Citrus Sinensis ID: 048281

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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
MLSKISRINPFSSCFNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAKGSLDFD
Secondary Structure (PSIPRED)
cccHHHHcccccHHHHHHHHHccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHcccccccEEHHHHHHHHcccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHcccccccEEEHHHHHHHHHHccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccEEEEHHHHHHHHccccHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHcHHccccccccccHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHccccccccHHHHHHHHHHcccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHccccHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHccccHHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
mlskisrinpfsscfnfstssgnqtfnhpFTLATCIASLQLCAHQTNLQKGQEIHSYMLRtgiidsplSITSLINMYSKCCQMKYALFVfnnlscepnvftyNAMIsgfysndfafkglDFFNHmrqlgvlpdkytfpclikcccDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSkegiwmsrFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEqcgnhdgtLRLFDRMlsagfqpdlvtfSTVLPACSHLAALMHGRQIHGYIVVNglakngsckdiddVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGygmdgqgkEALDMFSCMceaklkpdevTFVGVLSAcshsgflsqgreflplmesrygvvptieHYTCVIDMLGRAGQLNEAYELALampneanpVVWRTLLAASRLHGNTDLAEIAAQRVfqlepghcgnyvLMSNIYVAGGKYEEVLDIRHTMRqqnvrknpgcswieLKDGLHtfissdrshpeAKSIYAELHSLTARLRehgdccagtlfdsdstasgfEKHRLYLEEVIAKGSLDFD
Flexible Loop (DISEMBL)
MLSKISRINPFSSCFNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMrqqnvrknpgcSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAKGSLDFD
Low Complexity Region (SEG)
MLSKISRINPFSSCFNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAKGSLDFD
Disordered region (IsUnstruct)
**********FSSCFNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFIS*********SIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIA*******
Disordered Region (DISOPRED)
MLSKIS*INPFSSCFNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAKGSLDFD
Disordered Region (DISEMBL)
MLSKISRINPFSSCFNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAKGSLDFD
Disordered Region (DISPRO)
MLSKISRINPFSSCFNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAK******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLSKISRINPFSSCFNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAKGSLDFD
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	660	2.2.26 [Sep-21-2011]
Q9LUC2	653	Pentatricopeptide repeat-	yes	no	0.922	0.932	0.545	0.0
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.886	0.657	0.357	1e-117
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.874	0.713	0.354	1e-110
Q9STE1	857	Pentatricopeptide repeat-	no	no	0.872	0.672	0.365	1e-110
Q9LN01	741	Pentatricopeptide repeat-	no	no	0.898	0.800	0.350	1e-110
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.919	0.696	0.356	1e-109
O82380	738	Pentatricopeptide repeat-	no	no	0.892	0.798	0.342	1e-109
Q9FWA6	903	Pentatricopeptide repeat-	no	no	0.896	0.655	0.341	1e-108
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.862	0.819	0.344	1e-108
Q9ZUW3	868	Pentatricopeptide repeat-	no	no	0.880	0.669	0.342	1e-107

>sp|Q9LUC2|PP231_ARATH Pentatricopeptide repeat-containing protein At3g14730 OS=Arabidopsis thaliana GN=PCMP-E31 PE=2 SV=1

 Score =  697 bits (1800), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 340/623 (54%), Positives = 444/623 (71%), Gaps = 14/623 (2%)

Query: 8   INPFSSCFNFSTSSGNQTFNHP-----FTLATCIASLQLCAHQTNLQKGQEIHSYMLRTG 62
           I P S+  +  ++   Q   +P       +ATCIA+LQ CA + +   GQ+IH +M+R G
Sbjct: 31  IKPSSALASLYSTVSGQIEENPKRYEHHNVATCIATLQRCAQRKDYVSGQQIHGFMVRKG 90

Query: 63  IID-SPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDF 121
            +D SP + TSL+NMY+KC  M+ A+ VF     E +VF YNA+ISGF  N      ++ 
Sbjct: 91  FLDDSPRAGTSLVNMYAKCGLMRRAVLVFGG--SERDVFGYNALISGFVVNGSPLDAMET 148

Query: 122 FNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLK 181
           +  MR  G+LPDKYTFP L+K   D M + +VKK+HGL FKLG D D Y+GS LV +Y K
Sbjct: 149 YREMRANGILPDKYTFPSLLKGS-DAMELSDVKKVHGLAFKLGFDSDCYVGSGLVTSYSK 207

Query: 182 CQFMEEALKVFEELPLRD-VVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTG 240
              +E+A KVF+ELP RD  VLWNA+VNGY+QI  F  AL VF +M +EG+ +SR T+T 
Sbjct: 208 FMSVEDAQKVFDELPDRDDSVLWNALVNGYSQIFRFEDALLVFSKMREEGVGVSRHTITS 267

Query: 241 VLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKD 300
           VLSA  + G   NGR +HG+ VK G  S + V NALIDMYGK K + EA  IFE M+E+D
Sbjct: 268 VLSAFTVSGDIDNGRSIHGLAVKTGSGSDIVVSNALIDMYGKSKWLEEANSIFEAMDERD 327

Query: 301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHG 360
           +F+WNS++ VH+ CG+HDGTL LF+RML +G +PD+VT +TVLP C  LA+L  GR+IHG
Sbjct: 328 LFTWNSVLCVHDYCGDHDGTLALFERMLCSGIRPDIVTLTTVLPTCGRLASLRQGREIHG 387

Query: 361 YIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGY 420
           Y++V+GL    S  +    F++N+LMDMY KCG +RDA+MVF  M  KD ASWNIMI GY
Sbjct: 388 YMIVSGLLNRKSSNE----FIHNSLMDMYVKCGDLRDARMVFDSMRVKDSASWNIMINGY 443

Query: 421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT 480
           G+   G+ ALDMFSCMC A +KPDE+TFVG+L ACSHSGFL++GR FL  ME+ Y ++PT
Sbjct: 444 GVQSCGELALDMFSCMCRAGVKPDEITFVGLLQACSHSGFLNEGRNFLAQMETVYNILPT 503

Query: 481 IEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVF 540
            +HY CVIDMLGRA +L EAYELA++ P   NPVVWR++L++ RLHGN DLA +A +R+ 
Sbjct: 504 SDHYACVIDMLGRADKLEEAYELAISKPICDNPVVWRSILSSCRLHGNKDLALVAGKRLH 563

Query: 541 QLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSD 600
           +LEP HCG YVLMSN+YV  GKYEEVLD+R  MRQQNV+K PGCSWI LK+G+HTF + +
Sbjct: 564 ELEPEHCGGYVLMSNVYVEAGKYEEVLDVRDAMRQQNVKKTPGCSWIVLKNGVHTFFTGN 623

Query: 601 RSHPEAKSIYAELHSLTARLREH 623
           ++HPE KSI+  L  + + +  H
Sbjct: 624 QTHPEFKSIHDWLSLVISHMHGH 646

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 =  422 bits (1085), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 218/609 (35%), Positives = 359/609 (58%), Gaps = 24/609 (3%)

Query: 30  FTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFV 89
           FTL + + +         L  G+++H+Y LR G ++S + I +L+ MY K  ++  +  +
Sbjct: 200 FTLVSVVTACSNLPMPEGLMMGKQVHAYGLRKGELNSFI-INTLVAMYGKLGKLASSKVL 258

Query: 90  FNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMA 149
             +     ++ T+N ++S    N+   + L++   M   GV PD++T   ++  C  +  
Sbjct: 259 LGSFGGR-DLVTWNTVLSSLCQNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEM 317

Query: 150 VLEVKKIHGLVFKLG-LDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVN 208
           +   K++H    K G LD + ++GSALV+ Y  C+ +    +VF+ +  R + LWNAM+ 
Sbjct: 318 LRTGKELHAYALKNGSLDENSFVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIA 377

Query: 209 GYAQIGEFHKALEVFRRMSKE-GIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYD 267
           GY+Q     +AL +F  M +  G+  +  T+ GV+ A +  G F     +HG VVK G D
Sbjct: 378 GYSQNEHDKEALLLFIGMEESAGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRGLD 437

