if4_A          320 EMYKGIFKGKDEGG  333 (338)
T ss_dssp             --------------
T ss_pred             HHHHHhhCCCCCCC
Confidence            99999999999864

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.01  E-value=3.7e-06  Score=69.14  Aligned_cols=93  Identities=15%  Similarity=0.055  Sum_probs=64.6

Q ss_pred             CCcHHHHHHHHHHHHHhcC--CCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHH
Q 044628          478 GGLVSEGLRYFNLMISDYH--ILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAK  553 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~  553 (665)
                      .|++++|+..|++..+. +  -+.+...+..+..+|.+.|++++|++.+++. ...| +...+..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            46677777777777651 1  1223556777777888888888888888777 4445 3667777778888889999999


Q ss_pred             HHHHHHHhcCCCCCchHH
Q 044628          554 WAAEKLLELEPSKPVNYA  571 (665)
Q Consensus       554 ~~~~~~~~~~p~~~~~~~  571 (665)
                      ..++++++..|+++....
T Consensus        82 ~~~~~al~~~p~~~~~~~   99 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQS   99 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHH
Confidence            999999888888765443

>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=98.00  E-value=2.8e-05  Score=81.09  Aligned_cols=65  Identities=6%  Similarity=-0.150  Sum_probs=61.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ...|..+..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...+++..+..
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~  381 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  381 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            46788888999999999999999999999999999999999999999999999999999998654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.98  E-value=3.3e-05  Score=67.06  Aligned_cols=133  Identities=17%  Similarity=0.101  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CCH----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hh
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVR-PDS----IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD----SE  502 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  502 (665)
                      ++..+...|...|++++|++.+++..+.... ++.    .++..+...+...|++++|.+.++...+...-.++    ..
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            3445555555666666666666555542100 111    24555556666667777777666665542111111    34


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC-------CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM-------PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEP  564 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  564 (665)
                      .+..+...+...|++++|.+.+++.       +..+ ....+..+...+...|+.++|...+++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            5566667777777777777776665       1111 133566666778888888888888888876543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.98  E-value=2.5e-06  Score=69.17  Aligned_cols=92  Identities=12%  Similarity=-0.079  Sum_probs=75.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CchHH
Q 044628          500 DSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK------PVNYA  571 (665)
Q Consensus       500 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~  571 (665)
                      +...+..+...+.+.|++++|++.+++. ...| +...|..+..++...|++++|+..++++++++|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            4556777888888899999999988887 4445 56778888889999999999999999999999998      67778


Q ss_pred             HHHHHHHhcCCHHHHHHHHH
Q 044628          572 LVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       572 ~l~~~y~~~g~~~~A~~~~~  591 (665)
                      .++.++...|++++|...++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHH
Confidence            88888888887777665544

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.95  E-value=3.5e-05  Score=77.70  Aligned_cols=112  Identities=7%  Similarity=-0.046  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCC-ChhHHHHHHHHHH
Q 044628          466 IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEP-RSDTLGAFIGACK  544 (665)
Q Consensus       466 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~ll~~~~  544 (665)
                      ..+..+...+.+.|++++|++.|++..+..   +..          ......+++.      ...| +..+|..+..++.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~----------~~~~~~~~~~------~~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGS----------RAAAEDADGA------KLQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHH----------HHHSCHHHHG------GGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcC----------ccccChHHHH------HHHHHHHHHHHHHHHHHH
Confidence            456666777777888888888887776510   100          0001111111      1233 3567888889999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          545 VHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       545 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ..|++++|+..++++++++|+++.+|..++.+|...|++++|...+++..+.
T Consensus       285 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999988754

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.91  E-value=2.7e-05  Score=63.54  Aligned_cols=78  Identities=9%  Similarity=-0.011  Sum_probs=64.8

Q ss_pred             HHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          519 EAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       519 ~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +|++.+++. ...| +...|..+...+...|++++|+..++++++++|+++..|..++.+|...|++++|...+++..+.
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            455666655 4455 46678888888899999999999999999999999999999999999999999999999887653

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.91  E-value=4.3e-05  Score=60.58  Aligned_cols=65  Identities=17%  Similarity=0.006  Sum_probs=60.0

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          532 RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       532 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      +...|..+...+...|++++|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46788889999999999999999999999999999999999999999999999999999988653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.90  E-value=0.00011  Score=75.91  Aligned_cols=159  Identities=13%  Similarity=-0.042  Sum_probs=119.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCH----------------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC
Q 044628          437 IGAYAFHGLSKESIEVFEKMLSHAVRPDS----------------IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD  500 (665)
Q Consensus       437 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~----------------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~  500 (665)
                      ...+.+.|++++|++.|.++.+.......                ..+..+...|...|++++|.+++..+.+..+-.++
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            34567889999999999999985322111                24677889999999999999999988764333333


Q ss_pred             hh----hHHHHHHHHHhcCChHHHHHHHHhC-------CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhc------
Q 044628          501 SE----HYTCLTDLLGRVGLLVEAYDLLASM-------PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLEL------  562 (665)
Q Consensus       501 ~~----~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------  562 (665)
                      ..    ..+.+...+...|++++|.++++..       ...+. ..++..|...+...|++++|...+++++..      
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            22    2334444555678999999988776       22333 557778889999999999999999998753      


Q ss_pred             CCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          563 EPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       563 ~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .|.....+..++.+|...|++++|...+++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            222346788999999999999999999988764

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.88  E-value=6.1e-06  Score=70.41  Aligned_cols=86  Identities=19%  Similarity=0.120  Sum_probs=60.9

Q ss_pred             hcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCC----------HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 044628          513 RVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGS----------IGLAKWAAEKLLELEPSKPVNYALVSNVYASE  580 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  580 (665)
                      |.+++++|++.+++. ...| +...|..+..++...++          +++|+..++++++++|+++.+|..++++|...
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            344455555555554 3333 34444444444444433          67999999999999999999999999999987


Q ss_pred             C-----------CHHHHHHHHHHHhhCCC
Q 044628          581 R-----------CWFDVARLRKMMRDNCD  598 (665)
Q Consensus       581 g-----------~~~~A~~~~~~m~~~~~  598 (665)
                      |           ++++|.+.|++..+...
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence            5           89999999998886543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.87  E-value=4.9e-05  Score=58.63  Aligned_cols=81  Identities=19%  Similarity=0.174  Sum_probs=65.5

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          501 SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       501 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      ...+..+...+.+.|++++|++.+++. ...| +...|..+...+...|++++|+..++++++++|+++.++..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            456667777888888888888888777 3334 46678888888899999999999999999999999888888888887


Q ss_pred             hcC
Q 044628          579 SER  581 (665)
Q Consensus       579 ~~g  581 (665)
                      +.|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.74  E-value=0.00012  Score=56.69  Aligned_cols=69  Identities=16%  Similarity=0.089  Sum_probs=60.7

Q ss_pred             CChhHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 044628          531 PRSDTLGAFIGACKVHGS---IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDH  599 (665)
Q Consensus       531 p~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~  599 (665)
                      +++..|..+..++...++   .++|...++++++++|+++.+...++.++.+.|++++|+..|+++.+....
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            467778888888765554   699999999999999999999999999999999999999999999977643

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.68  E-value=7.5e-05  Score=77.69  Aligned_cols=113  Identities=11%  Similarity=-0.095  Sum_probs=87.6

Q ss_pred             HHHhcCChHHHHHHHHhC---------CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCC---chHH
Q 044628          510 LLGRVGLLVEAYDLLASM---------PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLE-----LEPSKP---VNYA  571 (665)
Q Consensus       510 ~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~  571 (665)
                      .+...|++++|+.++++.         +..|+ ..+++.|..+|...|++++|+.+++++++     +.|++|   ..+.
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            456789999999988776         23344 55788899999999999999999999985     456654   4577


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeEEEECCEEEEEEeCCCCCcchHHHHHHHHHHHHHH
Q 044628          572 LVSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLM  640 (665)
Q Consensus       572 ~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~i~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~  640 (665)
                      .|+.+|..+|++++|..++++..+.-. +.-                 ...||...++..++.+...++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~-~~l-----------------G~~Hp~~~~~~~~l~~~~~e~  448 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILL-VTH-----------------GPSHPITKDLEAMRMQTEMEL  448 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHH-HHT-----------------CTTSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHH-HHh-----------------CCCChHHHHHHHHHHHHHHHH
Confidence            899999999999999999998875321 111                 257999988888887765443

>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=97.62  E-value=0.0001  Score=75.56  Aligned_cols=113  Identities=14%  Similarity=0.125  Sum_probs=80.5

Q ss_pred             HHhcCChHHHHHHHHhC---------CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCC---chHHH
Q 044628          511 LGRVGLLVEAYDLLASM---------PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLE-----LEPSKP---VNYAL  572 (665)
Q Consensus       511 ~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~~  572 (665)
                      +.+.|++++|++++++.         +..|+ ..+++.|..+|...|++++|+..++++++     +.|++|   ..+..
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            44555666666655544         11222 44677788888888888888888888874     345554   45778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCccCCceeEEEECCEEEEEEeCCCCCcchHHHHHHHHHHHHHHH
Q 044628          573 VSNVYASERCWFDVARLRKMMRDNCDHKVPGCSWIEIAGEIHTFVSSDRSHPQAVHMYAMLCTVFGLME  641 (665)
Q Consensus       573 l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~s~i~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~  641 (665)
                      |+.+|..+|++++|..++++..+.- .+.-                 ...||...+++..|++...+|+
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~i~-~~~l-----------------G~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFDIM-RVTH-----------------GREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH-HHHT-----------------CTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHH-HHhc-----------------CCCChHHHHHHHHHHHHHHHHh
Confidence            9999999999999999998887531 1111                 2579999999999988887775

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.57  E-value=5.9e-05  Score=64.32  Aligned_cols=86  Identities=14%  Similarity=0.122  Sum_probs=51.3

Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC----------hHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhc-
Q 044628          480 LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL----------LVEAYDLLASM-PIEPR-SDTLGAFIGACKVH-  546 (665)
Q Consensus       480 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~-  546 (665)
                      .+++|++.++...+.  -+.+...|..+..++...|+          +++|+..|++. .+.|+ ...|..+..+|... 
T Consensus        17 ~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           17 LFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            344455555544441  11234444444444444443          34666666665 44553 44566666666555 


Q ss_pred             ----------CCHHHHHHHHHHHHhcCCCCC
Q 044628          547 ----------GSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       547 ----------g~~~~a~~~~~~~~~~~p~~~  567 (665)
                                |++++|+..|+++++++|++.
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHhCCCCH
Confidence                      589999999999999999974

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.57  E-value=0.00022  Score=57.23  Aligned_cols=67  Identities=10%  Similarity=0.054  Sum_probs=61.6

Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          531 PRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       531 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ++...|..+...+...|++++|+..++++++++|+++..+..++.+|...|++++|.+.+++..+..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3456788888999999999999999999999999999999999999999999999999999988654

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.52  E-value=0.00096  Score=71.11  Aligned_cols=150  Identities=11%  Similarity=0.003  Sum_probs=121.8

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCc----------HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 044628          444 GLSKESIEVFEKMLSHAVRPDSI-AFLEVLSACSHGGL----------VSEGLRYFNLMISDYHILPDSEHYTCLTDLLG  512 (665)
Q Consensus       444 g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~----------~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  512 (665)
                      ...++|++.++++.+.  .|+.. .|+.--.++.+.|+          +++++++++.+.+.  -+-+...|..-..++.
T Consensus        43 ~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           43 ELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            4456889999999985  77665 45555555555565          89999999999983  3346777888888889


Q ss_pred             hcC--ChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc-------
Q 044628          513 RVG--LLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHG-SIGLAKWAAEKLLELEPSKPVNYALVSNVYASE-------  580 (665)
Q Consensus       513 ~~g--~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~-------  580 (665)
                      +.|  ++++|++.++++ ...| +...|..-.......| ..+++.+.++++++.+|.+..+|...+.++...       
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             HcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            999  779999999999 4455 6788998888888888 899999999999999999999999999998874       


Q ss_pred             -------CCHHHHHHHHHHHhhCC
Q 044628          581 -------RCWFDVARLRKMMRDNC  597 (665)
Q Consensus       581 -------g~~~~A~~~~~~m~~~~  597 (665)
                             +++++|.+.+++.....
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~  222 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTD  222 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhC
Confidence                   66789999888776543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.42  E-value=0.00033  Score=56.91  Aligned_cols=81  Identities=15%  Similarity=-0.020  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044628          483 EGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLL  560 (665)
Q Consensus       483 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  560 (665)
                      +|++.|+...+  .-+.+...+..+...|.+.|++++|++.+++. ...| +...|..+..++...|+.++|+..+++++
T Consensus         3 ~a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45566666654  12234666777777777777777777777776 3344 35677777778888888888888888888


Q ss_pred             hcCCC
Q 044628          561 ELEPS  565 (665)
Q Consensus       561 ~~~p~  565 (665)
                      ++.|.
T Consensus        81 ~~~~~   85 (115)
T 2kat_A           81 AAAQS   85 (115)
T ss_dssp             HHHHH
T ss_pred             Hhccc
Confidence            87765

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.38  E-value=0.0016  Score=54.80  Aligned_cols=50  Identities=6%  Similarity=-0.151  Sum_probs=30.7

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCCHHHHHHHHHHHhhCC
Q 044628          546 HGSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS----ERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       546 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~A~~~~~~m~~~~  597 (665)
                      .++.++|...++++.+.  .++.++..|+.+|..    .+++++|.+.+++..+.|
T Consensus        74 ~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           74 KKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            45556666666665554  345566666666666    666666666666666554

>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=97.37  E-value=0.00015  Score=74.09  Aligned_cols=84  Identities=10%  Similarity=0.021  Sum_probs=58.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCC---chHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccCCce
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLE-----LEPSKP---VNYALVSNVYASERCWFDVARLRKMMRDNCDHKVPGC  604 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~~~~~~  604 (665)
                      ..+++.|..+|...|++++|+.+++++++     +.|++|   ..|..|+.+|..+|++++|..++++..+.-. +.-  
T Consensus       340 a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~i~~-~~l--  416 (433)
T 3qww_A          340 LHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIAIME-VAH--  416 (433)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-HHT--
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHH-HHc--
Confidence            34667777777788888888888777764     345544   4577888899999999999999888765321 111  


Q ss_pred             eEEEECCEEEEEEeCCCCCcchHHHHHHHH
Q 044628          605 SWIEIAGEIHTFVSSDRSHPQAVHMYAMLC  634 (665)
Q Consensus       605 s~i~~~~~~~~f~~~~~~~~~~~~~~~~l~  634 (665)
                                     ...||...+++..|+
T Consensus       417 ---------------G~~Hp~~~~l~~~l~  431 (433)
T 3qww_A          417 ---------------GKDHPYISEIKQEIE  431 (433)
T ss_dssp             ---------------CTTCHHHHHHHHHHH
T ss_pred             ---------------CCCChHHHHHHHHHh
Confidence                           256888877765544

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.34  E-value=0.00061  Score=52.22  Aligned_cols=64  Identities=16%  Similarity=0.120  Sum_probs=59.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...|..+...+...|++++|+..++++++.+|+++..+..++.+|...|++++|...+++..+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            5577888888999999999999999999999999999999999999999999999999988764

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.28  E-value=0.0015  Score=55.00  Aligned_cols=113  Identities=12%  Similarity=-0.099  Sum_probs=92.0

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCChH
Q 044628          443 HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR----VGLLV  518 (665)
Q Consensus       443 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~  518 (665)
                      .++.++|++.|++..+.| .|+..    +...|...+.+++|.++|++..+.    -+...+..|..+|..    .++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHH
Confidence            356789999999999987 44444    667778888899999999999872    467788888888888    89999


Q ss_pred             HHHHHHHhCCCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCC
Q 044628          519 EAYDLLASMPIEPRSDTLGAFIGACKV----HGSIGLAKWAAEKLLELEP  564 (665)
Q Consensus       519 ~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p  564 (665)
                      +|+++|++.-..-+...+..|...|..    .+|.++|...++++.+.+.
T Consensus        79 ~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           79 KAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999998323467777888888887    8899999999999998754

>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=97.17  E-value=0.0064  Score=59.53  Aligned_cols=142  Identities=20%  Similarity=0.105  Sum_probs=75.2

Q ss_pred             CChhHHHHHHHHHH--hcCC---hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCh
Q 044628          428 PDLVTWTSIIGAYA--FHGL---SKESIEVFEKMLSHAVRPDS-IAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDS  501 (665)
Q Consensus       428 ~~~~~~~~li~~~~--~~g~---~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~  501 (665)
                      .+...|...+.+..  ..++   ..+|..+|++.++.  .|+. ..+..+.-++..          .  . . .+  |..
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~----------~--~-~-~~--~~~  253 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIV----------R--H-S-QH--PLD  253 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH----------H--H-H-HS--CCC
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH----------H--h-c-cC--CCc
Confidence            56777777776643  3333   46888999998885  7765 344444433330          0  0 0 01  110


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHhCCC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDLLASMPI-EPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASE  580 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  580 (665)
                      ....   .      ...+|.+....+.. ..++.++..+...+...|++++|+..++++++++|+ ...|..++.++.-.
T Consensus       254 ~~~~---~------~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~  323 (372)
T 3ly7_A          254 EKQL---A------ALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMK  323 (372)
T ss_dssp             HHHH---H------HHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHT
T ss_pred             hhhH---H------HHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHC
Confidence            0000   0      01222222222321 224555555555555566777777777777776653 45556667777777


Q ss_pred             CCHHHHHHHHHHHhhCC
Q 044628          581 RCWFDVARLRKMMRDNC  597 (665)
Q Consensus       581 g~~~~A~~~~~~m~~~~  597 (665)
                      |++++|.+.+++.....
T Consensus       324 G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          324 GMNREAADAYLTAFNLR  340 (372)
T ss_dssp             TCHHHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHhcC
Confidence            77777776666665443

>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=97.06  E-value=0.0027  Score=64.84  Aligned_cols=93  Identities=9%  Similarity=-0.155  Sum_probs=61.5

Q ss_pred             CCcHHHHHHHHHHHHHhcC--CCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC---------CCCCC-hhHHHHHHH
Q 044628          478 GGLVSEGLRYFNLMISDYH--ILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM---------PIEPR-SDTLGAFIG  541 (665)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~~--~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~  541 (665)
                      .|++++|+.++++..+...  +.|+    ..+++.|..+|...|++++|+.++++.         +..|+ ..+++.|..
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            4566666666666544211  2222    355667777777777777777777665         34454 456788888


Q ss_pred             HHHhcCCHHHHHHHHHHHHh-----cCCCCCchH
Q 044628          542 ACKVHGSIGLAKWAAEKLLE-----LEPSKPVNY  570 (665)
Q Consensus       542 ~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~  570 (665)
                      .|..+|++++|+..++++++     ++|++|.+-
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  424 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIMEVAHGKDHPYIS  424 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHH
Confidence            88888999999888888875     567765543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.03  E-value=0.0014  Score=51.32  Aligned_cols=64  Identities=22%  Similarity=0.179  Sum_probs=38.3

Q ss_pred             HHHHHHhcCChHHHHHHHHhC-CCCC-Chh-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 044628          507 LTDLLGRVGLLVEAYDLLASM-PIEP-RSD-TLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNY  570 (665)
Q Consensus       507 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  570 (665)
                      ....+.+.|++++|++.+++. ...| +.. .|..+..++...|++++|+..++++++++|+++.++
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            344556666666666666665 3334 234 555556666666666666666666666666665544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.99  E-value=0.0031  Score=49.18  Aligned_cols=86  Identities=10%  Similarity=0.054  Sum_probs=49.7