Query: 268 SGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLF--- 324
               V N L+DMY +   +  A+ IF  ME++D+ +WN+++T +    +H+  L L    
Sbjct: 438 RDRFVQNTLMDMYSRLGKIDIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHKM 497

Query: 325 ---DRMLSAG-----FQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDI 376
              +R +S G      +P+ +T  T+LP+C+ L+AL  G++IH Y + N LA        
Sbjct: 498 QNLERKVSKGASRVSLKPNSITLMTILPSCAALSALAKGKEIHAYAIKNNLAT------- 550

Query: 377 DDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCM 436
            DV + +AL+DMY KCG ++ ++ VF ++ +K+V +WN++I+ YGM G G+EA+D+   M
Sbjct: 551 -DVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMM 609

Query: 437 CEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ 496
               +KP+EVTF+ V +ACSHSG + +G     +M+  YGV P+ +HY CV+D+LGRAG+
Sbjct: 610 MVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGR 669

Query: 497 LNEAYELALAMPNEANPV-VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSN 555
           + EAY+L   MP + N    W +LL ASR+H N ++ EIAAQ + QLEP    +YVL++N
Sbjct: 670 IKEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVASHYVLLAN 729

Query: 556 IYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHS 615
           IY + G +++  ++R  M++Q VRK PGCSWIE  D +H F++ D SHP+++ +   L +
Sbjct: 730 IYSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLET 789

Query: 616 LTARLREHG 624
           L  R+R+ G
Sbjct: 790 LWERMRKEG 798

Arabidopsis thaliana (taxid: 3702)

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

 Score =  400 bits (1028), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 208/586 (35%), Positives = 346/586 (59%), Gaps = 9/586 (1%)

Query: 39  LQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPN 98
           L++C  +  L+ G+EIH  ++++G      ++T L NMY+KC Q+  A  VF+ +  E +
Sbjct: 142 LKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMP-ERD 200

Query: 99  VFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHG 158
           + ++N +++G+  N  A   L+    M +  + P   T   ++     +  +   K+IHG
Sbjct: 201 LVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHG 260

Query: 159 LVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHK 218
              + G D  V I +ALV+ Y KC  +E A ++F+ +  R+VV WN+M++ Y Q     +
Sbjct: 261 YAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKE 320

Query: 219 ALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALID 278
           A+ +F++M  EG+  +  +V G L A   +G  + GR +H + V++G D  V V+N+LI 
Sbjct: 321 AMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVVNSLIS 380

Query: 279 MYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVT 338
           MY K K V  A  +F  ++ + + SWN+++    Q G     L  F +M S   +PD  T
Sbjct: 381 MYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPDTFT 440

Query: 339 FSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDA 398
           + +V+ A + L+   H + IHG ++ + L KN        VF+  AL+DMY KCG++  A
Sbjct: 441 YVSVITAIAELSITHHAKWIHGVVMRSCLDKN--------VFVTTALVDMYAKCGAIMIA 492

Query: 399 QMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS 458
           +++F  MS++ V +WN MI GYG  G GK AL++F  M +  +KP+ VTF+ V+SACSHS
Sbjct: 493 RLIFDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHS 552

Query: 459 GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRT 518
           G +  G +   +M+  Y +  +++HY  ++D+LGRAG+LNEA++  + MP +    V+  
Sbjct: 553 GLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGA 612

Query: 519 LLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV 578
           +L A ++H N + AE AA+R+F+L P   G +VL++NIY A   +E+V  +R +M +Q +
Sbjct: 613 MLGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGL 672

Query: 579 RKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
           RK PGCS +E+K+ +H+F S   +HP++K IYA L  L   ++E G
Sbjct: 673 RKTPGCSMVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIKEAG 718

Arabidopsis thaliana (taxid: 3702)

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

 Score =  398 bits (1023), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 215/588 (36%), Positives = 342/588 (58%), Gaps = 12/588 (2%)

Query: 39  LQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSI-TSLINMYSKCCQMKYALFVFNNLSCEP 97
           L +CA +  +  G ++H  ++ +G+ D   SI  SL++MYSKC +   A  +F  +S   
Sbjct: 246 LSVCASKLLIDLGVQLHGLVVVSGV-DFEGSIKNSLLSMYSKCGRFDDASKLFRMMS-RA 303

Query: 98  NVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIH 157
           +  T+N MISG+  +    + L FF  M   GVLPD  TF  L+        +   K+IH
Sbjct: 304 DTVTWNCMISGYVQSGLMEESLTFFYEMISSGVLPDAITFSSLLPSVSKFENLEYCKQIH 363

Query: 158 GLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFH 217
             + +  + LD+++ SAL++ Y KC+ +  A  +F +    DVV++ AM++GY   G + 
Sbjct: 364 CYIMRHSISLDIFLTSALIDAYFKCRGVSMAQNIFSQCNSVDVVVFTAMISGYLHNGLYI 423

Query: 218 KALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALI 277
            +LE+FR + K  I  +  T+  +L  + ++   K GR +HG ++K G+D+   +  A+I
Sbjct: 424 DSLEMFRWLVKVKISPNEITLVSILPVIGILLALKLGRELHGFIIKKGFDNRCNIGCAVI 483

Query: 278 DMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLV 337
           DMY K   +  A EIFE + ++DI SWNS++T   Q  N    + +F +M  +G   D V
Sbjct: 484 DMYAKCGRMNLAYEIFERLSKRDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCV 543

Query: 338 TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRD 397
           + S  L AC++L +   G+ IHG+++ + LA         DV+  + L+DMY KCG+++ 
Sbjct: 544 SISAALSACANLPSESFGKAIHGFMIKHSLAS--------DVYSESTLIDMYAKCGNLKA 595

Query: 398 AQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCE-AKLKPDEVTFVGVLSACS 456
           A  VF  M +K++ SWN +I   G  G+ K++L +F  M E + ++PD++TF+ ++S+C 
Sbjct: 596 AMNVFKTMKEKNIVSWNSIIAACGNHGKLKDSLCLFHEMVEKSGIRPDQITFLEIISSCC 655

Query: 457 HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVW 516
           H G + +G  F   M   YG+ P  EHY CV+D+ GRAG+L EAYE   +MP   +  VW
Sbjct: 656 HVGDVDEGVRFFRSMTEDYGIQPQQEHYACVVDLFGRAGRLTEAYETVKSMPFPPDAGVW 715

Query: 517 RTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ 576
            TLL A RLH N +LAE+A+ ++  L+P + G YVL+SN +    ++E V  +R  M+++
Sbjct: 716 GTLLGACRLHKNVELAEVASSKLMDLDPSNSGYYVLISNAHANAREWESVTKVRSLMKER 775

Query: 577 NVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
            V+K PG SWIE+    H F+S D +HPE+  IY+ L+SL   LR  G
Sbjct: 776 EVQKIPGYSWIEINKRTHLFVSGDVNHPESSHIYSLLNSLLGELRLEG 823

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070 OS=Arabidopsis thaliana GN=PCMP-H12 PE=2 SV=1

 Score =  398 bits (1022), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 228/650 (35%), Positives = 354/650 (54%), Gaps = 57/650 (8%)

Query: 15  FNFSTSSGNQTF----NHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSI 70
           F+F  SS +  +    NHP        SL L  +   LQ  + IH+ M++ G+ ++  ++
Sbjct: 17  FHFLPSSSDPPYDSIRNHP--------SLSLLHNCKTLQSLRIIHAQMIKIGLHNTNYAL 68

Query: 71  TSLIN---MYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQ 127
           + LI    +      + YA+ VF  +  EPN+  +N M  G   +      L  +  M  
Sbjct: 69  SKLIEFCILSPHFEGLPYAISVFKTIQ-EPNLLIWNTMFRGHALSSDPVSALKLYVCMIS 127

Query: 128 LGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQ---- 183
           LG+LP+ YTFP ++K C    A  E ++IHG V KLG DLD+Y+ ++L++ Y++      
Sbjct: 128 LGLLPNSYTFPFVLKSCAKSKAFKEGQQIHGHVLKLGCDLDLYVHTSLISMYVQNGRLED 187

Query: 184 ---------------------------FMEEALKVFEELPLRDVVLWNAMVNGYAQIGEF 216
                                      ++E A K+F+E+P++DVV WNAM++GYA+ G +
Sbjct: 188 AHKVFDKSPHRDVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNY 247

Query: 217 HKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNAL 276
            +ALE+F+ M K  +     T+  V+SA    G  + GR VH  +   G+ S + ++NAL
Sbjct: 248 KEALELFKDMMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNAL 307

Query: 277 IDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL 336
           ID+Y K   +  A  +FE +  KD+ SWN+++  +     +   L LF  ML +G  P+ 
Sbjct: 308 IDLYSKCGELETACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGETPND 367

Query: 337 VTFSTVLPACSHLAALMHGRQIHGYI--VVNGLAKNGSCKDIDDVFMNNALMDMYTKCGS 394
           VT  ++LPAC+HL A+  GR IH YI   + G+    S        +  +L+DMY KCG 
Sbjct: 368 VTMLSILPACAHLGAIDIGRWIHVYIDKRLKGVTNASS--------LRTSLIDMYAKCGD 419

Query: 395 MRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA 454
           +  A  VF  +  K ++SWN MI G+ M G+   + D+FS M +  ++PD++TFVG+LSA
Sbjct: 420 IEAAHQVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSA 479

Query: 455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPV 514
           CSHSG L  GR     M   Y + P +EHY C+ID+LG +G   EA E+   M  E + V
Sbjct: 480 CSHSGMLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGV 539

Query: 515 VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMR 574
           +W +LL A ++HGN +L E  A+ + ++EP + G+YVL+SNIY + G++ EV   R  + 
Sbjct: 540 IWCSLLKACKMHGNVELGESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLN 599

Query: 575 QQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
            + ++K PGCS IE+   +H FI  D+ HP  + IY  L  +   L + G
Sbjct: 600 DKGMKKVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAG 649

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 =  397 bits (1020), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 225/631 (35%), Positives = 360/631 (57%), Gaps = 24/631 (3%)

Query: 1   MLSKISRINPFSSC---FNFSTSSGNQTFNHPFT-LATCIASLQLCAHQTNLQKGQEIHS 56
           +++++++   FS     F    SSG +  ++ F+ ++   +SL+      ++  G+++H 
Sbjct: 166 LMNELAKSGDFSGSIGLFKKMMSSGVEMDSYTFSCVSKSFSSLR------SVHGGEQLHG 219

Query: 57  YMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAF 116
           ++L++G  +      SL+  Y K  ++  A  VF+ ++ E +V ++N++I+G+ SN  A 
Sbjct: 220 FILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMT-ERDVISWNSIINGYVSNGLAE 278

Query: 117 KGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALV 176
           KGL  F  M   G+  D  T   +   C D   +   + +H +  K     +    + L+
Sbjct: 279 KGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLL 338

Query: 177 NTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRF 236
           + Y KC  ++ A  VF E+  R VV + +M+ GYA+ G   +A+++F  M +EGI    +
Sbjct: 339 DMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVY 398

Query: 237 TVTGVLSALIMMGFFKNGRVVHGIVVK--MGYDSGVPVMNALIDMYGKGKCVGEALEIFE 294
           TVT VL+          G+ VH  + +  +G+D  + V NAL+DMY K   + EA  +F 
Sbjct: 399 TVTAVLNCCARYRLLDEGKRVHEWIKENDLGFD--IFVSNALMDMYAKCGSMQEAELVFS 456

Query: 295 MMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAG-FQPDLVTFSTVLPACSHLAALM 353
            M  KDI SWN+I+  + +    +  L LF+ +L    F PD  T + VLPAC+ L+A  
Sbjct: 457 EMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFD 516

Query: 354 HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASW 413
            GR+IHGYI+ NG           D  + N+L+DMY KCG++  A M+F  ++ KD+ SW
Sbjct: 517 KGREIHGYIMRNGY--------FSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSW 568

Query: 414 NIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES 473
            +MI GYGM G GKEA+ +F+ M +A ++ DE++FV +L ACSHSG + +G  F  +M  
Sbjct: 569 TVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRH 628

Query: 474 RYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAE 533
              + PT+EHY C++DML R G L +AY     MP   +  +W  LL   R+H +  LAE
Sbjct: 629 ECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAE 688

Query: 534 IAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGL 593
             A++VF+LEP + G YVLM+NIY    K+E+V  +R  + Q+ +RKNPGCSWIE+K  +
Sbjct: 689 KVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRV 748

Query: 594 HTFISSDRSHPEAKSIYAELHSLTARLREHG 624
           + F++ D S+PE ++I A L  + AR+ E G
Sbjct: 749 NIFVAGDSSNPETENIEAFLRKVRARMIEEG 779

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score =  395 bits (1016), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 217/633 (34%), Positives = 344/633 (54%), Gaps = 44/633 (6%)

Query: 27  NHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINM--YSKCCQMK 84
           N P T       + L     +L++ ++ H +M+RTG    P S + L  M   S    ++
Sbjct: 22  NQPTTNNERSRHISLIERCVSLRQLKQTHGHMIRTGTFSDPYSASKLFAMAALSSFASLE 81

Query: 85  YALFVFNNLSCEPNVFTYNAMISGFYSN-DFAFKGLDFFNHMRQLGVLPDKYTFPCLIKC 143
           YA  VF+ +  +PN F +N +I  + S  D       F + + +    P+KYTFP LIK 
Sbjct: 82  YARKVFDEIP-KPNSFAWNTLIRAYASGPDPVLSIWAFLDMVSESQCYPNKYTFPFLIKA 140

Query: 144 CCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLW 203
             +V ++   + +HG+  K  +  DV++ ++L++ Y  C  ++ A KVF  +  +DVV W
Sbjct: 141 AAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGDLDSACKVFTTIKEKDVVSW 200

Query: 204 NAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVK 263
           N+M+NG+ Q G   KALE+F++M  E +  S  T+ GVLSA   +   + GR V   + +
Sbjct: 201 NSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKIRNLEFGRQVCSYIEE 260

Query: 264 MGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKD----------------------- 300
              +  + + NA++DMY K   + +A  +F+ MEEKD                       
Sbjct: 261 NRVNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDNVTWTTMLDGYAISEDYEAAREV 320

Query: 301 --------IFSWNSIMTVHEQCGNHDGTLRLFDRM-LSAGFQPDLVTFSTVLPACSHLAA 351
                   I +WN++++ +EQ G  +  L +F  + L    + + +T  + L AC+ + A
Sbjct: 321 LNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNMKLNQITLVSTLSACAQVGA 380

Query: 352 LMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVA 411
           L  GR IH YI  +G+  N          + +AL+ MY+KCG +  ++ VF  + K+DV 
Sbjct: 381 LELGRWIHSYIKKHGIRMN--------FHVTSALIHMYSKCGDLEKSREVFNSVEKRDVF 432

Query: 412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLM 471
            W+ MI G  M G G EA+DMF  M EA +KP+ VTF  V  ACSH+G + +       M
Sbjct: 433 VWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEAESLFHQM 492

Query: 472 ESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDL 531
           ES YG+VP  +HY C++D+LGR+G L +A +   AMP   +  VW  LL A ++H N +L
Sbjct: 493 ESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWGALLGACKIHANLNL 552

Query: 532 AEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKD 591
           AE+A  R+ +LEP + G +VL+SNIY   GK+E V ++R  MR   ++K PGCS IE+  
Sbjct: 553 AEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTGLKKEPGCSSIEIDG 612

Query: 592 GLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
            +H F+S D +HP ++ +Y +LH +  +L+ +G
Sbjct: 613 MIHEFLSGDNAHPMSEKVYGKLHEVMEKLKSNG 645