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCChHHHHHHHHhC-CCCCCh-hHHHHHHHHHHhcCC
Q 044628          472 LSACSHGGLVSEGLRYFNLMISDYHILPDSE-HYTCLTDLLGRVGLLVEAYDLLASM-PIEPRS-DTLGAFIGACKVHGS  548 (665)
Q Consensus       472 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~ll~~~~~~g~  548 (665)
                      ...+...|++++|++.|+.+.+.  .+.+.. .|..+..+|.+.|++++|++.|++. ...|+. ..|..        +.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~   76 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KM   76 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HH
Confidence            34556667777777777776652  122345 6666677777777777777777666 334432 22211        34


Q ss_pred             HHHHHHHHHHHHhcCCCCC
Q 044628          549 IGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~  567 (665)
                      +.++...++++.+.+|+++
T Consensus        77 ~~~a~~~~~~~~~~~p~~~   95 (99)
T 2kc7_A           77 VMDILNFYNKDMYNQLEHH   95 (99)
T ss_dssp             HHHHHHHHCCTTHHHHCCS
T ss_pred             HHHHHHHHHHHhccCcccc
Confidence            5556666666666655543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.96  E-value=0.0034  Score=49.29  Aligned_cols=63  Identities=11%  Similarity=0.145  Sum_probs=40.6

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          429 DLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       429 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                      +...|..+...|...|++++|++.|++..+.  .| +...+..+..++...|++++|++.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4456666666677777777777777776664  33 334566666666677777777777666654

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.95  E-value=0.0054  Score=62.71  Aligned_cols=97  Identities=13%  Similarity=-0.038  Sum_probs=61.8

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcC--CCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC---------CCCCC-hhHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYH--ILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM---------PIEPR-SDTLGA  538 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~--~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~  538 (665)
                      +...|++++|++++++..+...  +.|+    ..+++.+..+|...|++++|+.+++++         +..|+ ..+++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            3445566666666666654211  1121    345666666777777777777766655         33444 456777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh-----cCCCCCchHH
Q 044628          539 FIGACKVHGSIGLAKWAAEKLLE-----LEPSKPVNYA  571 (665)
Q Consensus       539 ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~~  571 (665)
                      |...|..+|++++|+..++++++     ++|++|.+-.
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  414 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIED  414 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHH
Confidence            88888888888888888888875     5677665444

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.94  E-value=0.0064  Score=59.54  Aligned_cols=39  Identities=8%  Similarity=-0.192  Sum_probs=34.6

Q ss_pred             HHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          559 LLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       559 ~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .+..+|.++.+|..++.++...|++++|...++++...+
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln  307 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE  307 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            446789999999999999998999999999999998775

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.82  E-value=0.14  Score=41.29  Aligned_cols=141  Identities=6%  Similarity=0.017  Sum_probs=98.0

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHH
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  519 (665)
                      +.-.|..++..++..+....   .+..-++-++.-....-+-+...+.++.+-+-+.+              ..+|++..
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi--------------s~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------HhhhcHHH
Confidence            34457777777777777653   23334444444444444555556666665543222              24566666


Q ss_pred             HHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 044628          520 AYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDH  599 (665)
Q Consensus       520 A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~  599 (665)
                      ....+-.++  .+...+..-+.....+|+.++-.+++..++.-+|.++....-++++|.+.|+..+|.+++++.-++|++
T Consensus        80 Vi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           80 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            666666553  245556667788899999999999999987777777999999999999999999999999999999975

>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=96.67  E-value=0.005  Score=57.74  Aligned_cols=87  Identities=13%  Similarity=0.041  Sum_probs=69.6

Q ss_pred             hHHHHHHHHhC-CCCCC---hhHHHHHHHHHHh-----cCCHHHHHHHHHHHHhcCCCC-CchHHHHHHHHHhc-CCHHH
Q 044628          517 LVEAYDLLASM-PIEPR---SDTLGAFIGACKV-----HGSIGLAKWAAEKLLELEPSK-PVNYALVSNVYASE-RCWFD  585 (665)
Q Consensus       517 ~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~~-----~g~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~y~~~-g~~~~  585 (665)
                      ..+|...+++. .+.|+   ...|..|...|..     -|+.++|++.|+++++++|+. ..+++.+++.|+.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            45566666665 55665   5567777777777     499999999999999999974 99999999999985 99999


Q ss_pred             HHHHHHHHhhCCCccCCc
Q 044628          586 VARLRKMMRDNCDHKVPG  603 (665)
Q Consensus       586 A~~~~~~m~~~~~~~~~~  603 (665)
                      |.+.+++.........|+
T Consensus       259 a~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          259 FDEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHHcCCCCCCCC
Confidence            999999998877665454

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.61  E-value=0.075  Score=59.52  Aligned_cols=102  Identities=15%  Similarity=0.018  Sum_probs=62.0

Q ss_pred             HHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHH
Q 044628          408 AYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRY  487 (665)
Q Consensus       408 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  487 (665)
                      ....+|++++|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...++
T Consensus       661 ~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~  729 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTL  729 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHH
Confidence            4566788888888877764  567888888888888888888888887643         22333333335555544444


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          488 FNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       488 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      -+..... |      .++.-..+|.+.|++++|++++.++
T Consensus       730 ~~~a~~~-~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          730 AKDAETT-G------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHc-C------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3333321 1      1223334455556666666655554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.45  E-value=0.0015  Score=65.17  Aligned_cols=238  Identities=13%  Similarity=0.066  Sum_probs=162.1

Q ss_pred             chHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhc
Q 044628          196 NCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGT  275 (665)
Q Consensus       196 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  275 (665)
                      .+.+|+.|..++.+.|.+.+|++-|-  ...|...|..+|.+..+.|.+++-+..+...++..-  +...=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyI--kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYI--KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSC--CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHH--hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHh
Confidence            45677778888888888888777663  345666788888888888888888887766655432  33334567788888


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC------------------------CCchh
Q 044628          276 LGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA------------------------KNVVS  331 (665)
Q Consensus       276 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------------------------~~~~~  331 (665)
                      .+++.+-++.+.       .|+..-...+.+-|...|.++.|.-+|..+..                        .++.+
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            887765444332       46666666777888888888888888877642                        37789


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 044628          332 WNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSK  411 (665)
Q Consensus       332 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~  411 (665)
                      |-.+-.+|...+++.-|.-.--.++-   .||.  ...++..|-..|.+++-..+++.-.. --.....+++-|.-.|+|
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIv---hade--L~elv~~YE~~G~f~ELIsLlEaglg-lErAHmGmFTELaILYsK  275 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVV---HADE--LEELINYYQDRGYFEELITMLEAALG-LERAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHC---CSSC--CSGGGSSSSTTCCCTTSTTTHHHHTT-STTCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhcc---cHHH--HHHHHHHHHhCCCHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHh
Confidence            99999999999988776544333321   1221  23455668888888888887776552 123567788888888888


Q ss_pred             cCCHHHHHHHHhc----CCC-------CChhHHHHHHHHHHhcCChHHHHH
Q 044628          412 CGSIAGALQCFGS----VKE-------PDLVTWTSIIGAYAFHGLSKESIE  451 (665)
Q Consensus       412 ~g~~~~A~~~~~~----~~~-------~~~~~~~~li~~~~~~g~~~~A~~  451 (665)
                      - ++++-.+-++.    +.-       .....|.-++-.|.+..+++.|..
T Consensus       276 Y-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          276 F-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             S-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             c-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            5 34444443332    221       355688999999998888887754

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.31  E-value=0.021  Score=45.04  Aligned_cols=73  Identities=16%  Similarity=0.079  Sum_probs=52.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHhC-----C----CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHH
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDLLASM-----P----IEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYAL  572 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~~~~~-----~----~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  572 (665)
                      .-+..|...+.+.|+++.|...++.+     +    -.+...++..|..++.+.|+++.|...++++++++|+++.+...
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n   85 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhh
Confidence            33445566666666666666666655     1    12346678888899999999999999999999999998776554


Q ss_pred             HH
Q 044628          573 VS  574 (665)
Q Consensus       573 l~  574 (665)
                      +.
T Consensus        86 ~~   87 (104)
T 2v5f_A           86 LK   87 (104)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.30  E-value=0.18  Score=56.46  Aligned_cols=129  Identities=16%  Similarity=0.072  Sum_probs=75.6

Q ss_pred             HHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChH
Q 044628          267 SSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGR  346 (665)
Q Consensus       267 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  346 (665)
                      ..++..+.+.|..+.|.++.+.         ..   .-......+|++++|.++.+.+.  +...|..+...+.+.|+++
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~  698 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFK  698 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHH
Confidence            4455555566666666554321         11   11334567788888888877664  4567888888888888888


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 044628          347 EAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGS  424 (665)
Q Consensus       347 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (665)
                      .|.+.|.++..         |..+...+...|+.+....+-+.....|.      ++.-..+|.++|++++|.+++.+
T Consensus       699 ~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          699 LAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888887754         22333333335555554444444443331      12333455666666666555444

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.28  E-value=0.0097  Score=59.54  Aligned_cols=397  Identities=9%  Similarity=0.049  Sum_probs=230.2

Q ss_pred             ChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHHHHHhCCCCc-hHHHHHhhhCCCCCCcchHHHHHHHHhcC
Q 044628           97 KLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGIINCGGNV-TPYFRRMLLDNVRLDHITFNSLLRACVQA  175 (665)
Q Consensus        97 ~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~~~~-~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  175 (665)
                      .+.+|..|..++.+.|++.+|.+-|  +...|...|..+|....+.|.++ +--|-.|.+... -+...=+.|+-+|++.
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~-ke~~IDteLi~ayAk~  129 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA-RESYVETELIFALAKT  129 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC-CSTTTTHHHHHHHHTS
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccHHHHHHHHHhh
Confidence            4556777777777777777776654  33455566777777777777777 544555544432 2334445677777777


Q ss_pred             CChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccC------------------------CCCchhH
Q 044628          176 DDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL------------------------CRDLVLW  231 (665)
Q Consensus       176 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~------------------------~~~~~~~  231 (665)
                      +++.+-++++       -.|+..-...+-+-+...|.++.|.-+|..+.                        ..++.+|
T Consensus       130 ~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktW  202 (624)
T 3lvg_A          130 NRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTW  202 (624)
T ss_dssp             CSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSH
T ss_pred             CcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Confidence            6654433322       13444444555555666666666666665541                        2367799


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 044628          232 NVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKN  311 (665)
Q Consensus       232 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  311 (665)
                      --+-.+|+..+.+.-|.-.--.+.-.   ||  -...++.-|-..|.+++-..+++..+... ......++-|.-.|+|-
T Consensus       203 KeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY  276 (624)
T 3lvg_A          203 KEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  276 (624)
T ss_dssp             HHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc
Confidence            99999999999988776554444322   22  22345666788888888888888766322 45778888888888886


Q ss_pred             CCHHHHHHHHhccCC-----------CCchhHHHHHHHHHcCCChHHHHHH-------------HHHHhhCCCCCCHHHH
Q 044628          312 GNIDDACRVFDGMTA-----------KNVVSWNTMVVGFGQNGDGREAVKL-------------LRDMLQGSFCPDEVTL  367 (665)
Q Consensus       312 g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~~~-------------~~~m~~~g~~p~~~t~  367 (665)
                       +.++-.+-++..-.           .....|.-++-.|++-.+++.|...             |.+....  ..|...|
T Consensus       277 -~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~ltMi~h~~~Aw~h~~Fkdii~K--VaN~Eiy  353 (624)
T 3lvg_A          277 -KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITK--VANVELY  353 (624)
T ss_dssp             -CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTTSCHHHHCCGGGGTTTGGG--CSCSHHH
T ss_pred             -CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHhCChhhccHHHHHHHHHH--cchHHHH
Confidence             33444433332221           2445788888888888888877642             1111110  1232333


Q ss_pred             ---------------HHHHHHhCCCCchHhHHHHHHHHH-----H-----hCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          368 ---------------ASILSSCGSLSISCETRQVHAYAI-----K-----NGVQAFLSIENALINAYSKCGSIAGALQCF  422 (665)
Q Consensus       368 ---------------~~ll~~~~~~~~~~~a~~i~~~~~-----~-----~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  422 (665)
                                     +-+|.++...=+...+.+++...-     +     -.-..+..+-.++-+.|....|++.-+.-.
T Consensus       354 YKAi~FYL~e~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~LR~SI  433 (624)
T 3lvg_A          354 YRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTSI  433 (624)
T ss_dssp             HHHHHHHTTSCCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHHHHHTT
T ss_pred             HHHHHHHHHhChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence                           334444444444444444433211     0     001223445566777777777766655544


Q ss_pred             hcCCC------------CChhHHHHH-HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHH
Q 044628          423 GSVKE------------PDLVTWTSI-IGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFN  489 (665)
Q Consensus       423 ~~~~~------------~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  489 (665)
                      +.-..            .+..-+..+ ...|.+++++.+++++.++   .+      .|.-.+...+.+|+.+-+.++++
T Consensus       434 d~ydNFD~i~LA~rLEkHeL~eFRrIAA~LYkkn~rw~qsi~l~Kk---Dk------lykDAietAa~S~~~elaeeLL~  504 (624)
T 3lvg_A          434 DAYDNFDNISLAQRLEKHELIEFRRIAAYLFKGNNRWKQSVELCKK---DS------LYKDAMQYASESKDTELAEELLQ  504 (624)
T ss_dssp             SSCCCSCTTHHHHHHHTCSSHHHHHHHHHHHHTTCHHHHHSSCSST---TC------CTTGGGTTTTTCCCTTHHHHHHH
T ss_pred             HHhccccHHHHHHHHhhCchHHHHHHHHHHHHhcccHHHHHHHHHh---cc------cHHHHHHHHHHcCCHHHHHHHHH
Confidence            43332            222222222 3345666777777655422   11      12223455667888888888888


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 044628          490 LMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLA  525 (665)
Q Consensus       490 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  525 (665)
                      -.++.    -+.+++.+.+-.+...=+++-++++--
T Consensus       505 yFv~~----g~~EcF~a~LytCYdLlrpDvVlElaW  536 (624)
T 3lvg_A          505 WFLQE----EKRECFGACLFTCYDLLRPDVVLETAW  536 (624)
T ss_dssp             HHHHH----CSTHHHHHHHHHTSSSSSCHHHHHHHH
T ss_pred             HHHHc----CchHHHHHHHHHHhhccChHHHHHHHH
Confidence            88763    455667666666666677888888743

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.17  E-value=0.02  Score=48.07  Aligned_cols=89  Identities=13%  Similarity=-0.068  Sum_probs=55.6

Q ss_pred             CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC---ChHHHHHHHHhC-CCC-C--ChhHHHHHHHHHHhcCCHHH
Q 044628          479 GLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVG---LLVEAYDLLASM-PIE-P--RSDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~-p--~~~~~~~ll~~~~~~g~~~~  551 (665)
                      +....+.+.|.+..+ .+ .++..+...+..++.+.+   +.++++.++++. ... |  +...+-.|.-+|.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~-~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKA-AG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHH-TT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHc-cC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            345556666666554 12 356666667777777766   555777777666 222 4  24445555566677777777


Q ss_pred             HHHHHHHHHhcCCCCCch
Q 044628          552 AKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~  569 (665)
                      |++.++++++++|++..+
T Consensus        90 A~~y~~~lL~ieP~n~QA  107 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQNNQA  107 (152)
T ss_dssp             HHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHhcCCCCHHH
Confidence            777777777777775443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.08  E-value=0.032  Score=42.82  Aligned_cols=69  Identities=14%  Similarity=-0.001  Sum_probs=48.8

Q ss_pred             CCChhhHHHHHHHHHhcCC---hHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          498 LPDSEHYTCLTDLLGRVGL---LVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       498 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      +.+...+..+..++...++   .++|..++++. ...|+ ...+..+...+...|++++|+..++++++.+|.+
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~   76 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPN   76 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            3456667777777754444   67888888777 55564 4556666677788888888888888888888873

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.07  E-value=0.023  Score=47.80  Aligned_cols=87  Identities=9%  Similarity=0.027  Sum_probs=61.5

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC---cHHHHHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCChHH
Q 044628          445 LSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGG---LVSEGLRYFNLMISDYHILP--DSEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g---~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~  519 (665)
                      ....+.+.|.+....|. ++..+-..+..++.+++   ++++|+.+++...+. . .|  +.+.+-.|.-++.+.|++++
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-~-~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-S-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CccchHHHHHHHHHHHHHccCHHH
Confidence            34566677777766653 66666666777777777   667888888888773 2 24  35556667777888888888


Q ss_pred             HHHHHHhC-CCCCChh
Q 044628          520 AYDLLASM-PIEPRSD  534 (665)
Q Consensus       520 A~~~~~~~-~~~p~~~  534 (665)
                      |.+.++.+ .++|+..
T Consensus        90 A~~y~~~lL~ieP~n~  105 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQNN  105 (152)
T ss_dssp             HHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHhcCCCCH
Confidence            88888888 6667543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.43  E-value=0.34  Score=41.73  Aligned_cols=129  Identities=16%  Similarity=0.099  Sum_probs=79.8

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 044628          407 NAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLR  486 (665)
Q Consensus       407 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  486 (665)
                      +....+|+++.|.++.+.+  .+...|..|......+|+.+-|.+.|.+...         |..+.--|.-.|+.+.-..
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            4556788888888887766  4677888888888888888888888877653         2233333444566555444


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          487 YFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKL  559 (665)
Q Consensus       487 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  559 (665)
                      +-+....+ |      -++.-...+.-.|+++++.+++.+.+.-|...      -....+|-.+.|.++.+.+
T Consensus        82 la~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            44333321 1      23444455666788888888887775333221      1223466777777776654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.39  E-value=0.64  Score=40.04  Aligned_cols=130  Identities=14%  Similarity=0.103  Sum_probs=83.1

Q ss_pred             HHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHH
Q 044628          204 VDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGR  283 (665)
Q Consensus       204 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  283 (665)
                      .+....+|+++.|.++.+++  .+...|..|.......|+++-|.+.|.+...         |..+.-.|...|+.+.-.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            34456788888888887766  3566788888888888888888888887643         334444455567776666


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHH
Q 044628          284 QIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDM  355 (665)
Q Consensus       284 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  355 (665)
                      ++-+.....|      -++.....+.-.|+++++.++|.+...-+     --+......|..+.|.++.+++
T Consensus        81 kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~-----eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGSLP-----LAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHH-----HHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCChH-----HHHHHHHHcCcHHHHHHHHHHh
Confidence            6666555554      13444455566788888888876654411     1111122245566666666655

>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=95.27  E-value=3.8  Score=43.55  Aligned_cols=249  Identities=12%  Similarity=0.007  Sum_probs=119.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchH
Q 044628          302 TSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISC  381 (665)
Q Consensus       302 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~  381 (665)
                      +.-+..+.+.+++.....++.. ...+...-.....+....|+..+|....+++-..|- .....+..++..+.+.|.+.
T Consensus        76 ~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~-~~p~~c~~l~~~~~~~g~lt  153 (618)
T 1qsa_A           76 SRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACDKLFSVWRASGKQD  153 (618)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCC-CCcHHHHHHHHHHHHCCCCC
Confidence            3444555667777777776655 333444444556667777777667666666554442 12223344444444333221