Arabidopsis thaliana (taxid: 3702)

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

 Score =  392 bits (1006), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 213/623 (34%), Positives = 344/623 (55%), Gaps = 31/623 (4%)

Query: 24  QTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQM 83
           Q  N   + +   + L+ CA  + L+ G ++H++ L++      +  T+ ++MY+KC  M
Sbjct: 273 QKVNAGVSQSIYASVLRSCAALSELRLGGQLHAHALKSDFAADGIVRTATLDMYAKCDNM 332

Query: 84  KYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKC 143
           + A  +F+N S   N  +YNAMI+G+   +  FK L  F+ +   G+  D+ +   + + 
Sbjct: 333 QDAQILFDN-SENLNRQSYNAMITGYSQEEHGFKALLLFHRLMSSGLGFDEISLSGVFRA 391

Query: 144 CCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLW 203
           C  V  + E  +I+GL  K  L LDV + +A ++ Y KCQ + EA +VF+E+  RD V W
Sbjct: 392 CALVKGLSEGLQIYGLAIKSSLSLDVCVANAAIDMYGKCQALAEAFRVFDEMRRRDAVSW 451

Query: 204 NAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVK 263
           NA++  + Q G+ ++ L +F  M +  I    FT   +L A    G    G  +H  +VK
Sbjct: 452 NAIIAAHEQNGKGYETLFLFVSMLRSRIEPDEFTFGSILKACTG-GSLGYGMEIHSSIVK 510

Query: 264 MGYDSGVPVMNALIDMYGKGKCVGEA----------------LEIFEMMEEKDI----FS 303
            G  S   V  +LIDMY K   + EA                +E  E M  K +     S
Sbjct: 511 SGMASNSSVGCSLIDMYSKCGMIEEAEKIHSRFFQRANVSGTMEELEKMHNKRLQEMCVS 570

Query: 304 WNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIV 363
           WNSI++ +      +    LF RM+  G  PD  T++TVL  C++LA+   G+QIH  ++
Sbjct: 571 WNSIISGYVMKEQSEDAQMLFTRMMEMGITPDKFTYATVLDTCANLASAGLGKQIHAQVI 630

Query: 364 VNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMD 423
              L          DV++ + L+DMY+KCG + D++++F K  ++D  +WN MI GY   
Sbjct: 631 KKELQS--------DVYICSTLVDMYSKCGDLHDSRLMFEKSLRRDFVTWNAMICGYAHH 682

Query: 424 GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEH 483
           G+G+EA+ +F  M    +KP+ VTF+ +L AC+H G + +G E+  +M+  YG+ P + H
Sbjct: 683 GKGEEAIQLFERMILENIKPNHVTFISILRACAHMGLIDKGLEYFYMMKRDYGLDPQLPH 742

Query: 484 YTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLH-GNTDLAEIAAQRVFQL 542
           Y+ ++D+LG++G++  A EL   MP EA+ V+WRTLL    +H  N ++AE A   + +L
Sbjct: 743 YSNMVDILGKSGKVKRALELIREMPFEADDVIWRTLLGVCTIHRNNVEVAEEATAALLRL 802

Query: 543 EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRS 602
           +P     Y L+SN+Y   G +E+V D+R  MR   ++K PGCSW+ELKD LH F+  D++
Sbjct: 803 DPQDSSAYTLLSNVYADAGMWEKVSDLRRNMRGFKLKKEPGCSWVELKDELHVFLVGDKA 862

Query: 603 HPEAKSIYAELHSLTARLREHGD 625
           HP  + IY EL  + + ++   D
Sbjct: 863 HPRWEEIYEELGLIYSEMKPFDD 885

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTV8|PP224_ARATH Pentatricopeptide repeat-containing protein At3g12770 OS=Arabidopsis thaliana GN=PCMP-H43 PE=2 SV=1

 Score =  391 bits (1005), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 200/581 (34%), Positives = 342/581 (58%), Gaps = 12/581 (2%)

Query: 46  TNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAM 105
           T+  + ++IH+ +L  G+  S   IT LI+  S    + +A  VF++L   P +F +NA+
Sbjct: 32  THKAQLKQIHARLLVLGLQFSGFLITKLIHASSSFGDITFARQVFDDLP-RPQIFPWNAI 90

Query: 106 ISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGL 165
           I G+  N+     L  +++M+   V PD +TFP L+K C  +  +   + +H  VF+LG 
Sbjct: 91  IRGYSRNNHFQDALLMYSNMQLARVSPDSFTFPHLLKACSGLSHLQMGRFVHAQVFRLGF 150

Query: 166 DLDVYIGSALVNTYLKCQFMEEALKVFEELPL--RDVVLWNAMVNGYAQIGEFHKALEVF 223
           D DV++ + L+  Y KC+ +  A  VFE LPL  R +V W A+V+ YAQ GE  +ALE+F
Sbjct: 151 DADVFVQNGLIALYAKCRRLGSARTVFEGLPLPERTIVSWTAIVSAYAQNGEPMEALEIF 210

Query: 224 RRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKG 283
            +M K  +      +  VL+A   +   K GR +H  VVKMG +    ++ +L  MY K 
Sbjct: 211 SQMRKMDVKPDWVALVSVLNAFTCLQDLKQGRSIHASVVKMGLEIEPDLLISLNTMYAKC 270

Query: 284 KCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVL 343
             V  A  +F+ M+  ++  WN++++ + + G     + +F  M++   +PD ++ ++ +
Sbjct: 271 GQVATAKILFDKMKSPNLILWNAMISGYAKNGYAREAIDMFHEMINKDVRPDTISITSAI 330

Query: 344 PACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFT 403
            AC+ + +L   R ++ Y+        G     DDVF+++AL+DM+ KCGS+  A++VF 
Sbjct: 331 SACAQVGSLEQARSMYEYV--------GRSDYRDDVFISSALIDMFAKCGSVEGARLVFD 382

Query: 404 KMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQ 463
           +   +DV  W+ MI+GYG+ G+ +EA+ ++  M    + P++VTF+G+L AC+HSG + +
Sbjct: 383 RTLDRDVVVWSAMIVGYGLHGRAREAISLYRAMERGGVHPNDVTFLGLLMACNHSGMVRE 442

Query: 464 GREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAAS 523
           G  F   M + + + P  +HY CVID+LGRAG L++AYE+   MP +    VW  LL+A 
Sbjct: 443 GWWFFNRM-ADHKINPQQQHYACVIDLLGRAGHLDQAYEVIKCMPVQPGVTVWGALLSAC 501

Query: 524 RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPG 583
           + H + +L E AAQ++F ++P + G+YV +SN+Y A   ++ V ++R  M+++ + K+ G
Sbjct: 502 KKHRHVELGEYAAQQLFSIDPSNTGHYVQLSNLYAAARLWDRVAEVRVRMKEKGLNKDVG 561

Query: 584 CSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
           CSW+E++  L  F   D+SHP  + I  ++  + +RL+E G
Sbjct: 562 CSWVEVRGRLEAFRVGDKSHPRYEEIERQVEWIESRLKEGG 602

Arabidopsis thaliana (taxid: 3702)

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

 Score =  391 bits (1004), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 205/599 (34%), Positives = 353/599 (58%), Gaps = 18/599 (3%)

Query: 28  HPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYAL 87
           + FT A   A+L + A +    +G ++H+ +++ G+  +     SLIN+Y KC  ++ A 
Sbjct: 193 NSFTFA---AALGVLAEEGVGGRGLQVHTVVVKNGLDKTIPVSNSLINLYLKCGNVRKAR 249

Query: 88  FVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDV 147
            +F+    + +V T+N+MISG+ +N    + L  F  MR   V   + +F  +IK C ++
Sbjct: 250 ILFDKTEVK-SVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSESSFASVIKLCANL 308

Query: 148 MAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP-LRDVVLWNAM 206
             +   +++H  V K G   D  I +AL+  Y KC  M +AL++F+E+  + +VV W AM
Sbjct: 309 KELRFTEQLHCSVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEIGCVGNVVSWTAM 368

Query: 207 VNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGY 266
           ++G+ Q     +A+++F  M ++G+  + FT + +L+AL ++    +   VH  VVK  Y
Sbjct: 369 ISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALPVI----SPSEVHAQVVKTNY 424

Query: 267 DSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDR 326
           +    V  AL+D Y K   V EA ++F  +++KDI +W++++  + Q G  +  +++F  
Sbjct: 425 ERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGETEAAIKMFGE 484

Query: 327 MLSAGFQPDLVTFSTVLPACSHLAALM-HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNAL 385
           +   G +P+  TFS++L  C+   A M  G+Q HG+ + + L  +        + +++AL
Sbjct: 485 LTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSS--------LCVSSAL 536

Query: 386 MDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDE 445
           + MY K G++  A+ VF +  +KD+ SWN MI GY   GQ  +ALD+F  M + K+K D 
Sbjct: 537 LTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMDG 596

Query: 446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELAL 505
           VTF+GV +AC+H+G + +G ++  +M     + PT EH +C++D+  RAGQL +A ++  
Sbjct: 597 VTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVIE 656

Query: 506 AMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEE 565
            MPN A   +WRT+LAA R+H  T+L  +AA+++  ++P     YVL+SN+Y   G ++E
Sbjct: 657 NMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQE 716

Query: 566 VLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
              +R  M ++NV+K PG SWIE+K+  ++F++ DRSHP    IY +L  L+ RL++ G
Sbjct: 717 RAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLG 775

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	660
225463424	629	PREDICTED: pentatricopeptide repeat-cont	0.916	0.961	0.713	0.0
297740651	709	unnamed protein product [Vitis vinifera]	0.916	0.853	0.713	0.0
147853412	549	hypothetical protein VITISV_013933 [Viti	0.824	0.990	0.715	0.0
356546044	628	PREDICTED: pentatricopeptide repeat-cont	0.901	0.947	0.653	0.0
147804706	629	hypothetical protein VITISV_041329 [Viti	0.801	0.841	0.720	0.0
449465795	603	PREDICTED: pentatricopeptide repeat-cont	0.878	0.961	0.646	0.0
224090799	555	predicted protein [Populus trichocarpa]	0.831	0.989	0.670	0.0
449463559	566	PREDICTED: pentatricopeptide repeat-cont	0.827	0.964	0.608	0.0
297834340	652	pentatricopeptide repeat-containing prot	0.921	0.932	0.547	0.0
15231917	653	pentatricopeptide repeat-containing prot	0.922	0.932	0.545	0.0

>gi|225463424|ref|XP_002272240.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14730-like [Vitis vinifera]

 Score =  917 bits (2370), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 436/611 (71%), Positives = 507/611 (82%), Gaps = 6/611 (0%)

Query: 15  FNFST-SSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSL 73
           FNFS+ S+  Q+F  P+ L TCIASLQ  AH  NL KG+EIHSYML  G ++SPLSITSL
Sbjct: 19  FNFSSISTAIQSFQQPYNLTTCIASLQASAHHKNLSKGKEIHSYMLINGFLNSPLSITSL 78

Query: 74  INMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPD 133
           INMYSKC QM +AL +F++ + E NVF +NA+ISGF +N F  +G +F+  MR  GV+PD
Sbjct: 79  INMYSKCNQMNFALSIFSDPTHEINVFAFNAIISGFITNGFPEEGFEFYQKMRNEGVIPD 138

Query: 134 KYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFE 193
           K+TFPC IK C DV   LE+KKIHGL+FK GL+LDV+IGSALVN YLK   ME A   FE
Sbjct: 139 KFTFPCAIKACLDV---LEIKKIHGLLFKFGLELDVFIGSALVNCYLKFGLMEHAQVAFE 195

Query: 194 ELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKN 253
           ELP+RDVVLWNAMVNGYAQIG+F   LE FRRM+ E +  SRFTVTGVLS   +MG   N
Sbjct: 196 ELPIRDVVLWNAMVNGYAQIGQFEMVLETFRRMNDESVVPSRFTVTGVLSVFAVMGDLNN 255

Query: 254 GRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQ 313
           GR++HG  +KMGYDSGV V N+LIDMYGK KC+ +ALEIFEMM EKDIFSWNSI++VHEQ
Sbjct: 256 GRIIHGFAMKMGYDSGVAVSNSLIDMYGKCKCIEDALEIFEMMREKDIFSWNSIVSVHEQ 315

Query: 314 CGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSC 373
           CG+HDGTLRL DRML AG QPDLVT +TVLPACSHLAALMHGR+IHGY++V+GL K+G  
Sbjct: 316 CGDHDGTLRLLDRMLGAGIQPDLVTVTTVLPACSHLAALMHGREIHGYMIVSGLGKDG-- 373

Query: 374 KDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMF 433
           KDIDDV + NA++DMY KCGSMRDA +VF +MS KDVASWNIMI+GYGM G G EAL+MF
Sbjct: 374 KDIDDVLLKNAVIDMYAKCGSMRDAHLVFERMSNKDVASWNIMIMGYGMHGYGNEALEMF 433

Query: 434 SCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR 493
           S MCE +LKPDEVTFVGVLSACSH+GF+SQGR FL  M+S+Y V PTIEHYTCVIDMLGR
Sbjct: 434 SRMCEVQLKPDEVTFVGVLSACSHAGFVSQGRNFLVQMKSKYDVAPTIEHYTCVIDMLGR 493

Query: 494 AGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM 553
           AGQL+EAYELAL MP EANPVVWR LLAA RLH +  LAE+AAQRVF+LEP HCG+YVLM
Sbjct: 494 AGQLDEAYELALTMPIEANPVVWRALLAACRLHKHAVLAEVAAQRVFELEPEHCGSYVLM 553

Query: 554 SNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAEL 613
           SN+Y A G+YEEVL++RHTMRQQNVRK PGCSWIELK+G+H F+S+DR+HPEA SIYA L
Sbjct: 554 SNVYGAVGRYEEVLEVRHTMRQQNVRKTPGCSWIELKNGVHVFVSADRAHPEAHSIYAGL 613

Query: 614 HSLTARLREHG 624
           +SLTARLREHG
Sbjct: 614 NSLTARLREHG 624

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297740651|emb|CBI30833.3| unnamed protein product [Vitis vinifera]

 Score =  914 bits (2361), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 436/611 (71%), Positives = 507/611 (82%), Gaps = 6/611 (0%)

Query: 15  FNFST-SSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSL 73
           FNFS+ S+  Q+F  P+ L TCIASLQ  AH  NL KG+EIHSYML  G ++SPLSITSL
Sbjct: 19  FNFSSISTAIQSFQQPYNLTTCIASLQASAHHKNLSKGKEIHSYMLINGFLNSPLSITSL 78

Query: 74  INMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPD 133
           INMYSKC QM +AL +F++ + E NVF +NA+ISGF +N F  +G +F+  MR  GV+PD
Sbjct: 79  INMYSKCNQMNFALSIFSDPTHEINVFAFNAIISGFITNGFPEEGFEFYQKMRNEGVIPD 138

Query: 134 KYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFE 193
           K+TFPC IK C DV   LE+KKIHGL+FK GL+LDV+IGSALVN YLK   ME A   FE
Sbjct: 139 KFTFPCAIKACLDV---LEIKKIHGLLFKFGLELDVFIGSALVNCYLKFGLMEHAQVAFE 195

Query: 194 ELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKN 253
           ELP+RDVVLWNAMVNGYAQIG+F   LE FRRM+ E +  SRFTVTGVLS   +MG   N
Sbjct: 196 ELPIRDVVLWNAMVNGYAQIGQFEMVLETFRRMNDESVVPSRFTVTGVLSVFAVMGDLNN 255

Query: 254 GRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQ 313
           GR++HG  +KMGYDSGV V N+LIDMYGK KC+ +ALEIFEMM EKDIFSWNSI++VHEQ
Sbjct: 256 GRIIHGFAMKMGYDSGVAVSNSLIDMYGKCKCIEDALEIFEMMREKDIFSWNSIVSVHEQ 315