Q ss_pred             hH--HHHHHHHHHhC-----------CCCc-hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhH---HHHHHHHHHhcC
Q 044628          382 ET--RQVHAYAIKNG-----------VQAF-LSIENALINAYSKCGSIAGALQCFGSVKEPDLVT---WTSIIGAYAFHG  444 (665)
Q Consensus       382 ~a--~~i~~~~~~~g-----------~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~~~g  444 (665)
                      ..  .+=+..+...|           +.++ ......++..+.+-..   +....... .++...   +..-+.-+.+ .
T Consensus       154 ~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~---~~~~~~~~-~~~~~~~~~~~~~~~rlar-~  228 (618)
T 1qsa_A          154 PLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNT---VLTFARTT-GATDFTRQMAAVAFASVAR-Q  228 (618)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGG---HHHHHHHS-CCCHHHHHHHHHHHHHHHH-H
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHh---HHHHHhcc-CCChhhHHHHHHHHHHHHh-c
Confidence            11  11111111111           1111 1122222322222222   22222221 111111   1111222333 3


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHH
Q 044628          445 LSKESIEVFEKMLSHAVRPDSI----AFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEA  520 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  520 (665)
                      +.+.|..++....+.. ..+..    ....+.......+...++...+......   .++.....-.+....+.|+++.|
T Consensus       229 d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             CHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHHH
Confidence            7788888888876543 22332    2223333444455355666666665431   23333333344445577899999


Q ss_pred             HHHHHhCCCCC-ChhHHH-HHHHHHHhcCCHHHHHHHHHHHHh
Q 044628          521 YDLLASMPIEP-RSDTLG-AFIGACKVHGSIGLAKWAAEKLLE  561 (665)
Q Consensus       521 ~~~~~~~~~~p-~~~~~~-~ll~~~~~~g~~~~a~~~~~~~~~  561 (665)
                      .+.|+.|+..+ +..-|. =+..+....|+.++|..+++++.+
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            99999885433 222222 233466678888889888888875

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=94.93  E-value=0.04  Score=51.66  Aligned_cols=81  Identities=12%  Similarity=0.163  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHhc-----CChHHHHHHHHhC-CCCCC--hhHHHHHHHHHHh-cCCH
Q 044628          482 SEGLRYFNLMISDYHILPD---SEHYTCLTDLLGRV-----GLLVEAYDLLASM-PIEPR--SDTLGAFIGACKV-HGSI  549 (665)
Q Consensus       482 ~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~-~~~p~--~~~~~~ll~~~~~-~g~~  549 (665)
                      .+|...+++.++   +.|+   -..|..|...|.+.     |+.++|.+.|++. .+.|+  ..++......+.. .|+.
T Consensus       180 ~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          180 HAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            344444444443   3444   33455555555553     5666666666655 44442  3444444444444 3666


Q ss_pred             HHHHHHHHHHHhcCCC
Q 044628          550 GLAKWAAEKLLELEPS  565 (665)
Q Consensus       550 ~~a~~~~~~~~~~~p~  565 (665)
                      +++.+.+++++...|.
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            6666666666666655

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=94.59  E-value=0.097  Score=43.31  Aligned_cols=53  Identities=6%  Similarity=-0.249  Sum_probs=35.6

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 044628          546 HGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       546 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~  598 (665)
                      .+|.++|+++|+.++++...-+..|...+..-.++|+.+.|++++.+....+.
T Consensus        73 i~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            36777777777777666444455566666666677777777777777766543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.86  E-value=0.26  Score=53.45  Aligned_cols=55  Identities=11%  Similarity=-0.049  Sum_probs=51.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHh
Q 044628          540 IGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMR  594 (665)
Q Consensus       540 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~  594 (665)
                      ...|...|+++.|..++++++..-|.+..+|..|+.+|...|+|+.|.-.+..+.
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            3557788999999999999999999999999999999999999999999998884

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.81  E-value=0.41  Score=38.57  Aligned_cols=74  Identities=16%  Similarity=-0.010  Sum_probs=46.9

Q ss_pred             CChhhHHHHHHHHHhcCChHH---HHHHHHhC-CCC-C--ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 044628          499 PDSEHYTCLTDLLGRVGLLVE---AYDLLASM-PIE-P--RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYA  571 (665)
Q Consensus       499 p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~-~~~-p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  571 (665)
                      |+..+--.+..++.+.....+   ++.++++. ... |  .-...-.|.-++.+.|+++.|++.++.+++.+|++..+..
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n~QA~~  112 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKE  112 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHH
Confidence            455555555555555555444   55555555 212 3  1223444556788999999999999999999998765544


Q ss_pred             H
Q 044628          572 L  572 (665)
Q Consensus       572 ~  572 (665)
                      +
T Consensus       113 L  113 (126)
T 1nzn_A          113 L  113 (126)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.23  E-value=0.29  Score=38.26  Aligned_cols=64  Identities=9%  Similarity=-0.110  Sum_probs=53.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-------CCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELE-------PSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ......+...+...|+++.|...++++++..       +..+.++..|+.+|.+.|++++|...+++..+.
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            3445567788899999999999999998753       334567899999999999999999999988754

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.06  E-value=3  Score=33.81  Aligned_cols=118  Identities=9%  Similarity=-0.072  Sum_probs=70.1

Q ss_pred             HhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHH----------------------HhCCChHHHHHHHhccCCCCch
Q 044628          172 CVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLY----------------------GKCGFVEDARRVFDEVLCRDLV  229 (665)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~----------------------~~~g~~~~A~~~~~~~~~~~~~  229 (665)
                      ..-.|.++++.++.....++.   +..-||-+|--.                      ..||++......+-.+. .+..
T Consensus        17 ~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n-~~se   92 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINN-TLNE   92 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTT-CCCH
T ss_pred             HHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhc-chHH
Confidence            445688888888888887764   333333332222                      22344444444443332 2333


Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCC
Q 044628          230 LWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSF  294 (665)
Q Consensus       230 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~  294 (665)
                      ..+..++.+...|+-++-.+++..+.. +.+|+......+..||.+.|+..++.+++.++-+.|+
T Consensus        93 ~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           93 HVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            455566677777777777777777533 2356666777777777777777777777777777664

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=93.03  E-value=0.4  Score=39.69  Aligned_cols=54  Identities=13%  Similarity=-0.028  Sum_probs=40.7

Q ss_pred             cCChHHHHHHHHhC-CC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          514 VGLLVEAYDLLASM-PI-EPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       514 ~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      .++.++|.++|+.+ .+ +-=..+|.....--.++|++..|++++.+++++.|...
T Consensus        73 i~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             hcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence            46777777777776 11 11167787777777889999999999999999998753

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.66  E-value=0.45  Score=38.35  Aligned_cols=80  Identities=8%  Similarity=-0.140  Sum_probs=58.0

Q ss_pred             hHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHH---HHHHHHHHHhcC-C-CCCchHHHHHHHHHhcCCHHHHHHH
Q 044628          517 LVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGL---AKWAAEKLLELE-P-SKPVNYALVSNVYASERCWFDVARL  589 (665)
Q Consensus       517 ~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~-p-~~~~~~~~l~~~y~~~g~~~~A~~~  589 (665)
                      +..+.+-+.+.  .-.|+..+-..+..++.+.++...   |+.+++.+++.+ | ..-.....|+-.+.+.|++++|++.
T Consensus        17 l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            33444444433  123666666677777777765554   999999999877 5 3456677899999999999999999


Q ss_pred             HHHHhhC
Q 044628          590 RKMMRDN  596 (665)
Q Consensus       590 ~~~m~~~  596 (665)
                      .+.+.+.
T Consensus        97 ~~~lL~~  103 (126)
T 1nzn_A           97 VRGLLQT  103 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998753

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.47  E-value=6.9  Score=39.78  Aligned_cols=158  Identities=11%  Similarity=0.051  Sum_probs=81.8

Q ss_pred             HHHHHhccCCcHHHHHHHHHHHHh--CCCCc---hhHHHHHHHHHHhcCCHHHHHHHHhccCC------CC----chhHH
Q 044628          269 LVNSCGTLGSSKLGRQIHGLVIKQ--SFDLD---VLVATSLVDMYAKNGNIDDACRVFDGMTA------KN----VVSWN  333 (665)
Q Consensus       269 ll~~~~~~~~~~~a~~~~~~~~~~--g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~------~~----~~~~~  333 (665)
                      |...+...|++.+|..++..+...  |....   +..+...+..|...+++..|..++.++..      ++    ..-+.
T Consensus       143 La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~  222 (445)
T 4b4t_P          143 LVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYN  222 (445)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHH
Confidence            444455566666666666655432  11111   23455566677777777777766665521      11    12355


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhC-CCCCCHHHHHHH-----HHH-hCCCCchHhHHHHHHHHHHhCCCCchhHHHHHH
Q 044628          334 TMVVGFGQNGDGREAVKLLRDMLQG-SFCPDEVTLASI-----LSS-CGSLSISCETRQVHAYAIKNGVQAFLSIENALI  406 (665)
Q Consensus       334 ~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~l-----l~~-~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li  406 (665)
                      .++..+...+++.+|...|.+.... ...-|...+..+     +.. ++..+ .+... +.....+...-++...+..|+
T Consensus       223 ~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~-~~~~~-ll~~~~~~~~~~~l~~~~~L~  300 (445)
T 4b4t_P          223 LLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYG-NLQND-LIHKIQNDNNLKKLESQESLV  300 (445)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCS-STTHH-HHHSHHHHSSCHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCC-chHHH-HHHHHhhcccccccHHHHHHH
Confidence            6666677777777777777666432 111122211111     111 12222 12222 222222222335667788888


Q ss_pred             HHHHhc--CCHHHHHHHHhcCCCC
Q 044628          407 NAYSKC--GSIAGALQCFGSVKEP  428 (665)
Q Consensus       407 ~~~~~~--g~~~~A~~~~~~~~~~  428 (665)
                      .+|...  .+++.+.+.|.....+
T Consensus       301 k~f~~~~L~~~~~~~~~~~~~L~~  324 (445)
T 4b4t_P          301 KLFTTNELMRWPIVQKTYEPVLNE  324 (445)
T ss_dssp             HHHHHCCSSSHHHHHHHTCSSTTT
T ss_pred             HHHHhchHhhhHHHHHHHHHHhcc
Confidence            888764  4577888888766543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.05  E-value=8.6  Score=36.64  Aligned_cols=167  Identities=11%  Similarity=0.066  Sum_probs=101.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHH----HHHHhhCCCCCCHHHHHHHHHHhCC
Q 044628          301 ATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKL----LRDMLQGSFCPDEVTLASILSSCGS  376 (665)
Q Consensus       301 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~g~~p~~~t~~~ll~~~~~  376 (665)
                      |.++..-|.+.+++++|.+++..-           ...+.+.|+...|-++    .+-..+.+++++......++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            344556678888888888875432           3445666776665554    4555567888888888877777655


Q ss_pred             CCchH-hHHHHHHHHH----HhCC--CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhc---CCh
Q 044628          377 LSISC-ETRQVHAYAI----KNGV--QAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFH---GLS  446 (665)
Q Consensus       377 ~~~~~-~a~~i~~~~~----~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---g~~  446 (665)
                      ...-+ .-..+...++    +.|-  .-++.....+...|.+.|++.+|+.-|-.-...|...+..++--+...   |..
T Consensus       105 ~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~  184 (312)
T 2wpv_A          105 LDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIED  184 (312)
T ss_dssp             CCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCH
T ss_pred             CCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCc
Confidence            33211 1233444443    3332  246778888999999999999999877643323455555554444433   433


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          447 KESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       447 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                      .++--.              .-.+++. |.-.|++..|..+|+...+
T Consensus       185 ~e~dlf--------------~~RaVL~-yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          185 STVAEF--------------FSRLVFN-YLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HHHHHH--------------HHHHHHH-HHHTTBHHHHHHHHHHHHH
T ss_pred             chHHHH--------------HHHHHHH-HHHhcCHHHHHHHHHHHHH
Confidence            332111              1122232 3456888999998887765

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=91.62  E-value=9.5  Score=36.31  Aligned_cols=132  Identities=13%  Similarity=0.080  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHH----HHHHHHCCCCCCHhhHHHHHHHHh
Q 044628          199 VSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAV----FNLMRLEGMKGDYFTFSSLVNSCG  274 (665)
Q Consensus       199 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~g~~p~~~t~~~ll~~~~  274 (665)
                      .|.++..=|.+.+++++|.+++..           -...+.+.|+...|-++    .+...+.+++++......++..+.
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~  103 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIA  103 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            344555568889999999988643           23455667777665554    555566788888888877777765


Q ss_pred             ccCCcH-HHHHHHHHHHH----hCC--CCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHc
Q 044628          275 TLGSSK-LGRQIHGLVIK----QSF--DLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQ  341 (665)
Q Consensus       275 ~~~~~~-~a~~~~~~~~~----~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  341 (665)
                      ....-+ .-.++...+++    .|-  ..++.....+...|.+.|++.+|+.-|-.-...|...+..|+.-+.+
T Consensus       104 ~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~  177 (312)
T 2wpv_A          104 ELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLC  177 (312)
T ss_dssp             TCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred             HCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHH
Confidence            533211 22344444443    221  24777888888889999999888887763322244455444444333

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.89  E-value=4  Score=33.45  Aligned_cols=71  Identities=14%  Similarity=0.050  Sum_probs=44.0

Q ss_pred             CCChhhHHHHHHHHHhcCChH---HHHHHHHhC-CCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 044628          498 LPDSEHYTCLTDLLGRVGLLV---EAYDLLASM-PIEPR--SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV  568 (665)
Q Consensus       498 ~p~~~~~~~l~~~~~~~g~~~---~A~~~~~~~-~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  568 (665)
                      .|+..+--.+..++.+..+.+   +++.+++.. ...|+  -...--|.-++.+.|+++.|++..+.+++.+|+|..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~Q  112 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  112 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHH
Confidence            466666666677777766543   466666665 22231  223334445677777888888888888888887643

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.15  E-value=2  Score=34.73  Aligned_cols=68  Identities=15%  Similarity=0.070  Sum_probs=31.1

Q ss_pred             CChhhHHHHHHHHHhcCCh---HHHHHHHHhC-CCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044628          499 PDSEHYTCLTDLLGRVGLL---VEAYDLLASM-PIEPR--SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK  566 (665)
Q Consensus       499 p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~-~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  566 (665)
                      |+..+--.+..++.+....   .+++.++++. ...|.  -..+--|.-++.+.|+++.|++..+.+++.+|+|
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N  111 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  111 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTC
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCC
Confidence            4444444444455554433   2344444444 11221  2233334445555555555555555555555554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=90.03  E-value=27  Score=38.79  Aligned_cols=215  Identities=13%  Similarity=0.046  Sum_probs=113.6

Q ss_pred             HHHhcCCHHHHHHHHhccCCC----C--chhHHHHHHHHHcCCChHHHHHHHHHHhhCCC--CC---CH-HHHHH---HH
Q 044628          307 MYAKNGNIDDACRVFDGMTAK----N--VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSF--CP---DE-VTLAS---IL  371 (665)
Q Consensus       307 ~~~~~g~~~~A~~~~~~~~~~----~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p---~~-~t~~~---ll  371 (665)
                      +....|+.++++.+++.....    +  +..-..+.-|....|..++++.++.......-  .-   +. +....   +-
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            345677888888888776541    1  12233444566677777778887777654311  00   11 11111   11


Q ss_pred             HHhCCCCchHhHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHHHHHHHhcCCC-CChhHH--HHHHHHHHhcCChH
Q 044628          372 SSCGSLSISCETRQVHAYAIKNGVQA-FLSIENALINAYSKCGSIAGALQCFGSVKE-PDLVTW--TSIIGAYAFHGLSK  447 (665)
Q Consensus       372 ~~~~~~~~~~~a~~i~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~--~~li~~~~~~g~~~  447 (665)
                      -++...++- ++...+..++...-.. .....-+|.-.|.-.|+-+....++..+.+ .+....  -++.-|+...|+.+
T Consensus       463 la~~GS~~e-ev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGG
T ss_pred             HHhcCCCCH-HHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChH
Confidence            223334443 3334444333322110 011222334445566777766666665432 222222  33334455779999


Q ss_pred             HHHHHHHHHHHcCCCCCHH-HHH---HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHH
Q 044628          448 ESIEVFEKMLSHAVRPDSI-AFL---EVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDL  523 (665)
Q Consensus       448 ~A~~~~~~m~~~g~~p~~~-t~~---~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  523 (665)
                      .+..+.+.+...   .|.. -|.   .+.-+|+..|+.....+++..+..+  ...++.-...+.-++.-.|+.+.+.++
T Consensus       542 ~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          542 LADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             GGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             HHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            998888888763   3432 333   3445788889987777788888773  222333333333334446776666666


Q ss_pred             HHhC
Q 044628          524 LASM  527 (665)
Q Consensus       524 ~~~~  527 (665)
                      ++.+
T Consensus       617 v~~L  620 (963)
T 4ady_A          617 VQLL  620 (963)
T ss_dssp             TTTG
T ss_pred             HHHH
Confidence            6654

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=90.01  E-value=15  Score=39.18  Aligned_cols=82  Identities=15%  Similarity=0.014  Sum_probs=45.7

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHh--
Q 044628          334 TMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSK--  411 (665)
Q Consensus       334 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~--  411 (665)
                      .....+.-.|+++.|++.+...    ...|.+.+...+..+.-.+-   ...++..-  .+ .| ..-+..||..|.+  
T Consensus       299 lYf~vLlLtgqFE~AI~~L~~~----~~vdAVH~AIaL~~~gLL~~---~~~lls~~--~~-~~-~lN~arLI~~Yt~~F  367 (661)
T 2qx5_A          299 YYLQTLLLSGLYGLAIDYTYTF----SEMDAVHLAIGLASLKLFKI---DSSTRLTK--KP-KR-DIRFANILANYTKSF  367 (661)
T ss_dssp             CHHHHHHHTTCHHHHHHHHHTT----CHHHHHHHHHHHHHTTC------------------------CHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhhHHHHHHHHHhc----CchhHHHHHHHHHHcCCccC---CCcccccC--CC-cc-cccHHHHHHHHHHHh
Confidence            3556677789999999988754    35677777777766544432   11111110  01 11 1124567777765  


Q ss_pred             -cCCHHHHHHHHhcCC
Q 044628          412 -CGSIAGALQCFGSVK  426 (665)
Q Consensus       412 -~g~~~~A~~~~~~~~  426 (665)
                       ..+..+|.+.|--+.
T Consensus       368 ~~td~~~Al~Y~~li~  383 (661)
T 2qx5_A          368 RYSDPRVAVEYLVLIT  383 (661)
T ss_dssp             TTTCHHHHHHHHHGGG
T ss_pred             hcCCHHHHHHHHHHHh
Confidence             578888888776664

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=89.45  E-value=12  Score=39.83  Aligned_cols=82  Identities=12%  Similarity=-0.021  Sum_probs=44.7

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh--
Q 044628          233 VMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAK--  310 (665)
Q Consensus       233 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~--  310 (665)
                      .....+.-.|+++.|++.+-+.    -..|.+.+...+.-+.-.+-   ...++..-  .+ .| ..-+..||..|.+  
T Consensus       299 lYf~vLlLtgqFE~AI~~L~~~----~~vdAVH~AIaL~~~gLL~~---~~~lls~~--~~-~~-~lN~arLI~~Yt~~F  367 (661)
T 2qx5_A          299 YYLQTLLLSGLYGLAIDYTYTF----SEMDAVHLAIGLASLKLFKI---DSSTRLTK--KP-KR-DIRFANILANYTKSF  367 (661)
T ss_dssp             CHHHHHHHTTCHHHHHHHHHTT----CHHHHHHHHHHHHHTTC------------------------CHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhhHHHHHHHHHhc----CchhHHHHHHHHHHcCCccC---CCcccccC--CC-cc-cccHHHHHHHHHHHh
Confidence            3556677789999999987754    24566667666666544432   11111110  00 11 1225667777765  