Query: 314 CGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSC 373
           CG+HDGTLRL DRML AG QPDLVT +TVLPACSHLAALMHGR+IHGY++V+GL K+G  
Sbjct: 316 CGDHDGTLRLLDRMLGAGIQPDLVTVTTVLPACSHLAALMHGREIHGYMIVSGLGKDG-- 373

Query: 374 KDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMF 433
           KDIDDV + NA++DMY KCGSMRDA +VF +MS KDVASWNIMI+GYGM G G EAL+MF
Sbjct: 374 KDIDDVLLKNAVIDMYAKCGSMRDAHLVFERMSNKDVASWNIMIMGYGMHGYGNEALEMF 433

Query: 434 SCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR 493
           S MCE +LKPDEVTFVGVLSACSH+GF+SQGR FL  M+S+Y V PTIEHYTCVIDMLGR
Sbjct: 434 SRMCEVQLKPDEVTFVGVLSACSHAGFVSQGRNFLVQMKSKYDVAPTIEHYTCVIDMLGR 493

Query: 494 AGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM 553
           AGQL+EAYELAL MP EANPVVWR LLAA RLH +  LAE+AAQRVF+LEP HCG+YVLM
Sbjct: 494 AGQLDEAYELALTMPIEANPVVWRALLAACRLHKHAVLAEVAAQRVFELEPEHCGSYVLM 553

Query: 554 SNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAEL 613
           SN+Y A G+YEEVL++RHTMRQQNVRK PGCSWIELK+G+H F+S+DR+HPEA SIYA L
Sbjct: 554 SNVYGAVGRYEEVLEVRHTMRQQNVRKTPGCSWIELKNGVHVFVSADRAHPEAHSIYAGL 613

Query: 614 HSLTARLREHG 624
           +SLTARLREHG
Sbjct: 614 NSLTARLREHG 624

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147853412|emb|CAN82303.1| hypothetical protein VITISV_013933 [Vitis vinifera]

 Score =  830 bits (2144), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 393/549 (71%), Positives = 457/549 (83%), Gaps = 5/549 (0%)

Query: 76  MYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKY 135
           MYSKC QM +AL +F++ + E NVF +NA+ISGF +N F  +G +F+  MR  GV+PDK+
Sbjct: 1   MYSKCNQMNFALSIFSDPTHEINVFAFNAIISGFITNGFPEEGFEFYQKMRNEGVMPDKF 60

Query: 136 TFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEEL 195
           TFPC IK C DV   LE+KKIHGL+FK GL+LDV+IGSALVN YLK   ME A   FEEL
Sbjct: 61  TFPCAIKACLDV---LEIKKIHGLLFKFGLELDVFIGSALVNCYLKFGLMEHAQVAFEEL 117

Query: 196 PLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGR 255
           P+RDVVLWNAMVNGYAQIG+F   LE FRRM+ E +  SRFTVTG+LS   +MG   NGR
Sbjct: 118 PIRDVVLWNAMVNGYAQIGQFEMVLETFRRMNDESVVPSRFTVTGILSVFAVMGDLNNGR 177

Query: 256 VVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCG 315
           ++HG  +KMGYDSGV V N+LIDMYGK KC+ +ALEIFEMM EKDIFSWNSI +VHEQCG
Sbjct: 178 IIHGFAMKMGYDSGVAVSNSLIDMYGKCKCIEDALEIFEMMREKDIFSWNSIXSVHEQCG 237

Query: 316 NHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKD 375
           +HDGTLRL DRML AG QPDLVT +TVLPACSHLAALMHGR+IHGY++V+GL K+G  KD
Sbjct: 238 DHDGTLRLLDRMLGAGIQPDLVTVTTVLPACSHLAALMHGREIHGYMIVSGLGKDG--KD 295

Query: 376 IDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSC 435
           IDDV + NA++DMY KCGSMRDA +VF +M  KDVASWNIMI+GYGM G G EAL+MFS 
Sbjct: 296 IDDVLLKNAVIDMYAKCGSMRDAHLVFERMXNKDVASWNIMIMGYGMHGYGNEALEMFSR 355

Query: 436 MCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG 495
           MCE +LKPDEVTFVGVLSACSH+GF+SQGR FL  M+S+Y V PTIEHYTCVIDMLGRAG
Sbjct: 356 MCEVQLKPDEVTFVGVLSACSHAGFVSQGRNFLAQMKSKYDVAPTIEHYTCVIDMLGRAG 415

Query: 496 QLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSN 555
           QL+EAYELAL MP EANPVVWR LLAA RLH +  LAE+AAQRVF+LEP HCG+YVLMSN
Sbjct: 416 QLDEAYELALTMPIEANPVVWRALLAACRLHKHAVLAEVAAQRVFELEPEHCGSYVLMSN 475

Query: 556 IYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHS 615
           +Y A G+YEEVL++RHTMRQQNVRK PGCSWIELK+G+H F+S+DR+HPEA SIYA L+S
Sbjct: 476 VYGAVGRYEEVLEVRHTMRQQNVRKTPGCSWIELKNGVHVFVSADRAHPEAYSIYAGLNS 535

Query: 616 LTARLREHG 624
           LTARL EHG
Sbjct: 536 LTARLCEHG 544

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356546044|ref|XP_003541442.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14730-like [Glycine max]

 Score =  815 bits (2106), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 390/597 (65%), Positives = 477/597 (79%), Gaps = 2/597 (0%)

Query: 30  FTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFV 89
           + L TCIA+LQ CAH  NL KG+E+H+++L+     SPL+ITSLINMYSKC  + ++L V
Sbjct: 27  YDLGTCIATLQSCAHNANLSKGKELHTHLLKNAFFGSPLAITSLINMYSKCSLIDHSLRV 86

Query: 90  FN-NLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVM 148
           FN       NVF YNA+I+GF +N    + L  +N MR LG+ PDK+TFPC+I+ C D  
Sbjct: 87  FNFPTHHNKNVFAYNALIAGFLANALPQRALALYNQMRHLGIAPDKFTFPCVIRACGDDD 146

Query: 149 AVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVN 208
               V KIHGL+FK+GL+LDV++GSALVNTYLK +F+ EA +VFEELP+RDVVLWNAMVN
Sbjct: 147 DGFVVTKIHGLMFKVGLELDVFVGSALVNTYLKFRFVGEAYRVFEELPVRDVVLWNAMVN 206

Query: 209 GYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDS 268
           G+AQIG F +AL VFRRM   G+   R+TVTGVLS   +MG F NGR VHG V KMGY+S
Sbjct: 207 GFAQIGRFEEALGVFRRMGGNGVVPCRYTVTGVLSIFSVMGDFDNGRAVHGFVTKMGYES 266

Query: 269 GVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRML 328
           GV V NALIDMYGK KCVG+AL +FEMM+E DIFSWNSIM+VHE+CG+H GTLRLFDRM+
Sbjct: 267 GVVVSNALIDMYGKCKCVGDALSVFEMMDEIDIFSWNSIMSVHERCGDHYGTLRLFDRMM 326

Query: 329 -SAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMD 387
            S+  QPDLVT +TVLPAC+HLAALMHGR+IHGY+VVNGLAK  S    DDV +NNALMD
Sbjct: 327 GSSRVQPDLVTVTTVLPACTHLAALMHGREIHGYMVVNGLAKEESHDVFDDVLLNNALMD 386

Query: 388 MYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVT 447
           MY KCG+MRDA+MVF  M +KDVASWNIMI GYGM G G EALD+FS MC+A++ P+E++
Sbjct: 387 MYAKCGNMRDARMVFVNMREKDVASWNIMITGYGMHGYGGEALDIFSRMCQAQMVPNEIS 446