Q ss_pred             -cCCHHHHHHHHhccC
Q 044628          311 -NGNIDDACRVFDGMT  325 (665)
Q Consensus       311 -~g~~~~A~~~~~~~~  325 (665)
                       ..+..+|.+.|--+.
T Consensus       368 ~~td~~~Al~Y~~li~  383 (661)
T 2qx5_A          368 RYSDPRVAVEYLVLIT  383 (661)
T ss_dssp             TTTCHHHHHHHHHGGG
T ss_pred             hcCCHHHHHHHHHHHh
Confidence             477888888776653

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.29  E-value=16  Score=35.08  Aligned_cols=167  Identities=13%  Similarity=0.066  Sum_probs=99.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHH----HHHhhCCCCCCHHHHHHHHHHhCC
Q 044628          301 ATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLL----RDMLQGSFCPDEVTLASILSSCGS  376 (665)
Q Consensus       301 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~~~~~  376 (665)
                      |.++..-|.+.+++++|.+++..           -...+.+.|+...|-++-    +-..+.++++|..+...++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            34455567888888888887533           234455667765555443    555567888888888888777766


Q ss_pred             CCchHh-HHHHHHHH----HHhC--CCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHH
Q 044628          377 LSISCE-TRQVHAYA----IKNG--VQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKES  449 (665)
Q Consensus       377 ~~~~~~-a~~i~~~~----~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  449 (665)
                      ...-+- -..+...+    .+.|  ..-|......+...|.+.+++.+|+.-|-.-.++....+..++--+...+...+ 
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e-  185 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHT-  185 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG-
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc-
Confidence            553221 12333333    3334  334667778889999999999999988853222333556555444443332211 


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          450 IEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       450 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                                   +|...-.+++. |.-.+++..|..+|+...+
T Consensus       186 -------------~dlfiaRaVL~-yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          186 -------------APLYCARAVLP-YLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             -------------HHHHHHHHHHH-HHHTTCHHHHHHHHHHHHH
T ss_pred             -------------HHHHHHHHHHH-HHHhCCHHHHHHHHHHHHH
Confidence                         22222233333 4445788888887766654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.97  E-value=32  Score=38.20  Aligned_cols=303  Identities=11%  Similarity=0.040  Sum_probs=156.1

Q ss_pred             HHHhCCChHHHHHHHhccCCC----C--chhHHHHHHHHHhcCCchHHHHHHHHHHHCCC--CCC---H--hhHHHHH--
Q 044628          206 LYGKCGFVEDARRVFDEVLCR----D--LVLWNVMVSCYALNCLGDGAIAVFNLMRLEGM--KGD---Y--FTFSSLV--  270 (665)
Q Consensus       206 ~~~~~g~~~~A~~~~~~~~~~----~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~---~--~t~~~ll--  270 (665)
                      +....|+.++++.+++.....    +  +..-..+.-|.+..|..+++++++.......-  .-+   .  ..-..+-  
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            355678888899998887542    2  12333445567777877788887777654311  000   1  1111221  


Q ss_pred             HHHhccCCcHHHHHHHHHHHHhCCCCch--hHHHHHHHHHHhcCCHHHHHHHHhccCCC---CchhHHHHHHHHHcCCCh
Q 044628          271 NSCGTLGSSKLGRQIHGLVIKQSFDLDV--LVATSLVDMYAKNGNIDDACRVFDGMTAK---NVVSWNTMVVGFGQNGDG  345 (665)
Q Consensus       271 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~  345 (665)
                      -++...++ +++...+..++... ....  ...-+|...|.-.|+-+....++..+.+.   ++.-.-++.-|+...|+.
T Consensus       463 la~~GS~~-eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          463 LAAMGSAN-IEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHSTTCCC-HHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHhcCCCC-HHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence            22233333 34445555554432 1111  11223334455667777777776654321   222233444556678888


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHH---HHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          346 REAVKLLRDMLQGSFCPDEVTLA---SILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCF  422 (665)
Q Consensus       346 ~~A~~~~~~m~~~g~~p~~~t~~---~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  422 (665)
                      +.+..+.+.+.... .|. .-|.   .+.-+|+..|+.....+++..+.... ..++.-...+.-+..-.|+.+.+.+++
T Consensus       541 e~~~~li~~L~~~~-dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          541 ELADDLITKMLASD-ESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGHHHHHHHHHCS-CHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             HHHHHHHHHHHhCC-CHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            88888888877531 222 2232   23346888899888887888777542 223332222222333467777777777


Q ss_pred             hcCC-CCChhHH--HHHHHHHHhcCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHH--hcCC-------cHHHHHHHHH
Q 044628          423 GSVK-EPDLVTW--TSIIGAYAFHGLS-KESIEVFEKMLSHAVRPDSIAFLEVLSAC--SHGG-------LVSEGLRYFN  489 (665)
Q Consensus       423 ~~~~-~~~~~~~--~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~t~~~ll~a~--~~~g-------~~~~a~~~~~  489 (665)
                      +.+. ..|...-  -++.-|....|.. .+|++++..+..   .+|..+-...+.++  .-.|       ++.+.++.+.
T Consensus       618 ~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vrq~Ai~ALG~Ig~gtnna~~~rva~~l~~L~  694 (963)
T 4ady_A          618 QLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVRQAAMIALSMILIQQTEKLNPQVADINKNFL  694 (963)
T ss_dssp             TTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHHHHHHHHHHHHSTTCCTTTCTTHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHHHHHHHHHHHHhcCCccccchHHHHHHHHHH
Confidence            7554 2344333  3344444444544 678888888874   55554433333332  2222       3444444444


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHhcCC
Q 044628          490 LMISDYHILPDSEHYTCLTDLLGRVGL  516 (665)
Q Consensus       490 ~~~~~~~~~p~~~~~~~l~~~~~~~g~  516 (665)
                      ....+..-.++...-..+..++..+|.
T Consensus       695 ~~~~dk~~d~~~~fga~iAqGll~aG~  721 (963)
T 4ady_A          695 SVITNKHQEGLAKFGACVAQGIMNAGG  721 (963)
T ss_dssp             HHHHCSSSCHHHHHHHHHHHHHHTTGG
T ss_pred             HHHhcccccHHHHHHHHHHHHHHhcCC
Confidence            443311122334444555555555554

>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=88.20  E-value=12  Score=36.96  Aligned_cols=124  Identities=12%  Similarity=0.089  Sum_probs=57.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCC--------CChhHHHHHHHHHHhc-CChHHHHHHHHHHHHcCCCCCHHHH-----
Q 044628          403 NALINAYSKCGSIAGALQCFGSVKE--------PDLVTWTSIIGAYAFH-GLSKESIEVFEKMLSHAVRPDSIAF-----  468 (665)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~t~-----  468 (665)
                      ..|...|.+.|+.++..+++.....        +.......++..+... +..+.-.++..+..+.. +-+..+|     
T Consensus        23 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~flr~~l  101 (394)
T 3txn_A           23 LQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFLRQSL  101 (394)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence            3455566666666666666655542        2223344455555443 22222333333333210 0011122     


Q ss_pred             -HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          469 -LEVLSACSHGGLVSEGLRYFNLMISDYHILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       469 -~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                       ..+...|...|++.+|.+++..+.+...-..+    .+.|..-+.+|...|++.++...+.+.
T Consensus       102 ~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a  165 (394)
T 3txn_A          102 EARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSA  165 (394)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence             13445556666666666666655553221111    233444455556666666666555544

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=87.76  E-value=7.4  Score=29.43  Aligned_cols=89  Identities=15%  Similarity=0.051  Sum_probs=65.6

Q ss_pred             cCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHH
Q 044628          174 QADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNL  253 (665)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  253 (665)
                      .....++|.-+-+.+...|-  ...+--.-+..+...|++++|..+.+.+..||...|-+|-.+  +.|..+++..-+.+
T Consensus        19 G~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~   94 (116)
T 2p58_C           19 GNHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNR   94 (116)
T ss_dssp             TTTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHH
Confidence            34467899999999888764  333333344567889999999999999999999999887664  66777777777777


Q ss_pred             HHHCCCCCCHhhHH
Q 044628          254 MRLEGMKGDYFTFS  267 (665)
Q Consensus       254 m~~~g~~p~~~t~~  267 (665)
                      +...| .|....|.
T Consensus        95 la~sg-~p~~q~Fa  107 (116)
T 2p58_C           95 LARSQ-DPRIQTFV  107 (116)
T ss_dssp             HTTCC-CHHHHHHH
T ss_pred             HHhCC-CHHHHHHH
Confidence            77665 34444443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=87.40  E-value=2.8  Score=35.42  Aligned_cols=26  Identities=8%  Similarity=-0.084  Sum_probs=14.4

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          568 VNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       568 ~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                      +.-..++.+|.+.|++++|..+.+.+
T Consensus       123 Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          123 EVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            34445555666666666666555543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.29  E-value=7.1  Score=29.50  Aligned_cols=89  Identities=10%  Similarity=0.017  Sum_probs=66.4

Q ss_pred             cCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHH
Q 044628          174 QADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNL  253 (665)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  253 (665)
                      .....++|.-+-+.+...|-  ...+--.-+..+...|++++|..+.+.+..||...|-+|-.+  +.|..+++..-+.+
T Consensus        18 G~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~   93 (115)
T 2uwj_G           18 GQHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCEW--HLGLGAALDRRLAG   93 (115)
T ss_dssp             TTTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHHH--HTTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHH
Confidence            34467889999998888764  333333344567889999999999999999999999887654  67888888888878


Q ss_pred             HHHCCCCCCHhhHH
Q 044628          254 MRLEGMKGDYFTFS  267 (665)
Q Consensus       254 m~~~g~~p~~~t~~  267 (665)
                      +...| .|....|.
T Consensus        94 la~sg-~p~~q~Fa  106 (115)
T 2uwj_G           94 LGGSS-DPALADFA  106 (115)
T ss_dssp             HHTCS-SHHHHHHH
T ss_pred             HHhCC-CHHHHHHH
Confidence            87766 34444443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=86.42  E-value=3.8  Score=34.62  Aligned_cols=25  Identities=4%  Similarity=0.102  Sum_probs=12.9

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHH
Q 044628          468 FLEVLSACSHGGLVSEGLRYFNLMI  492 (665)
Q Consensus       468 ~~~ll~a~~~~g~~~~a~~~~~~~~  492 (665)
                      +..+.+++...|.+..|...|++..
T Consensus        66 l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           66 LVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHH
Confidence            3444455555555555555555543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=86.16  E-value=13  Score=30.52  Aligned_cols=69  Identities=10%  Similarity=-0.043  Sum_probs=33.5

Q ss_pred             CCHHHHHHHHHHHhcCC---cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC
Q 044628          463 PDSIAFLEVLSACSHGG---LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR  532 (665)
Q Consensus       463 p~~~t~~~ll~a~~~~g---~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~  532 (665)
                      |+..|--.+..++.++.   +..+++.+++.+.+. +-.-..+..--|.-++.|.|++++|.+..+.+ .++|+
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~-~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~  109 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE-AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  109 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHH-CCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCC
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-CccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence            44444333334444433   344566666666552 11112333334455566666666666666665 44554

>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=86.03  E-value=1.8  Score=43.32  Aligned_cols=60  Identities=13%  Similarity=-0.022  Sum_probs=50.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      ...++.++...|+.+++...++.++..+|-+-..|..++.+|.++|+..+|.+.|+..+.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~  233 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  233 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344566777889999999999999999998888899999999999999999988877754

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=85.77  E-value=9.8  Score=28.81  Aligned_cols=86  Identities=17%  Similarity=0.224  Sum_probs=57.2

Q ss_pred             hHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 044628          380 SCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH  459 (665)
Q Consensus       380 ~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  459 (665)
                      .++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+...-||...|-+|-..  +.|..+++...+.++-.+
T Consensus        23 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la~s   98 (116)
T 2p58_C           23 HEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNRLARS   98 (116)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHHhC
Confidence            4445555554444443  222211223456678999999999999999999999888654  667788888888788777


Q ss_pred             CCCCCHHHHHH
Q 044628          460 AVRPDSIAFLE  470 (665)
Q Consensus       460 g~~p~~~t~~~  470 (665)
                      | .|....|..
T Consensus        99 g-~p~~q~Fa~  108 (116)
T 2p58_C           99 Q-DPRIQTFVN  108 (116)
T ss_dssp             C-CHHHHHHHH
T ss_pred             C-CHHHHHHHH
Confidence            6 565555544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.67  E-value=9.3  Score=28.88  Aligned_cols=86  Identities=15%  Similarity=0.109  Sum_probs=58.2

Q ss_pred             hHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 044628          380 SCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH  459 (665)
Q Consensus       380 ~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  459 (665)
                      .++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+...-||...|-+|-.  .+.|..+++...+.++-.+
T Consensus        22 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   97 (115)
T 2uwj_G           22 HEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGGS   97 (115)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            4445455444444443  22221122345667899999999999999999999988755  4778888888888888877


Q ss_pred             CCCCCHHHHHH
Q 044628          460 AVRPDSIAFLE  470 (665)
Q Consensus       460 g~~p~~~t~~~  470 (665)
                      | .|....|..
T Consensus        98 g-~p~~q~Fa~  107 (115)
T 2uwj_G           98 S-DPALADFAA  107 (115)
T ss_dssp             S-SHHHHHHHH
T ss_pred             C-CHHHHHHHH
Confidence            6 665556644

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=85.43  E-value=22  Score=38.57  Aligned_cols=54  Identities=13%  Similarity=-0.005  Sum_probs=46.2

Q ss_pred             HHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccC
Q 044628          271 NSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMT  325 (665)
Q Consensus       271 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  325 (665)
                      ..|...|+++.|.++-.+.+... +.+-.+|..|..+|.+.|+++.|+-.++.++
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            44667889999999999888874 6677889999999999999999999999886

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=85.20  E-value=27  Score=33.45  Aligned_cols=112  Identities=13%  Similarity=0.130  Sum_probs=70.3

Q ss_pred             HHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHH----HHHHHHCCCCCCHhhHHHHHHHHhc
Q 044628          200 SSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAV----FNLMRLEGMKGDYFTFSSLVNSCGT  275 (665)
Q Consensus       200 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~g~~p~~~t~~~ll~~~~~  275 (665)
                      |.++..=|.+.+++++|.+++-.           -...+.+.|+...|-++    ++-..+.++++|..+...++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            34455558889999999988643           23455666776655544    3555667888888887777777665


Q ss_pred             cCCcH-HHHHHHHHHHH----hC--CCCchhHHHHHHHHHHhcCCHHHHHHHHh
Q 044628          276 LGSSK-LGRQIHGLVIK----QS--FDLDVLVATSLVDMYAKNGNIDDACRVFD  322 (665)
Q Consensus       276 ~~~~~-~a~~~~~~~~~----~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~  322 (665)
                      ...-+ .-..+...+++    .|  -..|......+...|.+.+++.+|+.-|-
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i  160 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV  160 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            54321 12333333333    23  23456666777777777777777777764

>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=85.01  E-value=3.7  Score=31.22  Aligned_cols=63  Identities=14%  Similarity=0.207  Sum_probs=48.5

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 044628          445 LSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTD  509 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  509 (665)
                      +.-+..+-++.+....+.|++....+.|.||.+.+++..|.++|+.++.+.+  +....|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~--~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CchhhHHHHHH
Confidence            3446666677777778899999999999999999999999999999887543  44556766653

>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=84.92  E-value=11  Score=30.57  Aligned_cols=75  Identities=11%  Similarity=0.003  Sum_probs=48.1

Q ss_pred             CCCHHHHHHHHHHHhcCC---cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHH
Q 044628          462 RPDSIAFLEVLSACSHGG---LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLG  537 (665)
Q Consensus       462 ~p~~~t~~~ll~a~~~~g---~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~  537 (665)
                      .|+..|--.+..++.++.   +..+|+.+++.+.+. +-.-..+.+--|.-++.|.|++++|.+..+.+ .++|+..--.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~-~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~  115 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE-AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  115 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH-CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-CcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHH
Confidence            455555444455555554   456788888888763 21113455566777888889999998888887 7777644333

>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=84.78  E-value=4.8  Score=30.59  Aligned_cols=55  Identities=16%  Similarity=0.231  Sum_probs=41.6

Q ss_pred             HHHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          519 EAYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       519 ~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      .++.-+-.+..-|++.+..+.+.||++.+++..|.++++-+...-.+...+|-.+
T Consensus        31 rglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~   85 (109)
T 1v54_E           31 KGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYV   85 (109)
T ss_dssp             HHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHH
T ss_pred             HHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHH
Confidence            3444444557889999999999999999999999999998865544434556544

>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=83.41  E-value=28  Score=34.46  Aligned_cols=160  Identities=11%  Similarity=-0.018  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCH---HHHHHHHHHHhcC-CcHHHHHHHHHHHHHhcCCCCChhhH--
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSH-AVRPDS---IAFLEVLSACSHG-GLVSEGLRYFNLMISDYHILPDSEHY--  504 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~---~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~p~~~~~--  504 (665)
                      ....|...|.+.|+.++..+++...+.- +.-|-.   .....++..+... +..+.-.++.....+...  -+...|  
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~--~~~r~flr   98 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK--QEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH--HTTCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence            4566788899999999999998877542 111212   2356777777664 334444444444443111  111222  


Q ss_pred             ----HHHHHHHHhcCChHHHHHHHHhC----C-CCCC---hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC---CCCC--
Q 044628          505 ----TCLTDLLGRVGLLVEAYDLLASM----P-IEPR---SDTLGAFIGACKVHGSIGLAKWAAEKLLELE---PSKP--  567 (665)
Q Consensus       505 ----~~l~~~~~~~g~~~~A~~~~~~~----~-~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---p~~~--  567 (665)
                          .-+++.|...|++.+|.+++.++    . ....   ..++..-+..|...+|...++.++.++....   +.+|  
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence                36789999999999999998888    1 1111   1223334467888999999999998886432   1222  


Q ss_pred             --chHHHHHHHHH-hcCCHHHHHHHHHHH
Q 044628          568 --VNYALVSNVYA-SERCWFDVARLRKMM  593 (665)
Q Consensus       568 --~~~~~l~~~y~-~~g~~~~A~~~~~~m  593 (665)
                        .....-|-++. ..|+|.+|...|-..
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence              22335566777 899999999887554

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.43  E-value=12  Score=34.61  Aligned_cols=49  Identities=12%  Similarity=0.123  Sum_probs=21.1

Q ss_pred             hcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 044628          442 FHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMI  492 (665)
Q Consensus       442 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  492 (665)
                      +.|..++|++....-++.  .| |...-..++.-+|-.|+++.|.+-++...
T Consensus         9 ~~g~L~~al~~~~~~VR~--~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a   58 (273)
T 1zbp_A            9 SEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSI   58 (273)
T ss_dssp             TTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            344444444444444443  22 22333334444444444444444444443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.61  E-value=47  Score=33.52  Aligned_cols=96  Identities=11%  Similarity=0.068  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhcCCcHHHHHHHHHHHHHh-cCCCCC----h
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDS-----IAFLEVLSACSHGGLVSEGLRYFNLMISD-YHILPD----S  501 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~-~~~~p~----~  501 (665)
                      ....|...|...|++.+|.+++.++...-...+.     ..+...++.|...+++.+|..+++++... ....+.    .
T Consensus       139 l~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~  218 (445)
T 4b4t_P          139 VTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKL  218 (445)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHH
Confidence            3456778889999999999999998763222222     24566677899999999999999887431 112222    3


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHhC
Q 044628          502 EHYTCLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       502 ~~~~~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      ..|.+++..+...+++.+|-..|.++
T Consensus       219 ~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          219 EYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            46788888999999999998887766

>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=81.41  E-value=9.3  Score=37.97  Aligned_cols=68  Identities=15%  Similarity=0.099  Sum_probs=42.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH----hcCCCCChhh
Q 044628          435 SIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMIS----DYHILPDSEH  503 (665)
Q Consensus       435 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  503 (665)
                      .++..+...|++++|+..++.+.... .-+...+..++.++...|+..+|++.|+...+    +.|+.|...+
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            34556666777777777766666541 23556677777777777777777777766543    3466666543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	665
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.56
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.5
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.09
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.02
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.02
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.99
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.98
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.97
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.97
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.91
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.9
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.77
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.67
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.65
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.64
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.64
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.55
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.55
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.54
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.51
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.5
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.47
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.42
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.35
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.34
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.32
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.26
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.18
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.17
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.16
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.15
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.1
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.09
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.04
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.99
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.87
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.84
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.78
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.71
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.71
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.7
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.68
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.64
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.62
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.59
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.58
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.4
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.33
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.29
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.24
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.09
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.02
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.34
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.22
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.29
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.11
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.62
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	92.66
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.34
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	89.2
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.84
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	83.17

>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=99.90  E-value=1.3e-20  Score=191.29  Aligned_cols=370  Identities=14%  Similarity=0.124  Sum_probs=259.7

Q ss_pred             HHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCC---CCchhHHHHHHHHHhcCCchH
Q 044628          170 RACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLC---RDLVLWNVMVSCYALNCLGDG  246 (665)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  246 (665)
                      ..+.+.|++++|.+.++.+++.. +-+..++..+..+|.+.|++++|...|++...   .+..+|..+...|.+.|++++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccc
Confidence            44556788888888888877763 23566777777778888888888888876632   245677777777778888888


Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCC
Q 044628          247 AIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTA  326 (665)
Q Consensus       247 A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  326 (665)
                      |+..+........ .+..............+................ .................+....+...+.....
T Consensus        86 A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          86 AIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccc-ccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhhc
Confidence            8877777766432 223333333333334444444444444443333 22333333344444445555555444443321


Q ss_pred             ---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHH
Q 044628          327 ---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIEN  403 (665)
Q Consensus       327 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~  403 (665)
                         .+...+..+...+...|++++|...+++...                                   .. +.+...+.
T Consensus       164 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~-----------------------------------~~-p~~~~~~~  207 (388)
T d1w3ba_         164 TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVT-----------------------------------LD-PNFLDAYI  207 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH-----------------------------------HC-TTCHHHHH
T ss_pred             cCcchhHHHHhhcccccccCcHHHHHHHHHHHHH-----------------------------------hC-cccHHHHH
Confidence               2233444445555555555555555554443                                   22 22344556


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCC
Q 044628          404 ALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGG  479 (665)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g  479 (665)
                      .+...|...|++++|...|++..   ..+...|..+...+...|++++|++.|++..+.  .|+ ..++..+..++...|
T Consensus       208 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~  285 (388)
T d1w3ba_         208 NLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKG  285 (388)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHS
T ss_pred             HHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            67777888888888888887655   356677888889999999999999999999885  554 467888889999999


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHH
Q 044628          480 LVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAE  557 (665)
Q Consensus       480 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~  557 (665)
                      ++++|++.++....  ..+.+...+..+..++.+.|++++|++.+++. .+.|+ ..+|..+..++...|++++|+..++
T Consensus       286 ~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~  363 (388)
T d1w3ba_         286 SVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             CHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CHHHHHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999887  34567788899999999999999999999987 66775 6678888999999999999999999


Q ss_pred             HHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          558 KLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       558 ~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      ++++++|+++.+|..|+.+|.+.|+
T Consensus       364 ~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         364 EAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999999998885

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=5.1e-20  Score=186.95  Aligned_cols=353  Identities=14%  Similarity=0.069  Sum_probs=263.8

Q ss_pred             HHHHhcCCchHHHHHHHHHHHCCCCC-CHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH
Q 044628          236 SCYALNCLGDGAIAVFNLMRLEGMKG-DYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNI  314 (665)
Q Consensus       236 ~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  314 (665)
                      ..+.+.|++++|++.|+++.+.  .| +...+..+...+...|++++|...++.+++.. +.+..++..+..+|.+.|++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            3455667777777777776654  23 34555666666667777777777777777664 44566777777777888888


Q ss_pred             HHHHHHHhccCC---CCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHH
Q 044628          315 DDACRVFDGMTA---KNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAI  391 (665)
Q Consensus       315 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~  391 (665)
                      ++|...+....+   .+...+..........+....+............... .............+....+........
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLY-CVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCT-HHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccchhhhhHHHHHHhh
Confidence            888777776653   2333344444445555555555555555544332222 233334444455666666666666655


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH
Q 044628          392 KNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAF  468 (665)
Q Consensus       392 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  468 (665)
                      ... +.+...+..+...+...|++++|...+++..   ..+...|..+...+...|++++|+..+++....+ ..+...+
T Consensus       163 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  240 (388)
T d1w3ba_         163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             ccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHH
Confidence            544 3345667778889999999999999998765   3566789999999999999999999999998864 4455678


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-C-CCCChhHHHHHHHHHHhc
Q 044628          469 LEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-P-IEPRSDTLGAFIGACKVH  546 (665)
Q Consensus       469 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~  546 (665)
                      ..+...+...|++++|++.|+++.+  -.+-+...|..+..++.+.|++++|++.++.. . .+.+...+..+...+...
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  318 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHC
Confidence            8888899999999999999999987  22335778999999999999999999999988 3 334677888888999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          547 GSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       547 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      |++++|+..++++++++|+++.++..++.+|...|++++|.+.+++..+.
T Consensus       319 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         319 GNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999988743

>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=99.56  E-value=1.7e-13  Score=134.68  Aligned_cols=224  Identities=14%  Similarity=0.039  Sum_probs=156.4

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHhhCCCCCC-HHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 044628          334 TMVVGFGQNGDGREAVKLLRDMLQGSFCPD-EVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKC  412 (665)
Q Consensus       334 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~  412 (665)
                      .....+.+.|++++|+..|++..+..  |+ ...+                                   ..+...|...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~-----------------------------------~~lg~~~~~~   66 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAW-----------------------------------QYLGTTQAEN   66 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHH-----------------------------------HHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHH-----------------------------------HHHHHHHHHc
Confidence            34556677777777777777776642  33 2333                                   3344445555


Q ss_pred             CCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH----------------HHHHHHH
Q 044628          413 GSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSI----------------AFLEVLS  473 (665)
Q Consensus       413 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----------------t~~~ll~  473 (665)
                      |++++|...|++..   ..+...|..+...|...|++++|.+.+++....  .|+..                .....+.
T Consensus        67 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (323)
T d1fcha_          67 EQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILG  144 (323)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--STTTGGGCC---------------CTTH
T ss_pred             CChHHHHHHHHhhhccccccccccccccccccccccccccccchhhHHHh--ccchHHHHHhhhhhhhhcccccchhhHH
Confidence            55555555554433   234445555556666666666666666665543  22210                0111122


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHH
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~  551 (665)
                      .+...+...+|.+.|....+...-.++...+..+...+.+.|++++|++.+++. ...| +...|..+...+...|++++
T Consensus       145 ~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~  224 (323)
T d1fcha_         145 SLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEE  224 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchh
Confidence            233446678888888888764333445677888999999999999999999987 4455 47789999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          552 AKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      |++.++++++++|+++.++..++.+|.+.|++++|.+.+++..+.
T Consensus       225 A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         225 AVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999988764

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=4.1e-13  Score=131.93  Aligned_cols=149  Identities=12%  Similarity=-0.036  Sum_probs=116.5

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCh
Q 044628          439 AYAFHGLSKESIEVFEKMLSHAV-RPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLL  517 (665)
Q Consensus       439 ~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  517 (665)
                      .+...+...+|.+.|.+..+... .++...+..+...+...|++++|+..|+.....  .+-+...|..+..+|.+.|++
T Consensus       145 ~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~  222 (323)
T d1fcha_         145 SLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQS  222 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccc
Confidence            34455667888999988877532 234567788888899999999999999998872  233577889999999999999


Q ss_pred             HHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch-----------HHHHHHHHHhcCCHH
Q 044628          518 VEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN-----------YALVSNVYASERCWF  584 (665)
Q Consensus       518 ~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----------~~~l~~~y~~~g~~~  584 (665)
                      ++|++.++++ ...|+ ..+|..+..+|...|++++|+..++++++++|++...           +..+..++...|+++
T Consensus       223 ~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d  302 (323)
T d1fcha_         223 EEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  302 (323)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             hhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHH
Confidence            9999999988 55564 6789999999999999999999999999999987653           345666777777776


Q ss_pred             HHHHH
Q 044628          585 DVARL  589 (665)
Q Consensus       585 ~A~~~  589 (665)
                      .+...
T Consensus       303 ~~~~~  307 (323)
T d1fcha_         303 AYGAA  307 (323)
T ss_dssp             GHHHH
T ss_pred             HHHHH
Confidence            55443

>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=99.09  E-value=6e-09  Score=102.52  Aligned_cols=262  Identities=12%  Similarity=-0.062  Sum_probs=169.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHhccCC--CC------chhHHHHHHHHHcCCChHHHHHHHHHHhhCCC-CCCHHHHHHHHHH
Q 044628          303 SLVDMYAKNGNIDDACRVFDGMTA--KN------VVSWNTMVVGFGQNGDGREAVKLLRDMLQGSF-CPDEVTLASILSS  373 (665)
Q Consensus       303 ~li~~~~~~g~~~~A~~~~~~~~~--~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~~  373 (665)
                      .....+...|++++|.++|++..+  |+      ...++.+...|...|++++|+..|++...... .++...       
T Consensus        17 lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~-------   89 (366)
T d1hz4a_          17 LRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHY-------   89 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH-------
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHH-------
Confidence            344556677777777777765432  21      13455566667777777777777776654210 111111       


Q ss_pred             hCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC-------CC----ChhHHHHHHHHHHh
Q 044628          374 CGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVK-------EP----DLVTWTSIIGAYAF  442 (665)
Q Consensus       374 ~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~----~~~~~~~li~~~~~  442 (665)
                                              ....+..+...|...|++..|...+....       .+    ....+..+...+..
T Consensus        90 ------------------------~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~  145 (366)
T d1hz4a_          90 ------------------------ALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWA  145 (366)
T ss_dssp             ------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHH
Confidence                                    01222344556666777777766665432       11    11245556677888


Q ss_pred             cCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHh
Q 044628          443 HGLSKESIEVFEKMLSHAVRP----DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-----SEHYTCLTDLLGR  513 (665)
Q Consensus       443 ~g~~~~A~~~~~~m~~~g~~p----~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~  513 (665)
                      .|+++.+...+.+........    ...++......+...|...++...+........-...     ...+..+...+..
T Consensus       146 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (366)
T d1hz4a_         146 WARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQM  225 (366)
T ss_dssp             TTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH
T ss_pred             hcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHh
Confidence            899999998888887743221    2234555566677788888888888776553222111     2345566677888


Q ss_pred             cCChHHHHHHHHhC-CCCC-----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHh------cCCCCCchHHHHHHHHHhcC
Q 044628          514 VGLLVEAYDLLASM-PIEP-----RSDTLGAFIGACKVHGSIGLAKWAAEKLLE------LEPSKPVNYALVSNVYASER  581 (665)
Q Consensus       514 ~g~~~~A~~~~~~~-~~~p-----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~------~~p~~~~~~~~l~~~y~~~g  581 (665)
                      .|++++|.+.+++. ...|     ....+..+..++...|++++|...+++++.      ..|....++..++.+|.+.|
T Consensus       226 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  305 (366)
T d1hz4a_         226 TGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAG  305 (366)
T ss_dssp             TTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCC
Confidence            99999999999887 2222     133456677888999999999999998873      34555678889999999999


Q ss_pred             CHHHHHHHHHHHhh
Q 044628          582 CWFDVARLRKMMRD  595 (665)
Q Consensus       582 ~~~~A~~~~~~m~~  595 (665)
                      ++++|.+.+++..+
T Consensus       306 ~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         306 RKSDAQRVLLDALK  319 (366)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999987754

>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=99.02  E-value=1.4e-08  Score=98.05  Aligned_cols=186  Identities=11%  Similarity=0.030  Sum_probs=134.0

Q ss_pred             chHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CC-hhHHHHHHHHHHhcCChHHHHHHHH
Q 044628          379 ISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PD-LVTWTSIIGAYAFHGLSKESIEVFE  454 (665)
Q Consensus       379 ~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~-~~~~~~li~~~~~~g~~~~A~~~~~  454 (665)
                      ..+.+..+++..++...+.+...+..++..+.+.|+++.|..+|+++.+   .+ ...|...+..+.+.|+.+.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            3466777777777655556666777778888888888888888887653   23 3468888888888888888888888


Q ss_pred             HHHHcCCCCCHHHHHHHHH-HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC----CC
Q 044628          455 KMLSHAVRPDSIAFLEVLS-ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM----PI  529 (665)
Q Consensus       455 ~m~~~g~~p~~~t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~  529 (665)
                      ++++.+.. +...|..... -+...|+.+.|..+|+.+.+.  .+.+...|...++.+.+.|+.++|..+|++.    +.
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            88876422 3333333322 234457888888888888873  3445677888888888888888888888876    34


Q ss_pred             CCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          530 EPR--SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       530 ~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      .|+  ...|...+..-..+|+.+.+..+.+++.++.|+..
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            443  34788888777888888888888888888777653

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.02  E-value=2.4e-09  Score=103.60  Aligned_cols=189  Identities=6%  Similarity=0.024  Sum_probs=106.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHh
Q 044628          402 ENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHG-LSKESIEVFEKMLSHAVRPD-SIAFLEVLSACS  476 (665)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~  476 (665)
                      ++.+...+.+.+..++|.++++++.+   .+...|+....++...| ++++|++.+++..+.  .|+ ..+|..+...+.
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHhHHHH
Confidence            34444455556666666666665542   34445666666655554 356666666666654  343 345666666666


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCC------
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGS------  548 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~------  548 (665)
                      ..|++++|++.++.+.+.  -+.+...|..+..++.+.|++++|++.++++ .+.| +...|..+...+...+.      
T Consensus       124 ~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             hhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhh
Confidence            666666666666666651  2224556666666666666666666666666 4444 34455554444433332      


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .++|+..++++++++|++..+|..++.++...| .+++.+.++...+
T Consensus       202 ~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~  247 (315)
T d2h6fa1         202 LEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLD  247 (315)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHH
T ss_pred             hHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHH
Confidence            456666666666666666666666666654443 3555555554443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.99  E-value=7.3e-10  Score=108.71  Aligned_cols=228  Identities=9%  Similarity=-0.063  Sum_probs=156.5

Q ss_pred             CChHHHHHHHHHHhhCCCCCC-HHHHHHHHHHh--CCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 044628          343 GDGREAVKLLRDMLQGSFCPD-EVTLASILSSC--GSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGAL  419 (665)
Q Consensus       343 g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~--~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  419 (665)
                      |++++|+..+++..+..  |+ ...+.....++  ...++.+.+...+..+.+.........+..+...+...|..++|.
T Consensus        87 ~~~~~al~~~~~~l~~~--pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          87 ALVKAELGFLESCLRVN--PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhC--CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHH
Confidence            33455666666655432  32 22233332222  223345566666666655543322222334456777889999999


Q ss_pred             HHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 044628          420 QCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYH  496 (665)
Q Consensus       420 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  496 (665)
                      ..++...+   .+...|+.+...+...|++++|...+++..+.  .|+..   .+...+...+..+++...+.....  .
T Consensus       165 ~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~--~  237 (334)
T d1dcea1         165 AFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLL--G  237 (334)
T ss_dssp             HHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHH--S
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHH--h
Confidence            99998874   56778999999999999998887766555442  22222   223334455667788888888776  3


Q ss_pred             CCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 044628          497 ILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVS  574 (665)
Q Consensus       497 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  574 (665)
                      .+++...+..++..+...|+.++|.+.+.+. ...|+ ..+|..+..++...|+.++|...++++++++|.+...|..|+
T Consensus       238 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~  317 (334)
T d1dcea1         238 RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLR  317 (334)
T ss_dssp             CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHH
Confidence            4455666777888888999999999999887 66664 667888888999999999999999999999999888888887


Q ss_pred             HHHHh
Q 044628          575 NVYAS  579 (665)
Q Consensus       575 ~~y~~  579 (665)
                      ..+.-
T Consensus       318 ~~~~~  322 (334)
T d1dcea1         318 SKFLL  322 (334)
T ss_dssp             HHHHH
T ss_pred             HHHhH
Confidence            77763

>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=98.98  E-value=7.2e-09  Score=100.16  Aligned_cols=219  Identities=11%  Similarity=0.114  Sum_probs=159.0

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 044628          331 SWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYS  410 (665)
Q Consensus       331 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~  410 (665)
                      .|+.+...+.+.+.+++|+++++++++.  .|+..+                                  .|+.....+.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~----------------------------------a~~~r~~~l~   88 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYT----------------------------------VWHFRRVLLK   88 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHH----------------------------------HHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChH----------------------------------HHHHHHHHHH
Confidence            4666667778888888888888888773  455433                                  3344555555


Q ss_pred             hcC-CHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHH
Q 044628          411 KCG-SIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGL  485 (665)
Q Consensus       411 ~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~  485 (665)
                      +.| ++++|...+++..   ..+..+|+.+...+...|++++|++.++++.+.  .| +...|..+...+.+.|++++|+
T Consensus        89 ~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al  166 (315)
T d2h6fa1          89 SLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNEL  166 (315)
T ss_dssp             HTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHH
T ss_pred             HhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHH
Confidence            555 4788888887765   367788999988999999999999999999985  55 4578888888999999999999


Q ss_pred             HHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCC------hHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHH
Q 044628          486 RYFNLMISDYHILP-DSEHYTCLTDLLGRVGL------LVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAA  556 (665)
Q Consensus       486 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~------~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~  556 (665)
                      +.|+.+++   +.| +...|+.+..++.+.|.      +++|++.+.++ ...| +...|..+...+.. ...+++...+
T Consensus       167 ~~~~~al~---~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~  242 (315)
T d2h6fa1         167 QYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLL  242 (315)
T ss_dssp             HHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHH
T ss_pred             HHHHHHHH---HCCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHH
Confidence            99999987   344 56678877777777665      57888888776 5556 56777777665544 4467888999


Q ss_pred             HHHHhcCCCCCc--hHHHHHHHHHhc--CCHHHHHHHHH
Q 044628          557 EKLLELEPSKPV--NYALVSNVYASE--RCWFDVARLRK  591 (665)
Q Consensus       557 ~~~~~~~p~~~~--~~~~l~~~y~~~--g~~~~A~~~~~  591 (665)
                      +.+++++|+...  .+..++.+|...  +..+.+...++
T Consensus       243 ~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~  281 (315)
T d2h6fa1         243 NQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILN  281 (315)
T ss_dssp             HHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred             HHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            999998887544  445677777654  34334443333