Query: 448 FVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAM 507
           FVG+LSACSH+G + +G  FL  MES+YGV P+IEHYTCVIDML RAGQL EAY+L L M
Sbjct: 447 FVGLLSACSHAGMVKEGLGFLSEMESKYGVSPSIEHYTCVIDMLCRAGQLMEAYDLVLTM 506

Query: 508 PNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVL 567
           P +A+PV WR+LLAA RLH +TDLAE+AA +V +LEP HCGNYVLMSN+Y   G+YEEVL
Sbjct: 507 PFKADPVGWRSLLAACRLHNDTDLAEVAASKVIELEPDHCGNYVLMSNVYGVVGRYEEVL 566

Query: 568 DIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
           + R+TM+QQNV+K PGCSWIEL +G+H FI+ DR+HP+ + IYA L+SLTA L+EHG
Sbjct: 567 EWRYTMKQQNVKKRPGCSWIELVNGVHVFITGDRTHPQTEYIYAGLNSLTAVLQEHG 623

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147804706|emb|CAN64870.1| hypothetical protein VITISV_041329 [Vitis vinifera]

 Score =  813 bits (2101), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 385/534 (72%), Positives = 446/534 (83%), Gaps = 5/534 (0%)

Query: 91  NNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAV 150
           N+ + E NVF +NA+ISGF +N F  +G +F+  MR  GV+PDK+TFPC IK C DV   
Sbjct: 96  NDPTHEINVFAFNAIISGFITNGFPEEGFEFYQKMRNEGVMPDKFTFPCAIKACLDV--- 152

Query: 151 LEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGY 210
           LE+KKIHGL+FK GL+LDV+IGSALVN YLK   ME A   FEELP+RDVVLWNAMVNGY
Sbjct: 153 LEIKKIHGLLFKFGLELDVFIGSALVNCYLKFGLMEHAQVAFEELPIRDVVLWNAMVNGY 212

Query: 211 AQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGV 270
           AQIG+F   LE FRRM+ E +  SRFTVTG LS   +MG   NGR++HG  +KMGYDSGV
Sbjct: 213 AQIGQFEMVLETFRRMNDESVVPSRFTVTGXLSVFAVMGDLNNGRIIHGFAMKMGYDSGV 272

Query: 271 PVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSA 330
            V N+LIDMYGK KC+ +ALEIFEMM EKDIFSWNSI++VHEQCG+HDGTLRL DRML A
Sbjct: 273 AVSNSLIDMYGKCKCIEDALEIFEMMREKDIFSWNSIVSVHEQCGDHDGTLRLLDRMLGA 332

Query: 331 GFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYT 390
           G QPDLVT +TVLPACSHLAALMHGR+IHGY++V+GL K+G  KDIDDV + NA++DMY 
Sbjct: 333 GIQPDLVTVTTVLPACSHLAALMHGREIHGYMIVSGLGKDG--KDIDDVLLKNAVIDMYA 390

Query: 391 KCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVG 450
           KCGSMRDA +VF +MS KDVASWNIMI+GYGM G G EAL+MFS MCE +LKPDEVTFVG
Sbjct: 391 KCGSMRDAHLVFERMSNKDVASWNIMIMGYGMHGYGNEALEMFSRMCEVQLKPDEVTFVG 450

Query: 451 VLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNE 510
           VLSACSH+GF+SQGR FL  M+S+Y V PTIEHYTCVIDMLGRAGQL+EAYELAL MP E
Sbjct: 451 VLSACSHAGFVSQGRNFLVQMKSKYDVAPTIEHYTCVIDMLGRAGQLDEAYELALTMPIE 510

Query: 511 ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIR 570
           ANPVVWR LLAA RLH +  LAE+AAQRVF+LEP HCG+YVLMSN+Y A G+YEEVL++R
Sbjct: 511 ANPVVWRALLAACRLHKHAVLAEVAAQRVFELEPEHCGSYVLMSNVYGAVGRYEEVLEVR 570

Query: 571 HTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
           HTMRQQNVRK PGCSWIELK+G+H F+S+DR+HPEA SIYA L+SLTARL EHG
Sbjct: 571 HTMRQQNVRKTPGCSWIELKNGVHVFVSADRAHPEAXSIYAGLNSLTARLXEHG 624

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449465795|ref|XP_004150613.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14730-like [Cucumis sativus]

 Score =  793 bits (2047), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 377/583 (64%), Positives = 458/583 (78%), Gaps = 3/583 (0%)

Query: 31  TLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVF 90
            +  C+A LQ CA   NL KG+++HS M+  G   SP SITSLINMYSKC QM  A+ VF
Sbjct: 10  NVTKCVAFLQSCADHQNLNKGKQLHSLMITYGFSPSPPSITSLINMYSKCGQMGEAILVF 69

Query: 91  NNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAV 150
            +   E NVF YNA+ISGF SN  A KG  F+  MR  GV+PDKYTFPC+++ CC+VM  
Sbjct: 70  YDPCHERNVFAYNAIISGFVSNGLASKGFQFYKKMRLEGVMPDKYTFPCVVRTCCEVM-- 127

Query: 151 LEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGY 210
            EVKKIHG + K+GL+LDV++GSALVNTYLK   ME+A KVF EL +RDVVLWNAM+NGY
Sbjct: 128 -EVKKIHGCLLKMGLELDVFVGSALVNTYLKNGSMEDAQKVFGELSIRDVVLWNAMINGY 186

Query: 211 AQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGV 270
           A+IG   +ALEVFRRM  +G+  SRFT+TG+LS     G   NG+ VHGIV+KMGYDSGV
Sbjct: 187 AKIGCLDEALEVFRRMHVKGVAPSRFTITGILSVFASRGDLDNGKTVHGIVMKMGYDSGV 246

Query: 271 PVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSA 330
            V NALIDMYGK K +G+AL IFEM+ EKDIFSWNSI++VHEQCG+HDGTLRLFD+ML +
Sbjct: 247 SVSNALIDMYGKCKHIGDALIIFEMINEKDIFSWNSIISVHEQCGDHDGTLRLFDKMLGS 306

Query: 331 GFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYT 390
           G  PDLVT +TVLPACSHLAALMHGR+IHGY+++NGL K+     +D++ ++NA+MDMY 
Sbjct: 307 GILPDLVTITTVLPACSHLAALMHGREIHGYMIINGLGKDDENGAVDNLLVSNAVMDMYA 366

Query: 391 KCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVG 450
           KCGSM +A  +F  MSKKDVASWNIMI+GYGM G   EAL MFS MCEA+ KP+EVT VG
Sbjct: 367 KCGSMNNALKIFDSMSKKDVASWNIMIMGYGMHGYALEALGMFSQMCEAEFKPNEVTLVG 426

Query: 451 VLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNE 510
           VLSAC+H+GF+S GR FL  MES +GV+PTIEHYTCVIDMLGRAG L +AYE+   MP +
Sbjct: 427 VLSACNHAGFVSHGRLFLAQMESTFGVIPTIEHYTCVIDMLGRAGHLEDAYEIVQKMPIQ 486

Query: 511 ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIR 570
           ANPVVWR LL A RLHGN +LAEIAA++V QLEP HCG+YVLMSN+Y   G+YEEVL++R
Sbjct: 487 ANPVVWRALLGACRLHGNAELAEIAARQVLQLEPEHCGSYVLMSNVYGVIGRYEEVLEVR 546

Query: 571 HTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAEL 613
            TM++QNV+K PGCSWIELKDG+H F + DR+H E  ++  +L
Sbjct: 547 KTMKEQNVKKTPGCSWIELKDGVHVFRTGDRTHSELNALTNQL 589

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224090799|ref|XP_002309086.1| predicted protein [Populus trichocarpa] gi|222855062|gb|EEE92609.1| predicted protein [Populus trichocarpa]

 Score =  775 bits (2001), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 369/550 (67%), Positives = 445/550 (80%), Gaps = 1/550 (0%)

Query: 76  MYSKCCQMKYALFVFNNLS-CEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDK 134
           MY+KC QM  AL V N  +    NVF YNA+ISGF  N     GL  +  MRQ GVLPDK
Sbjct: 1   MYAKCNQMNQALLVLNRTADYARNVFAYNALISGFVLNGLPQDGLGAYEEMRQAGVLPDK 60