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.97  E-value=2.3e-09  Score=100.73  Aligned_cols=192  Identities=14%  Similarity=-0.046  Sum_probs=119.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHh
Q 044628          401 IENALINAYSKCGSIAGALQCFGSVK---EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACS  476 (665)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~  476 (665)
                      ++..+...|.+.|++++|...|++..   ..+..+|+.+..+|...|++++|++.|+++.+.  .|+ ..++..+..++.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHH
Confidence            44456677788888888888887765   356677888888888888888888888888875  443 456777777788


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCChhHHHHHHHHHH----hcCCHHH
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRSDTLGAFIGACK----VHGSIGL  551 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~----~~g~~~~  551 (665)
                      ..|++++|.+.|+...+.  .+.+......+...+.+.+..+.+..+.... ...++...+.. +..+.    ..+..+.
T Consensus       117 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  193 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNI-VEFYLGNISEQTLMER  193 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHH-HHHHTTSSCHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhH-HHHHHHHHHHHHHHHH
Confidence            888888888888887762  1223333333444445555544444443333 11222222221 11111    1222344


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          552 AKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +...+.......|....+|..++.+|...|++++|.+.+++.....
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         194 LKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            4444444445556666677788888888888888888888776544

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.97  E-value=3.6e-08  Score=96.74  Aligned_cols=288  Identities=9%  Similarity=-0.054  Sum_probs=184.5

Q ss_pred             HHHHhccCCcHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhcCCHHHHHHHHhccCC-----CC----chhHHHHH
Q 044628          270 VNSCGTLGSSKLGRQIHGLVIKQSFDLD----VLVATSLVDMYAKNGNIDDACRVFDGMTA-----KN----VVSWNTMV  336 (665)
Q Consensus       270 l~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li  336 (665)
                      ...+...|++++|.++++..++..-..+    ...++.+...|...|++++|...|++..+     ++    ..++..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            3446789999999999999988642211    24677788999999999999999987753     11    23456677


Q ss_pred             HHHHcCCChHHHHHHHHHHhhC----CCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 044628          337 VGFGQNGDGREAVKLLRDMLQG----SFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKC  412 (665)
Q Consensus       337 ~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~  412 (665)
                      ..+...|++..|...+.+....    +......                                ....+..+...|...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~--------------------------------~~~~~~~la~~~~~~  146 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPM--------------------------------HEFLVRIRAQLLWAW  146 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTH--------------------------------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhH--------------------------------HHHHHHHHHHHHHHh
Confidence            7888889999998888776431    1111100                                011223344556666


Q ss_pred             CCHHHHHHHHhcCCC--------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCCH----HHHHHHHHHHhcC
Q 044628          413 GSIAGALQCFGSVKE--------PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHA--VRPDS----IAFLEVLSACSHG  478 (665)
Q Consensus       413 g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~~----~t~~~ll~a~~~~  478 (665)
                      |+++.|...+.....        .....+..+...+...|+..++...+.+.....  .....    ..+..+...+...
T Consensus       147 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (366)
T d1hz4a_         147 ARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMT  226 (366)
T ss_dssp             TCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHT
T ss_pred             cchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhc
Confidence            666666666654431        122344555566677778887777776655421  11111    2344555667778


Q ss_pred             CcHHHHHHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCChHHHHHHHHhC-------CCCCC-hhHHHHHHHHHHhcCC
Q 044628          479 GLVSEGLRYFNLMISDYHILP--DSEHYTCLTDLLGRVGLLVEAYDLLASM-------PIEPR-SDTLGAFIGACKVHGS  548 (665)
Q Consensus       479 g~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll~~~~~~g~  548 (665)
                      |++++|...++.......-.+  ....+..+..++...|++++|.+.++++       +..|+ ...+..+...+...|+
T Consensus       227 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  306 (366)
T d1hz4a_         227 GDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGR  306 (366)
T ss_dssp             TCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCC
Confidence            888888888887765211111  1334556778888889988888888765       33443 4467777788889999


Q ss_pred             HHHHHHHHHHHHhcCCCC---------CchHHHHHHHHHhcCCHHHHHHH
Q 044628          549 IGLAKWAAEKLLELEPSK---------PVNYALVSNVYASERCWFDVARL  589 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~---------~~~~~~l~~~y~~~g~~~~A~~~  589 (665)
                      .++|++.+++++++.+..         ...+..+...+...++.+++.+-
T Consensus       307 ~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         307 KSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHHH
Confidence            999999999988765431         11233344455666777776653

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.91  E-value=7e-08  Score=92.89  Aligned_cols=184  Identities=7%  Similarity=-0.019  Sum_probs=145.9

Q ss_pred             hcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 044628          411 KCGSIAGALQCFGSVK----EPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLR  486 (665)
Q Consensus       411 ~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  486 (665)
                      ..+..++|..+|++..    ..+...|...+..+...|+.++|..+|+++++.........|...+..+.+.|.++.|.+
T Consensus        76 ~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~  155 (308)
T d2onda1          76 AKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRM  155 (308)
T ss_dssp             HHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHH
Confidence            3445678888888754    356678899999999999999999999999975322224578888999999999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHH-HhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044628          487 YFNLMISDYHILPDSEHYTCLTDLL-GRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELE  563 (665)
Q Consensus       487 ~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  563 (665)
                      +|+.+.+  ..+.+...|...+... ...|+.+.|..+|+++ ...| +...|...+......|+.+.|+.+|+++++..
T Consensus       156 i~~~al~--~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~  233 (308)
T d2onda1         156 IFKKARE--DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             HHHHHHT--STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             HHHHHHH--hCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC
Confidence            9999987  2334555565555543 3468999999999998 3334 57789999999999999999999999999988


Q ss_pred             CCCCc----hHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          564 PSKPV----NYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       564 p~~~~----~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      |.++.    .|......-...|+.+.+.++.+++.+.
T Consensus       234 ~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         234 SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            76544    5667777777889999999999988654

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.90  E-value=9.4e-09  Score=96.35  Aligned_cols=193  Identities=12%  Similarity=-0.034  Sum_probs=124.0

Q ss_pred             HHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHH
Q 044628          372 SSCGSLSISCETRQVHAYAIKNGVQAFLSIENALINAYSKCGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKE  448 (665)
Q Consensus       372 ~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  448 (665)
                      ..+.+.|+++.|...+...++.. +.+..+++.+..+|.+.|++++|.+.|+++.+   .+..+|..+...|...|++++
T Consensus        45 ~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~  123 (259)
T d1xnfa_          45 VLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKL  123 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHH
Confidence            34444555555555555554433 23456677888899999999999999988763   456788889999999999999


Q ss_pred             HHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC----hHHHHHH
Q 044628          449 SIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL----LVEAYDL  523 (665)
Q Consensus       449 A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----~~~A~~~  523 (665)
                      |++.|++..+.  .| +......+..++.+.+..+....+......   ..+....+. ++..+.....    .+.+...
T Consensus       124 A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  197 (259)
T d1xnfa_         124 AQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGNISEQTLMERLKAD  197 (259)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cchhhhhhh-HHHHHHHHHHHHHHHHHHHHH
Confidence            99999999886  44 344444444455555665556555555544   223332332 2333322222    2222222


Q ss_pred             HHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 044628          524 LASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYA  571 (665)
Q Consensus       524 ~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  571 (665)
                      +... ...|+ ..+|..+...+...|++++|+..++++++.+|++...|.
T Consensus       198 ~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         198 ATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             HHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            2221 22233 346777888899999999999999999999998755443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.77  E-value=7.7e-09  Score=101.17  Aligned_cols=252  Identities=8%  Similarity=-0.101  Sum_probs=167.8

Q ss_pred             HHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHH----HHHHHHhCC-------CCchHhHHHHHHHHHHhCCCCchhHHH
Q 044628          335 MVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTL----ASILSSCGS-------LSISCETRQVHAYAIKNGVQAFLSIEN  403 (665)
Q Consensus       335 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~----~~ll~~~~~-------~~~~~~a~~i~~~~~~~g~~~~~~~~~  403 (665)
                      ++......+..++|++++.+...  ..|+..+.    ..++.....       .|.++.+..++..+.+.. +.+...+.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~--~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            33333344445778888887766  34665432    122222222       334666777777776654 33445555


Q ss_pred             HHHHHHHhcC--CHHHHHHHHhcCC---CCChhHHHHH-HHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHh
Q 044628          404 ALINAYSKCG--SIAGALQCFGSVK---EPDLVTWTSI-IGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACS  476 (665)
Q Consensus       404 ~li~~~~~~g--~~~~A~~~~~~~~---~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~  476 (665)
                      .+...+...+  ++++|...++++.   .++...|... ...+...|..++|++.++++.+.  .| +...+..+...+.
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~--~p~~~~a~~~l~~~~~  189 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLP  189 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHc--CCCCHHHHHHHHHHHH
Confidence            5555555554  4788888888765   2455565543 35666778888888888888775  44 4456777777777


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC--CCCCChhHHHHHHHHHHhcCCHHHHHH
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM--PIEPRSDTLGAFIGACKVHGSIGLAKW  554 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~  554 (665)
                      ..|++++|...++...+.   .|+   ...+...+...+..+++...+.+.  ...++...+..+...+...|+.++|..
T Consensus       190 ~~~~~~~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~  263 (334)
T d1dcea1         190 QLHPQPDSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCK  263 (334)
T ss_dssp             HHSCCCCSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHH
Confidence            888777776655544431   121   112333455567777777776665  222345556666777788899999999


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          555 AAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       555 ~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      .+.+.++.+|.+..++..++.+|...|++++|.+.+++..+..
T Consensus       264 ~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld  306 (334)
T d1dcea1         264 ELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  306 (334)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999999999999987643

>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=98.67  E-value=4.5e-08  Score=87.55  Aligned_cols=106  Identities=11%  Similarity=-0.042  Sum_probs=54.2

Q ss_pred             CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHH
Q 044628          463 PDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFI  540 (665)
Q Consensus       463 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll  540 (665)
                      |+...+......+.+.|++++|+..|+.++..  .+.+...|..+..+|.+.|++++|++.|+++ .+.|+ ...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            44444445555555555555555555555441  1223444555555555555555555555555 44443 44455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 044628          541 GACKVHGSIGLAKWAAEKLLELEPSKPVNY  570 (665)
Q Consensus       541 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  570 (665)
                      .++...|++++|...++++++++|++...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~  109 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNF  109 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHH
Confidence            555555555555555555555555444333

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=6.5e-08  Score=77.78  Aligned_cols=89  Identities=13%  Similarity=0.065  Sum_probs=60.4

Q ss_pred             HHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHH
Q 044628          508 TDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFD  585 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  585 (665)
                      ...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++.+|..++.+|...|++++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHH
Confidence            44566666777777666666 3344 355666666777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHhhC
Q 044628          586 VARLRKMMRDN  596 (665)
Q Consensus       586 A~~~~~~m~~~  596 (665)
                      |...+++..+.
T Consensus        90 A~~~~~~a~~~  100 (117)
T d1elwa_          90 AKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            77777766643

>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=98.64  E-value=6.8e-07  Score=78.81  Aligned_cols=139  Identities=12%  Similarity=0.084  Sum_probs=99.9

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHH
Q 044628          406 INAYSKCGSIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEG  484 (665)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a  484 (665)
                      ...+...|+++.|.+.|.++.+++...|..+...|...|++++|++.|++.++.  .|+ ...|..+..++.+.|++++|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccHHHH
Confidence            345678899999999999988888888999999999999999999999999885  454 46788888888899999999


Q ss_pred             HHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCChHHHHHHHHhCCCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044628          485 LRYFNLMISDYHILPDSE-HYTCLTDLLGRVGLLVEAYDLLASMPIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLEL  562 (665)
Q Consensus       485 ~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  562 (665)
                      ++.|++....  .+.+.. .|.       ..|.           ..+++ ..++..+..++...|+++.|.+.+++++++
T Consensus        90 ~~~~~kAl~~--~~~n~~~~~~-------~~~~-----------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          90 IKDLKEALIQ--LRGNQLIDYK-------ILGL-----------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHT--TTTCSEEECG-------GGTB-----------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHh--CccCchHHHH-------Hhhh-----------hcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            9999888751  222211 000       0000           01111 234455666777888888888888888887


Q ss_pred             CCCC
Q 044628          563 EPSK  566 (665)
Q Consensus       563 ~p~~  566 (665)
                      .|+.
T Consensus       150 ~~~~  153 (192)
T d1hh8a_         150 KSEP  153 (192)
T ss_dssp             CCSG
T ss_pred             CCCc
Confidence            7763

>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=98.64  E-value=1.3e-07  Score=75.98  Aligned_cols=106  Identities=16%  Similarity=0.098  Sum_probs=89.5

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCC
Q 044628          471 VLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGS  548 (665)
Q Consensus       471 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~  548 (665)
                      -...+...|++++|+.+|+..++.  -+.+...|..+..+|.+.|++++|++.+++. .+.| +...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            345677889999999999998872  3346778889999999999999999999888 4445 57789999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      +++|+..++++++++|+++.++..+.++.+
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            999999999999999999988888887754

>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=98.55  E-value=4e-07  Score=80.31  Aligned_cols=119  Identities=10%  Similarity=-0.058  Sum_probs=89.6

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHH
Q 044628          474 ACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGL  551 (665)
Q Consensus       474 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~  551 (665)
                      .+...|++++|++.|+.+.     +|+...|..+..+|...|++++|++.|++. .+.| +...|..+..++...|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHH
Confidence            3456677777777776542     366677777777888888888888887777 4455 36677777788888888888


Q ss_pred             HHHHHHHHHhcCCCCC----------------chHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          552 AKWAAEKLLELEPSKP----------------VNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       552 a~~~~~~~~~~~p~~~----------------~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      |...++++++..|.+.                .++..++.+|...|++++|.+.++......
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            8888888877655432                346688999999999999999998877543

>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=98.55  E-value=5.7e-07  Score=85.43  Aligned_cols=191  Identities=10%  Similarity=-0.010  Sum_probs=131.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC-----CC----hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HHHHH
Q 044628          404 ALINAYSKCGSIAGALQCFGSVKE-----PD----LVTWTSIIGAYAFHGLSKESIEVFEKMLSHAV---RPD--SIAFL  469 (665)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~t~~  469 (665)
                      -....|..+|++++|.+.|.+..+     .+    ..+|+.+...|.+.|++++|++.+++..+.-.   .+.  ..++.
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  121 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHH
Confidence            345678899999999999887652     22    35788899999999999999999998766211   111  23566


Q ss_pred             HHHHHHh-cCCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCCh--------hH
Q 044628          470 EVLSACS-HGGLVSEGLRYFNLMISDYHILPD----SEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPRS--------DT  535 (665)
Q Consensus       470 ~ll~a~~-~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~--------~~  535 (665)
                      .+...|. ..|++++|++.|+...+-.....+    ..++..+...|.+.|++++|++.++++ ...|+.        ..
T Consensus       122 ~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~  201 (290)
T d1qqea_         122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDY  201 (290)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHH
T ss_pred             HHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHH
Confidence            6666664 569999999999988652211111    345788899999999999999999987 222211        12


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch-----HHHHHHHHHh--cCCHHHHHHHHHHHh
Q 044628          536 LGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN-----YALVSNVYAS--ERCWFDVARLRKMMR  594 (665)
Q Consensus       536 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~y~~--~g~~~~A~~~~~~m~  594 (665)
                      +...+..+...|+.+.|...+++..+++|..+..     ...++.+|..  .+++++|...++.+.
T Consensus       202 ~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         202 FLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            3344456678899999999999999999864332     3445556655  356888888876443

>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=98.54  E-value=9.2e-08  Score=76.11  Aligned_cols=89  Identities=16%  Similarity=0.008  Sum_probs=80.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERC  582 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  582 (665)
                      -.+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            34577888999999999999998 5566 477899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 044628          583 WFDVARLRKMM  593 (665)
Q Consensus       583 ~~~A~~~~~~m  593 (665)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999875

>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=98.51  E-value=4.4e-07  Score=77.45  Aligned_cols=89  Identities=12%  Similarity=-0.006  Sum_probs=61.0

Q ss_pred             HHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHH
Q 044628          508 TDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFD  585 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  585 (665)
                      ...|.+.|++++|++.|+++ ...| +...|..+...+...|+++.|+..++++++++|+++.+|..++.+|...|++++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHH
Confidence            44566677777777777666 3344 355666666677777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHhhC
Q 044628          586 VARLRKMMRDN  596 (665)
Q Consensus       586 A~~~~~~m~~~  596 (665)
                      |...+++....
T Consensus        97 A~~~~~~a~~~  107 (159)
T d1a17a_          97 ALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            77777766543

>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=98.50  E-value=2.1e-07  Score=82.99  Aligned_cols=95  Identities=8%  Similarity=-0.022  Sum_probs=73.8

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHH
Q 044628          428 PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYT  505 (665)
Q Consensus       428 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~  505 (665)
                      |+..........|.+.|++++|+..|++.++.  .| +...|..+..+|.+.|++++|+..|+.+++   +.| +...|.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~---l~p~~~~a~~   76 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHF   76 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH---hCCCcHHHHH
Confidence            45555666777888888888888888888875  44 456677788888888888888888888875   455 466788


Q ss_pred             HHHHHHHhcCChHHHHHHHHhC
Q 044628          506 CLTDLLGRVGLLVEAYDLLASM  527 (665)
Q Consensus       506 ~l~~~~~~~g~~~~A~~~~~~~  527 (665)
                      .+..+|.+.|++++|+..|+++
T Consensus        77 ~lg~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          77 FLGQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHH
Confidence            8888888888888888888876

>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=98.47  E-value=5.7e-07  Score=76.68  Aligned_cols=116  Identities=7%  Similarity=-0.024  Sum_probs=92.9

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCH
Q 044628          472 LSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSI  549 (665)
Q Consensus       472 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~  549 (665)
                      ...|.+.|++++|+..|+++.+.  -+-+...|..+..+|...|++++|++.|+++ .+.|+ ..+|..+..++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            45677888888888888888872  2335777888888999999999999999888 55564 57899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHH--hcCCHHHHHHH
Q 044628          550 GLAKWAAEKLLELEPSKPVNYALVSNVYA--SERCWFDVARL  589 (665)
Q Consensus       550 ~~a~~~~~~~~~~~p~~~~~~~~l~~~y~--~~g~~~~A~~~  589 (665)
                      ++|...++++++++|+++.++..+..+..  ..+.+++|...
T Consensus        95 ~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          95 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999988887776643  44556666554

>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=98.42  E-value=4.2e-07  Score=73.12  Aligned_cols=107  Identities=14%  Similarity=-0.057  Sum_probs=82.8

Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCh---HHHHHHHHhC-CCCCCh---hHHHHHHHH
Q 044628          470 EVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLL---VEAYDLLASM-PIEPRS---DTLGAFIGA  542 (665)
Q Consensus       470 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~-~~~p~~---~~~~~ll~~  542 (665)
                      .+++.+...+++++|.+.|+.....  -+.+..++..+..+|.+.++.   ++|+++++++ ...|+.   .+|..|..+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4667777788888999999888872  234677888888888775544   4688888887 444433   367788899


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          543 CKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       543 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      |...|++++|++.++++++++|++..+...+..+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~  117 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDK  117 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Confidence            999999999999999999999999877776665543

>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=98.35  E-value=2.5e-06  Score=73.33  Aligned_cols=134  Identities=13%  Similarity=0.044  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 044628          432 TWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLL  511 (665)
Q Consensus       432 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  511 (665)
                      .+......+.+.|++++|+..|++.++.-  |..            .+..+.-......+.        ...|..+..+|
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~------------~~~~~~~~~~~~~~~--------~~~~~nla~~y   72 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWL--EYE------------SSFSNEEAQKAQALR--------LASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTC------------CCCCSHHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhc------------cccchHHHhhhchhH--------HHHHHHHHHHH
Confidence            44455667777888888888887776631  100            000000001111111        23577788899


Q ss_pred             HhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHH
Q 044628          512 GRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVA  587 (665)
Q Consensus       512 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~  587 (665)
                      .+.|++++|++.+++. .+.| +...|..+..++...|++++|+..++++++++|+++.+...+..++.+.+...+..
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~e  150 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  150 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999888 5566 57788889999999999999999999999999999999999999988777666543

>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=98.34  E-value=4.3e-06  Score=79.14  Aligned_cols=173  Identities=10%  Similarity=0.001  Sum_probs=130.6

Q ss_pred             CHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHhcCCcHHHHHHHH
Q 044628          414 SIAGALQCFGSVKEPDLVTWTSIIGAYAFHGLSKESIEVFEKMLSH----AVRPDS-IAFLEVLSACSHGGLVSEGLRYF  488 (665)
Q Consensus       414 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~  488 (665)
                      ++++|.++|.+           ....|...|++++|.+.|.+..+.    +-.++. .+|..+..+|.+.|++++|.+.+
T Consensus        32 ~~~~Aa~~y~~-----------aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCVQ-----------AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHH-----------HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            46777666554           577899999999999999998773    212222 47888899999999999999999


Q ss_pred             HHHHHhcCCCCC----hhhHHHHHHHHHh-cCChHHHHHHHHhC-------CCCCC-hhHHHHHHHHHHhcCCHHHHHHH
Q 044628          489 NLMISDYHILPD----SEHYTCLTDLLGR-VGLLVEAYDLLASM-------PIEPR-SDTLGAFIGACKVHGSIGLAKWA  555 (665)
Q Consensus       489 ~~~~~~~~~~p~----~~~~~~l~~~~~~-~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~  555 (665)
                      +.....+.-..+    ...+..+...|.. .|++++|++.+++.       +..+. ..++..+...+...|++++|...
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            987763221222    3456666667754 69999999999877       11111 34577788899999999999999


Q ss_pred             HHHHHhcCCCCCc-------hHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          556 AEKLLELEPSKPV-------NYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       556 ~~~~~~~~p~~~~-------~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ++++.+..|.+..       .+...+.+|...|+++.|.+.+++..+..
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            9999998887643       34567778889999999999999887654

>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=98.32  E-value=3.7e-06  Score=72.27  Aligned_cols=63  Identities=8%  Similarity=-0.118  Sum_probs=58.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          534 DTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      .+|..+..+|.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...+++..+.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            356667788899999999999999999999999999999999999999999999999998764

>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=98.26  E-value=6.1e-06  Score=69.41  Aligned_cols=63  Identities=6%  Similarity=-0.159  Sum_probs=55.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          534 DTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       534 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      .++..+..++.+.|++++|+..++++++++|++..+|..++.+|...|++++|...+++..+.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            356677788889999999999999999999999999999999999999999999999887753

>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=98.18  E-value=2.7e-06  Score=68.21  Aligned_cols=93  Identities=10%  Similarity=-0.064  Sum_probs=77.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhc---CCHHHHHHHHHHHHhcCCCC--CchHHHHHHH
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVH---GSIGLAKWAAEKLLELEPSK--PVNYALVSNV  576 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~  576 (665)
                      ...+++.+...+++++|.+.|++. ...| +..++..+..++.+.   ++.++|+.+++++++.+|.+  ..++..||.+
T Consensus         2 ~~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           2 MEAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            456788899999999999999998 5555 567788888877654   45667999999999998764  3478899999


Q ss_pred             HHhcCCHHHHHHHHHHHhhC
Q 044628          577 YASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       577 y~~~g~~~~A~~~~~~m~~~  596 (665)
                      |.+.|++++|.+.++++.+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            99999999999999999864

>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=98.17  E-value=2.1e-05  Score=67.33  Aligned_cols=131  Identities=14%  Similarity=0.045  Sum_probs=93.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHH
Q 044628          434 TSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLG  512 (665)
Q Consensus       434 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~  512 (665)
                      ......+...|++++|++.|+++++.            +..........+..          .+.| ....|..+..++.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~~----------~~~~~~~~~~~nla~~~~   88 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADGA----------KLQPVALSCVLNIGACKL   88 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHHG----------GGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHHH----------HhChhhHHHHHHHHHHHH
Confidence            34455667778888888888776541            00000000000000          1112 3556778888999


Q ss_pred             hcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHH
Q 044628          513 RVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDV  586 (665)
Q Consensus       513 ~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A  586 (665)
                      +.|++++|+..++++ .+.|+ ...|..+..++...|+++.|+..++++++++|+++.++..+..++.......++
T Consensus        89 ~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~~  164 (169)
T d1ihga1          89 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  164 (169)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999988 66674 778999999999999999999999999999999999888888887665554443

>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=98.16  E-value=1.1e-05  Score=69.12  Aligned_cols=92  Identities=14%  Similarity=0.015  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASE  580 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  580 (665)
                      .|..+..+|.+.|++++|++.+++. .+.| +...|..+..++...|++++|+..++++++++|+++.+...+..+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            5667888899999999999999988 4455 5778888899999999999999999999999999999999999988877


Q ss_pred             CCHHH-HHHHHHHHh
Q 044628          581 RCWFD-VARLRKMMR  594 (665)
Q Consensus       581 g~~~~-A~~~~~~m~  594 (665)
                      +...+ ..+++..|-
T Consensus       146 ~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         146 KEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHH
Confidence            76554 445555554

>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=98.15  E-value=3.3e-06  Score=68.61  Aligned_cols=92  Identities=14%  Similarity=0.087  Sum_probs=76.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-------hHHHHH
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPV-------NYALVS  574 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~l~  574 (665)
                      +..+.+.+.+.|++++|++.|++. .+.| +..+|..+..++...|+++.|+..++++++++|+++.       +|..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            445677888999999999999888 4455 4778888999999999999999999999999988765       455677


Q ss_pred             HHHHhcCCHHHHHHHHHHHhh
Q 044628          575 NVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       575 ~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .++...+++++|.+.+++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            788888999999999987653

>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=98.10  E-value=1e-05  Score=69.36  Aligned_cols=64  Identities=9%  Similarity=-0.087  Sum_probs=59.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          533 SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       533 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ...|..+..++.+.|++++|+..++++++++|+++.+|..+|.+|...|++++|.+.+++..+.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            5567778888999999999999999999999999999999999999999999999999998864

>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=98.09  E-value=2.7e-05  Score=66.54  Aligned_cols=62  Identities=6%  Similarity=-0.135  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          535 TLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       535 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      ++..+..++...|++++|+..++++++++|++..+|..++.+|...|++++|...++++...
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45566778899999999999999999999999999999999999999999999999998764

>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=98.04  E-value=2.5e-05  Score=65.45  Aligned_cols=127  Identities=13%  Similarity=-0.072  Sum_probs=92.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDL  510 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  510 (665)
                      ..+......+.+.|++.+|+..|++.+..  .|..           ....-.........        ....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~-----------~~~~~~~~~~~~~~--------~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHT-----------EEWDDQILLDKKKN--------IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTC-----------TTCCCHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccch-----------hhhhhHHHHHhhhh--------HHHHHHhhHHHH
Confidence            45666677788888888888888887763  1100           00000000000011        113467788999


Q ss_pred             HHhcCChHHHHHHHHhC-CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 044628          511 LGRVGLLVEAYDLLASM-PIEP-RSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYA  578 (665)
Q Consensus       511 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  578 (665)
                      |.+.|++++|++.++++ .+.| +..+|..+..++...|++++|+..++++++++|+++.+...+..+..
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  146 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  146 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999999998 5566 57889999999999999999999999999999999888777766544

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.99  E-value=0.00052  Score=63.13  Aligned_cols=226  Identities=11%  Similarity=-0.065  Sum_probs=141.1

Q ss_pred             CchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCCHHHHHHHHHHhCCCCchHhHHHHHHHHHHhCCCCchhHHHHHHH
Q 044628          328 NVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPDEVTLASILSSCGSLSISCETRQVHAYAIKNGVQAFLSIENALIN  407 (665)
Q Consensus       328 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~li~  407 (665)
                      |+..+..+...+.+.+++++|++.|++..+.|   |...+..                                   |..
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~-----------------------------------Lg~   42 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFN-----------------------------------LGV   42 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHH-----------------------------------HHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHH-----------------------------------HHH
Confidence            34566677777778888888888888887765   2222211                                   222


Q ss_pred             HHHh----cCCHHHHHHHHhcCCC-CChhHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH--Hh
Q 044628          408 AYSK----CGSIAGALQCFGSVKE-PDLVTWTSIIGAYAF----HGLSKESIEVFEKMLSHAVRPDSIAFLEVLSA--CS  476 (665)
Q Consensus       408 ~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a--~~  476 (665)
                      +|..    ..+...|...+....+ .+...+..+...+..    .++.+.|...++...+.|.......+ .....  ..
T Consensus        43 ~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l-~~~~~~~~~  121 (265)
T d1ouva_          43 LYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASL-GGIYHDGKV  121 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHH-HHHHHHCSS
T ss_pred             HHHcCCCcchhHHHHHHhhcccccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhh-cccccCCCc
Confidence            2222    3345555555544432 233444444443332    45677788888887776532221111 11111  22


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCChHHHHHHHHhCCCCCChhHHHHHHHHHHh----cCC
Q 044628          477 HGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR----VGLLVEAYDLLASMPIEPRSDTLGAFIGACKV----HGS  548 (665)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~  548 (665)
                      .......+...+.....    ..+...+..|...|..    ..+...+...++...-..+......|...+..    ..+
T Consensus       122 ~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d  197 (265)
T d1ouva_         122 VTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKN  197 (265)
T ss_dssp             SCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCC
T ss_pred             ccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccc
Confidence            34556777777776655    3556677777777765    45667777777776223355566566555544    568


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCCHHHHHHHHHHHhhCCC
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVSNVYAS----ERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~A~~~~~~m~~~~~  598 (665)
                      .+.|+..++++.+.+  ++.++..|+.+|..    ..+.++|.+.+++..+.|.
T Consensus       198 ~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         198 FKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            999999999998885  46788999999986    3489999999999987764

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=3.8e-06  Score=86.17  Aligned_cols=146  Identities=11%  Similarity=0.010  Sum_probs=70.1

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--hcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCChHHHHH
Q 044628          446 SKESIEVFEKMLSHAVRPDSIAFLEVLSAC--SHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGRVGLLVEAYD  522 (665)
Q Consensus       446 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~--~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~  522 (665)
                      +..+.+.++...+..-.++..-....+..+  ...+.++.+++.+...   +++.| +...+..+...+.+.|+.++|..
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~---~~l~~~~~~~~~~lg~~~~~~~~~~~A~~  141 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTV---FNVDLPCRVKSSQLGIISNKQTHTSAIVK  141 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCChhhHHHHHHhHHHHHhCCCHHHHHH
Confidence            345566666666544334433222222111  1123344444333332   23333 35556667777777788777777


Q ss_pred             HHHhCCCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          523 LLASMPIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       523 ~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      .+++. +.++ ..++..+...++..|++++|+..++++++++|++..+|..||.+|...|+..+|...+.+...
T Consensus       142 ~~~~a-l~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         142 PQSSS-CSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             -CCHH-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHH-hCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            66554 1121 235666777778888888888888888888888888888888888888888888887777654

>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=97.84  E-value=6.3e-05  Score=64.59  Aligned_cols=113  Identities=9%  Similarity=-0.011  Sum_probs=80.6

Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhCCCCC-ChhHHHHHHHHHHhcCC
Q 044628          470 EVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASMPIEP-RSDTLGAFIGACKVHGS  548 (665)
Q Consensus       470 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~ll~~~~~~g~  548 (665)
                      .........|++++|.+.|.....-+   +....        ......+.+...-..+  .+ ....+..+..++...|+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~l--------~~~~~~~w~~~~r~~l--~~~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW---RGPVL--------DDLRDFQFVEPFATAL--VEDKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC---CSSTT--------GGGTTSTTHHHHHHHH--HHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC---ccccc--------ccCcchHHHHHHHHHH--HHHHHHHHHHHHHHHHHCCC
Confidence            34456778899999999998887632   21110        0000000011111111  11 23467788899999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 044628          549 IGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRD  595 (665)
Q Consensus       549 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~  595 (665)
                      +++|+..++++++.+|.+...|..++.+|.+.|++++|.+.|++++.
T Consensus        83 ~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999998854

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.78  E-value=7.8e-05  Score=58.48  Aligned_cols=86  Identities=13%  Similarity=-0.053  Sum_probs=48.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHh
Q 044628          436 IIGAYAFHGLSKESIEVFEKMLSHAVRPD-SIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILP-DSEHYTCLTDLLGR  513 (665)
Q Consensus       436 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  513 (665)
                      +...+.+.|++++|+..|++.++.  .|+ ..+|..+..++.+.|++++|+..|+...+   +.| +...|..+...|..
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~---~~p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARM---LDPKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhcccccccc---cccccccchHHHHHHHHH
Confidence            344555566666666666666654  343 34555555566666666666666666555   223 35555555666666


Q ss_pred             cCChHHHHHHHHh
Q 044628          514 VGLLVEAYDLLAS  526 (665)
Q Consensus       514 ~g~~~~A~~~~~~  526 (665)
                      .|++++|++.+++
T Consensus        97 ~g~~~~A~~~l~~  109 (112)
T d1hxia_          97 EHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            6666666655554

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.71  E-value=0.013  Score=54.84  Aligned_cols=174  Identities=10%  Similarity=0.003  Sum_probs=98.0

Q ss_pred             CCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHH
Q 044628          160 LDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYA  239 (665)
Q Consensus       160 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~  239 (665)
                      ||..-...+..-|-+.|.++.|..++..+.         -|..++..|.+.++++.|.+++....  +..+|..+...+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHHH
Confidence            455555566667778888888888876443         35567777788888888888776543  5567878888877


Q ss_pred             hcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 044628          240 LNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACR  319 (665)
Q Consensus       240 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  319 (665)
                      +.....-|     .+...+...+......++..+-..|..++...+++...... ..+...++-++.+|++.+. ++-.+
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~kl~e  153 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-QKMRE  153 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-HHHHH
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-HHHHH
Confidence            77655432     22233344455666777888888888888888888765432 5566778888888888653 34444


Q ss_pred             HHhccCCC-----------CchhHHHHHHHHHcCCChHHHHHH
Q 044628          320 VFDGMTAK-----------NVVSWNTMVVGFGQNGDGREAVKL  351 (665)
Q Consensus       320 ~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~~~  351 (665)
                      .+......           ....|..++-.|.+.|++++|+.+
T Consensus       154 ~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~  196 (336)
T d1b89a_         154 HLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  196 (336)
T ss_dssp             HHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHH
Confidence            44432211           112244455555555555555444

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.71  E-value=1.4e-05  Score=66.39  Aligned_cols=43  Identities=9%  Similarity=0.069  Sum_probs=30.9

Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          548 SIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       548 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      +++.|.+.++++++++|++...+..|+...       .|.++..+..++|
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------ka~~~~~e~~k~~  143 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------KAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------THHHHHHHHHHSS
T ss_pred             hHHHhhhhhhcccccCCCHHHHHHHHHHHH-------HHHHHHHHHHHHh
Confidence            468899999999999999887777776664       4444444444444

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.70  E-value=0.0078  Score=56.46  Aligned_cols=238  Identities=12%  Similarity=0.063  Sum_probs=141.0

Q ss_pred             CChHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHhhcCCChHHHHHHHcccCCCCcccHHHHHHHHH
Q 044628           61 SAHSFYSQALKVSAKFGFLQQGKQLHSHIMKLGLCNKLSLQNQVLHVYVKCKAFDDMEKLFDEMRVRNIVTWNTLISGII  140 (665)
Q Consensus        61 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~  140 (665)
                      ||..-...+..-|-+.|.++.|..++..+.         -+..++..|.+.++++.|.+++.+..  +..+|..+...+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHHH
Confidence            344445566777889999999999997543         25678888889999999999887653  5568999999988


Q ss_pred             hCCCCchHHHHHhhhCCCCCCcchHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHH
Q 044628          141 NCGGNVTPYFRRMLLDNVRLDHITFNSLLRACVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVF  220 (665)
Q Consensus       141 ~~~~~~~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  220 (665)
                      +.....+   ..+.......+......++..+-..|.+++...+++..... -..+...++.++..|++.+. ++-.+.+
T Consensus        81 ~~~e~~l---a~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e~l  155 (336)
T d1b89a_          81 DGKEFRL---AQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-QKMREHL  155 (336)
T ss_dssp             HTTCHHH---HHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HHHHHHH
T ss_pred             hCcHHHH---HHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HHHHHHH
Confidence            7755432   12333444556667788999999999999999999987643 24577788999999999764 3333334


Q ss_pred             hccCCC-----------CchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHH
Q 044628          221 DEVLCR-----------DLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLV  289 (665)
Q Consensus       221 ~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  289 (665)
                      .....+           ....|.-++--|.+.|++++|+.+.-.   .  .++..-....+..+.+..+.+..-++....
T Consensus       156 ~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~---~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~y  230 (336)
T d1b89a_         156 ELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN---H--PTDAWKEGQFKDIITKVANVELYYRAIQFY  230 (336)
T ss_dssp             HHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH---S--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHH
T ss_pred             HhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHH---c--chhhhhHHHHHHHHHccCChHHHHHHHHHH
Confidence            332221           112345555555555666555544322   1  233333444555566777777766666666


Q ss_pred             HHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 044628          290 IKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDG  323 (665)
Q Consensus       290 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  323 (665)
                      ++.  .|  ...+.|+......-+..+..+.|++
T Consensus       231 L~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         231 LEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSK  260 (336)
T ss_dssp             HHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             HHc--CH--HHHHHHHHHhccCCCHHHHHHHHHh
Confidence            553  22  2334455555555555555555543

>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=97.68  E-value=7.9e-05  Score=62.56  Aligned_cols=89  Identities=12%  Similarity=-0.129  Sum_probs=64.2

Q ss_pred             HHHHHhcCChHHHHHHHHhC----CCCCC----------hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-------
Q 044628          508 TDLLGRVGLLVEAYDLLASM----PIEPR----------SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSK-------  566 (665)
Q Consensus       508 ~~~~~~~g~~~~A~~~~~~~----~~~p~----------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------  566 (665)
                      ...+.+.|++++|++.|++.    +..|+          ...|..+..++...|++++|...+++++++.|..       
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            33445566666666666655    22222          3567778888888999999998888888654321       


Q ss_pred             ----CchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          567 ----PVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       567 ----~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                          ..++..++.+|...|++++|...+++..+.
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence                235778999999999999999999988753

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.64  E-value=1.6e-05  Score=66.02  Aligned_cols=51  Identities=20%  Similarity=0.092  Sum_probs=43.4

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC-----------HHHHHHHHHHHhhCC
Q 044628          547 GSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERC-----------WFDVARLRKMMRDNC  597 (665)
Q Consensus       547 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~-----------~~~A~~~~~~m~~~~  597 (665)
                      +.+++|+..++++++++|+++.+|..+|.+|...|+           +++|.+.+++..+..
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~  116 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  116 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccC
Confidence            456889999999999999999999999999988764           678888888777543

>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=97.62  E-value=0.00011  Score=55.58  Aligned_cols=74  Identities=15%  Similarity=0.019  Sum_probs=56.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC----C----CCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 044628          504 YTCLTDLLGRVGLLVEAYDLLASM----P----IEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVS  574 (665)
Q Consensus       504 ~~~l~~~~~~~g~~~~A~~~~~~~----~----~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  574 (665)
                      +-.+...+.+.|++++|++.|++.    +    ..++ ..++..|..++.+.|++++|+..++++++++|+++.++..+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~   87 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            345666777777777777777665    1    1222 457888999999999999999999999999999988888775


Q ss_pred             HHH
Q 044628          575 NVY  577 (665)
Q Consensus       575 ~~y  577 (665)
                      ...
T Consensus        88 ~~~   90 (95)
T d1tjca_          88 YFE   90 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=0.00031  Score=56.42  Aligned_cols=59  Identities=5%  Similarity=-0.071  Sum_probs=33.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 044628          434 TSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMIS  493 (665)
Q Consensus       434 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  493 (665)
                      ..+...|...|++++|++.|++.++.+ +.+...+..+..+|.+.|++++|++.++.+++
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            344555566666666666666666542 12344555555666666666666666665554

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.58  E-value=0.013  Score=53.19  Aligned_cols=98  Identities=14%  Similarity=0.054  Sum_probs=65.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhccCC-CCchhHHHHHHHHHc----CCChHHHHHHHHHHhhCCCCCCHH-HHHH-
Q 044628          297 DVLVATSLVDMYAKNGNIDDACRVFDGMTA-KNVVSWNTMVVGFGQ----NGDGREAVKLLRDMLQGSFCPDEV-TLAS-  369 (665)
Q Consensus       297 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~-t~~~-  369 (665)
                      |+..+..|...+.+.|++++|.+.|++..+ .|..++..|...|..    ..+...|...+......+. |... .+.. 
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~-~~a~~~l~~~   79 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY-SNGCHLLGNL   79 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc-cchhhccccc
Confidence            455677788888999999999999998864 466677777777765    5678888888888777652 2222 1111 


Q ss_pred             HHHHhCCCCchHhHHHHHHHHHHhCC
Q 044628          370 ILSSCGSLSISCETRQVHAYAIKNGV  395 (665)
Q Consensus       370 ll~~~~~~~~~~~a~~i~~~~~~~g~  395 (665)
                      ....+....+.+.+...+....+.|.
T Consensus        80 ~~~~~~~~~~~~~a~~~~~~a~~~g~  105 (265)
T d1ouva_          80 YYSGQGVSQNTNKALQYYSKACDLKY  105 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             cccccccchhhHHHHHHHhhhhhhhh
Confidence            11223345566777777777666553

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.40  E-value=2.6e-05  Score=79.75  Aligned_cols=169  Identities=11%  Similarity=0.002  Sum_probs=89.9

Q ss_pred             cCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Q 044628          412 CGSIAGALQCFGSVKE---PDLVTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYF  488 (665)
Q Consensus       412 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  488 (665)
                      .+.++.|...+....+   ++...|..+...+.+.|+.++|...+++....  .| ..++..+...+...|++++|+..|
T Consensus        99 ~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1          99 SGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHHTC-------------------------------CCHHHHH--HH-HHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHHHHHHHHHHHHcccHHHHHHHH
Confidence            3445555555554432   45566777888888889999999888776642  11 246777888888899999999999


Q ss_pred             HHHHHhcCCCCC-hhhHHHHHHHHHhcCChHHHHHHHHhC-CC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044628          489 NLMISDYHILPD-SEHYTCLTDLLGRVGLLVEAYDLLASM-PI-EPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPS  565 (665)
Q Consensus       489 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  565 (665)
                      ++..+   +.|+ ...|+.|..++...|+..+|+..|.+. .. .|-..++..|...+.+..+...+       .+..+.
T Consensus       176 ~~A~~---l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~~~~~~-------~~~~~~  245 (497)
T d1ya0a1         176 RHAAQ---LVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKALESRDE-------VKTKWG  245 (497)
T ss_dssp             HHHHH---HCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHTTSCCC-------CCSSCC
T ss_pred             HHHHH---HCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhhhhhh-------hccccc
Confidence            99887   4454 678899999999999999999998887 33 34577788887766543321100       001111


Q ss_pred             ---CCchHHHHHHHHHhcCCHHHHHHHHHHH
Q 044628          566 ---KPVNYALVSNVYASERCWFDVARLRKMM  593 (665)
Q Consensus       566 ---~~~~~~~l~~~y~~~g~~~~A~~~~~~m  593 (665)
                         ....+..+..++...+.+++..++.+.+
T Consensus       246 ~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~  276 (497)
T d1ya0a1         246 VSDFIKAFIKFHGHVYLSKSLEKLSPLREKL  276 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCchhhHHHHHHHH
Confidence               1123455555566666666665554443

>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=97.33  E-value=0.00019  Score=65.84  Aligned_cols=124  Identities=13%  Similarity=0.029  Sum_probs=70.0

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCChH
Q 044628          441 AFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPD-SEHYTCLTDLLGRVGLLV  518 (665)
Q Consensus       441 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~  518 (665)
                      .+.|++++|++.+++.++.  .| |...+..+...++..|++++|.+.++...+   +.|+ ...+..+..++...+..+
T Consensus         7 L~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccH
Confidence            3457777777777777765  44 345666677777777777777777777765   3343 333444444444444444


Q ss_pred             HHHHHHHhC--CCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 044628          519 EAYDLLASM--PIEPR-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVN  569 (665)
Q Consensus       519 ~A~~~~~~~--~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  569 (665)
                      ++..-....  ...|+ ...+......+...|+.++|...++++.+..|..+..
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~  135 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFL  135 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEE
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcc
Confidence            433322221  11222 2222333345666777777777777777777776544

>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=97.29  E-value=0.00095  Score=55.59  Aligned_cols=65  Identities=14%  Similarity=0.004  Sum_probs=42.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHhC--------CCCCC-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          503 HYTCLTDLLGRVGLLVEAYDLLASM--------PIEPR-----SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       503 ~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      .|+.+..+|...|++++|++.+++.        ...++     ...+..+..++...|++++|+..+++++++.|...
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence            4555666666666666666655554        11222     22456667888899999999999999988766543

>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=97.24  E-value=0.00014  Score=66.59  Aligned_cols=121  Identities=13%  Similarity=0.027  Sum_probs=87.6

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-hhHHHHHHHHHHhcCCHHHH
Q 044628          475 CSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVEAYDLLASM-PIEPR-SDTLGAFIGACKVHGSIGLA  552 (665)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a  552 (665)
                      ..+.|++++|++.+++.++  .-+-+...+..+..+|++.|++++|.+.++.. ...|+ ...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            3567999999999999998  34457899999999999999999999999998 66776 44555554554444433333


Q ss_pred             HHHHHHH-HhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 044628          553 KWAAEKL-LELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNC  597 (665)
Q Consensus       553 ~~~~~~~-~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~  597 (665)
                      ....... +..+|++...+...+.++...|++++|.+.+++..+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            2222221 12234444556677888999999999999999887653

>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=97.09  E-value=0.0029  Score=53.74  Aligned_cols=71  Identities=17%  Similarity=0.175  Sum_probs=49.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHH----hcCCCCChhh
Q 044628          431 VTWTSIIGAYAFHGLSKESIEVFEKMLSHAVRP-DSIAFLEVLSACSHGGLVSEGLRYFNLMIS----DYHILPDSEH  503 (665)
Q Consensus       431 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  503 (665)
                      ..+..+...+...|++++|+..++++.+.  .| +...+..++.++...|+.++|++.|+++.+    +.|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~--~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            45666777777777777777777777774  44 456677777777777777777777777633    3467776554

>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=97.02  E-value=0.0012  Score=49.42  Aligned_cols=62  Identities=8%  Similarity=-0.152  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-------CchHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 044628          535 TLGAFIGACKVHGSIGLAKWAAEKLLELEPSK-------PVNYALVSNVYASERCWFDVARLRKMMRDN  596 (665)
Q Consensus       535 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~  596 (665)
                      .+-.+...+...|+++.|+..+++++++.|.+       ..++..|+.+|.+.|++++|...++++.+.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34467788899999999999999999876553       346889999999999999999999998764

>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=95.34  E-value=0.38  Score=36.32  Aligned_cols=141  Identities=6%  Similarity=0.007  Sum_probs=96.4

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHH
Q 044628          440 YAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGLLVE  519 (665)
Q Consensus       440 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  519 (665)
                      +...|..++..++..+....   .+..-|+-++.-....-+-+...+.++.+-+-+.+.              .++++..
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls--------------~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCch--------------hhhcHHH
Confidence            44567777888887777763   233444444444444455566666666665533333              3344444


Q ss_pred             HHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 044628          520 AYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRKMMRDNCDH  599 (665)
Q Consensus       520 A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~~m~~~~~~  599 (665)
                      ....+-.++  .+...+..-++....+|+-++-.++++.+++-+.-+|....-++++|.+.|...++.+++.+.-++|++
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            444444442  244455666788889999999999999988877667899999999999999999999999999999875

>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=95.22  E-value=1.5  Score=42.45  Aligned_cols=54  Identities=9%  Similarity=-0.004  Sum_probs=30.6

Q ss_pred             HHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCC
Q 044628          305 VDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGS  359 (665)
Q Consensus       305 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  359 (665)
                      +..+.+.++++.....+..-+ .+...-.....+..+.|+.++|...+...-..|
T Consensus        79 l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~  132 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG  132 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS
T ss_pred             HHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            445566667666555443321 233333455666667777777777766665444

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.29  E-value=0.12  Score=39.48  Aligned_cols=69  Identities=16%  Similarity=0.067  Sum_probs=31.4

Q ss_pred             CChhhHHHHHHHHHhcC---ChHHHHHHHHhC-CCCC-C-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 044628          499 PDSEHYTCLTDLLGRVG---LLVEAYDLLASM-PIEP-R-SDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKP  567 (665)
Q Consensus       499 p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p-~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  567 (665)
                      |+..+--....++.+..   +.++|+.++++. ...| + ...|-.|.-+|.+.|+++.|++.++++++++|++.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~  107 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNK  107 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcH
Confidence            33334344444444432   233455555544 1122 2 12344444455555555555555555555555543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.11  E-value=0.3  Score=38.24  Aligned_cols=50  Identities=6%  Similarity=-0.152  Sum_probs=36.6

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCCHHHHHHHHHHHhhCCC
Q 044628          547 GSIGLAKWAAEKLLELEPSKPVNYALVSNVYAS----ERCWFDVARLRKMMRDNCD  598 (665)
Q Consensus       547 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~A~~~~~~m~~~~~  598 (665)
                      .|.++|.+.++++.+.+  ++.+...|+.+|..    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            46777888888877654  35677778888876    4578888888888777664

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.62  E-value=0.37  Score=36.72  Aligned_cols=28  Identities=18%  Similarity=0.024  Sum_probs=13.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC-CCCCC
Q 044628          505 TCLTDLLGRVGLLVEAYDLLASM-PIEPR  532 (665)
Q Consensus       505 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p~  532 (665)
                      -.|.-+|.+.|++++|.+.++.+ .+.|+
T Consensus        77 Y~Lav~yyklgdy~~A~~~~~~~L~ieP~  105 (124)
T d2pqrb1          77 YYLTIGCYKLGEYSMAKRYVDTLFEHERN  105 (124)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            34444455555555555555544 33443

>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=92.66  E-value=1.5  Score=33.05  Aligned_cols=119  Identities=9%  Similarity=-0.078  Sum_probs=69.1

Q ss_pred             HhcCCChHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCChHHHHHHHhccC---------------------CCCchh
Q 044628          172 CVQADDIEVGRRLHSFILKVGFGLNCFVSSALVDLYGKCGFVEDARRVFDEVL---------------------CRDLVL  230 (665)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---------------------~~~~~~  230 (665)
                      +.-.|.++++.++.....++.   +..-||-+|--....-+-+...++++.+-                     ..+...
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~   88 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEH   88 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHH
Confidence            445688888888888888764   33333333322222233333333333321                     112334


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHHHHHHHHHHhCC
Q 044628          231 WNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGRQIHGLVIKQSF  294 (665)
Q Consensus       231 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~  294 (665)
                      .+..++.+.++|+-++-.++++.+.+.+ +|+......+..+|.+.|+..++.+++.++-+.|+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            4555666777777777777777755533 56666666777777777777777777777766664

>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=92.34  E-value=1  Score=34.95  Aligned_cols=111  Identities=13%  Similarity=-0.050  Sum_probs=66.0

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHh----cCChHHH
Q 044628          445 LSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGR----VGLLVEA  520 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A  520 (665)
                      ++++|+++|++..+.| .+..  ...+.  .....+.++|.++++...+ .|   +......|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g-~~~a--~~~l~--~~~~~~~~~a~~~~~~aa~-~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELN-EMFG--CLSLV--SNSQINKQKLFQYLSKACE-LN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTH--HHHHH--TCTTSCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCC-Chhh--hhhhc--cccccCHHHHHHHHhhhhc-cc---chhhhhhHHHhhhhccccchhhHHH
Confidence            5677777777777765 2222  22222  2344567788888877766 22   34455555555543    4567888


Q ss_pred             HHHHHhCCCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCC
Q 044628          521 YDLLASMPIEPRSDTLGAFIGACKV----HGSIGLAKWAAEKLLELEP  564 (665)
Q Consensus       521 ~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p  564 (665)
                      .++|++.--.-++.....|...+..    ..|.++|.+.++++.+...
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            8888877112233344444444443    4578888888888877654

>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=89.20  E-value=9.7  Score=36.27  Aligned_cols=350  Identities=9%  Similarity=-0.049  Sum_probs=182.5

Q ss_pred             HHHHHhCCChHHHHHHHhccCCCCchhHHHHHHHHHhcCCchHHHHHHHHHHHCCCCCCHhhHHHHHHHHhccCCcHHHH
Q 044628          204 VDLYGKCGFVEDARRVFDEVLCRDLVLWNVMVSCYALNCLGDGAIAVFNLMRLEGMKGDYFTFSSLVNSCGTLGSSKLGR  283 (665)
Q Consensus       204 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  283 (665)
                      +..+.+.++++.....+..-+ .+...--....+....|+.++|...+...-..|.. ....+                .
T Consensus        79 l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~p~~c----------------~  140 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNAC----------------D  140 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHH----------------H
T ss_pred             HHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-CchHH----------------H
Confidence            455677788877776664422 23443445667778888888888888777655421 11122                2


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhccCCCCchhHHHHHHHHHcCCChHHHHHHHHHHhhCCCCCC
Q 044628          284 QIHGLVIKQSFDLDVLVATSLVDMYAKNGNIDDACRVFDGMTAKNVVSWNTMVVGFGQNGDGREAVKLLRDMLQGSFCPD  363 (665)
Q Consensus       284 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  363 (665)
                      .++..+.+.| ..+...+-.-+......|+...|..+...+...........+....+..   .+......     ..++
T Consensus       141 ~l~~~~~~~~-~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~---~~~~~~~~-----~~~~  211 (450)
T d1qsaa1         141 KLFSVWRASG-KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPN---TVLTFART-----TGAT  211 (450)
T ss_dssp             HHHHHHHHTT-CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGG---GHHHHHHH-----SCCC
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChH---hHHHHHhc-----CCCC
Confidence            3344444443 2333344445556667788888888887776544444444544443222   22222111     1122


Q ss_pred             HHHHHHHHHHhCC--CCchHhHHHHHHHHHHhCCCCchhH---HHHHHHHHHhcCCHHHHHHHHhcCC--CCChhHHHHH
Q 044628          364 EVTLASILSSCGS--LSISCETRQVHAYAIKNGVQAFLSI---ENALINAYSKCGSIAGALQCFGSVK--EPDLVTWTSI  436 (665)
Q Consensus       364 ~~t~~~ll~~~~~--~~~~~~a~~i~~~~~~~g~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l  436 (665)
                      ......+..+..+  ..+.+.+...+..............   ...+...+...+..+.|...+....  ..+.....-.
T Consensus       212 ~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~  291 (450)
T d1qsaa1         212 DFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERR  291 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             hhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHH
Confidence            2222222222222  1345555555555544322221111   1122222333455566665554433  2333333334


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 044628          437 IGAYAFHGLSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTDLLGRVGL  516 (665)
Q Consensus       437 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  516 (665)
                      +......++...+...+..|.... .-...-.--+..+....|+.++|..+|..+..    .++  -|.-|..  .+.|.
T Consensus       292 ~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa--~~Lg~  362 (450)
T d1qsaa1         292 VRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAA--QRIGE  362 (450)
T ss_dssp             HHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHH--HHTTC
T ss_pred             HHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHH--HHcCC
Confidence            444556678888888877764321 11222333456777888888888888888754    132  3443322  12221


Q ss_pred             hHHHHHHH-HhCCCCCChh-H---HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCHHHHHHHHH
Q 044628          517 LVEAYDLL-ASMPIEPRSD-T---LGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALVSNVYASERCWFDVARLRK  591 (665)
Q Consensus       517 ~~~A~~~~-~~~~~~p~~~-~---~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~A~~~~~  591 (665)
                      .-   .+- ...+..++.. .   -..-+......|....|...+..+.+..  ++.-...++.+..+.|.++.|+....
T Consensus       363 ~~---~~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~  437 (450)
T d1qsaa1         363 EY---ELKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATI  437 (450)
T ss_dssp             CC---CCCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CC---CCCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHH
Confidence            10   000 0001111110 0   0112345667899999999988887543  35567788899999999999998877


Q ss_pred             HHh
Q 044628          592 MMR  594 (665)
Q Consensus       592 ~m~  594 (665)
                      +..
T Consensus       438 ~~~  440 (450)
T d1qsaa1         438 AGK  440 (450)
T ss_dssp             HTT
T ss_pred             HHH
Confidence            664

>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=84.84  E-value=1.8  Score=30.79  Aligned_cols=63  Identities=14%  Similarity=0.207  Sum_probs=48.8

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 044628          445 LSKESIEVFEKMLSHAVRPDSIAFLEVLSACSHGGLVSEGLRYFNLMISDYHILPDSEHYTCLTD  509 (665)
Q Consensus       445 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  509 (665)
                      +.-++.+-++.+....+.|++....+.|.||.+.+++..|.++|+.++.+.|  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            4456666677777778899999999999999999999999999998887533  44556666543

>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=83.17  E-value=4.7  Score=28.66  Aligned_cols=54  Identities=17%  Similarity=0.228  Sum_probs=40.2

Q ss_pred             HHHHHHhCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 044628          520 AYDLLASMPIEPRSDTLGAFIGACKVHGSIGLAKWAAEKLLELEPSKPVNYALV  573 (665)
Q Consensus       520 A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  573 (665)
                      ++.-+-.+..-|++.+..+-+.||++.+++..|.++++-+...--.+...|-.+
T Consensus        28 gmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yi   81 (105)
T d1v54e_          28 GMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYV   81 (105)
T ss_dssp             HHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHH
T ss_pred             HHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            333344447889999999999999999999999999998865443234555544