Query: 135 YTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEE 194
           YTFPCLIK  C+VM V +VKKIHGLV KLGLDLD+Y+GS+LV++YLK + M+EA ++F+E
Sbjct: 61  YTFPCLIKGLCEVMEVFQVKKIHGLVRKLGLDLDMYVGSSLVSSYLKSELMKEARELFDE 120

Query: 195 LPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNG 254
           +P RDVVLWN+MVNGYAQIG F +AL V R MS+EG+ MS+FTV+GVLS     G F NG
Sbjct: 121 IPDRDVVLWNSMVNGYAQIGRFDEALGVCREMSQEGVLMSKFTVSGVLSVFAGRGDFDNG 180

Query: 255 RVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQC 314
           R+VHG ++KMG+DS V V NALIDMYGK +CV +ALEIFE M EKDIFSWNSI++ +E C
Sbjct: 181 RLVHGFMIKMGFDSCVSVCNALIDMYGKCRCVVDALEIFETMNEKDIFSWNSILSANELC 240

Query: 315 GNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCK 374
            +HDGTLRLFDRML  G Q DLVT +T+LPACSHLAAL+HGR+IHGY++VNG  K+G  +
Sbjct: 241 SDHDGTLRLFDRMLGDGVQLDLVTITTILPACSHLAALVHGREIHGYMIVNGFVKDGESE 300

Query: 375 DIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFS 434
           ++ ++   NALMDMY KCGSMRDA MVF  MS +D ASWNIMI+GYGM G G EAL MFS
Sbjct: 301 NMYNLQTINALMDMYAKCGSMRDAGMVFYNMSNRDTASWNIMIMGYGMHGYGNEALYMFS 360

Query: 435 CMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA 494
            MC++ LKP+E+TFVGVL ACSH+GF+SQG +FL  ME ++GVVPTI+HYTCVIDMLGRA
Sbjct: 361 DMCKSGLKPNEITFVGVLLACSHAGFISQGIKFLGEMELKHGVVPTIQHYTCVIDMLGRA 420

Query: 495 GQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMS 554
           GQL EAY+LA+ MP + NPVVWR LLAA +L+GN DLAE+AAQ+VF+L P HCGNYVLMS
Sbjct: 421 GQLEEAYKLAVTMPIQTNPVVWRALLAACQLYGNVDLAEVAAQKVFELNPAHCGNYVLMS 480

Query: 555 NIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELH 614
           N YVA G+Y+EVLDIRHTMRQQ+V+K PGCSWIELK+G++TFI+ DR+HPEA+ IY ELH
Sbjct: 481 NAYVAAGRYQEVLDIRHTMRQQDVKKTPGCSWIELKNGMNTFINGDRNHPEARLIYPELH 540

Query: 615 SLTARLREHG 624
            L A +REHG
Sbjct: 541 LLAAHIREHG 550

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463559|ref|XP_004149501.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14730-like [Cucumis sativus] gi|449511944|ref|XP_004164096.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14730-like [Cucumis sativus]

 Score =  715 bits (1845), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/554 (60%), Positives = 424/554 (76%), Gaps = 8/554 (1%)

Query: 58  MLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFK 117
           M+ +G I  P SITSLINMYS+C QM+ A+ VF +   E NVF YNA+I+GF +N  A  
Sbjct: 1   MVTSGFIHLPSSITSLINMYSRCNQMEEAVLVFRDPYHERNVFAYNAIIAGFVANGLAAD 60

Query: 118 GLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVN 177
           G  F+  MR +GV+PDK+TFPC+++ CC+ M   EV+KIHG +FK+GL+L+V++GSALVN
Sbjct: 61  GFQFYKRMRSVGVMPDKFTFPCVVRACCEFM---EVRKIHGCLFKMGLELNVFVGSALVN 117

Query: 178 TYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFT 237
           TYLK    E+A KVFEELP RDVVLWNAM+NGY +IG  +KA+ VF+RM +EGI +SRFT
Sbjct: 118 TYLKVDGTEDAEKVFEELPERDVVLWNAMINGYTKIGHLNKAVVVFKRMGEEGISLSRFT 177

Query: 238 VTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMME 297
            T +LS L  MG   NGR +HGIV KMGY S V V NALIDMYGK K   +AL IFEM+ 
Sbjct: 178 TTSILSILTSMGDINNGRAIHGIVTKMGYSSCVAVSNALIDMYGKCKHTEDALMIFEMIN 237

Query: 298 EKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQ 357
           EKD+FSWNSI++ HEQC +HDGTLRLF +ML +   PD++T + VLPACSHLAALMHGR+
Sbjct: 238 EKDLFSWNSIISAHEQCDDHDGTLRLFGKMLGSRVLPDVITITAVLPACSHLAALMHGRE 297

Query: 358 IHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMI 417
           IHGY++VNGL KN   ++ DDV +NNA+MDMY KCG M++A ++F  M  KDVASWNIMI
Sbjct: 298 IHGYMIVNGLGKN---ENGDDVLLNNAIMDMYAKCGCMKNADIIFDLMRNKDVASWNIMI 354

Query: 418 LGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGV 477
           +GY M G G EALDMF  MCEA++KPD VTFVGVLSACSH+GF+ QGR FL  ME  +GV
Sbjct: 355 MGYAMHGYGTEALDMFHRMCEAQIKPDVVTFVGVLSACSHAGFVHQGRSFLTRMELEFGV 414

Query: 478 VPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQ 537
           +PTIEHYTC+IDMLGRAG L EAY+LA  +P E N ++W  LL A RLHGN +L  +  +
Sbjct: 415 IPTIEHYTCIIDMLGRAGHLGEAYDLAQRIPLEDNLILWMALLGACRLHGNAELGNVVGE 474

Query: 538 RVFQLEPGHC--GNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHT 595
           ++ QLEP HC  G+Y+LMS++Y   G+YEE L++R TM++QNV+K PGCSWIELKDGL+ 
Sbjct: 475 KITQLEPKHCGSGSYILMSSLYGVVGRYEEALEVRRTMKEQNVKKTPGCSWIELKDGLYV 534

Query: 596 FISSDRSHPEAKSI 609
           F   DR+H E  ++
Sbjct: 535 FSMGDRTHHELNAL 548

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297834340|ref|XP_002885052.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297330892|gb|EFH61311.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  701 bits (1809), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 341/623 (54%), Positives = 447/623 (71%), Gaps = 15/623 (2%)

Query: 8   INPFSSCFNFSTSSGNQTFNHP-----FTLATCIASLQLCAHQTNLQKGQEIHSYMLRTG 62
           INP +    +ST SG Q   HP       +AT IA+LQ CA + +   GQ+IH +M+R G
Sbjct: 31  INPSTFASLYSTVSG-QIEEHPKRYEHHNVATSIATLQRCAQRKDSVSGQQIHGFMVRKG 89

Query: 63  IID-SPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDF 121
            +D SP ++TSL+NMY+KC  M+ A+ VF     E +VF YNA+ISGF  N      +D 
Sbjct: 90  FLDDSPRAVTSLVNMYAKCGLMRRAVLVFGG--SERDVFGYNALISGFVVNGSPLDAMDM 147

Query: 122 FNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLK 181
           +  MR  G+LPDKYTFP L+K   D M V +VKK+H L FKLG   D Y+GSALV +Y K
Sbjct: 148 YREMRAKGILPDKYTFPSLLKGS-DAMEVSDVKKVHALAFKLGFVSDCYVGSALVTSYSK 206

Query: 182 CQFMEEALKVFEELPLRD-VVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTG 240
              +E+A KVF+ELP RD  VLWNA+VNGY+ I  F  AL VF +M +EG+ MSR T+T 
Sbjct: 207 FMSVEDAQKVFDELPDRDDSVLWNALVNGYSHIFRFEDALIVFSKMREEGVAMSRHTITS 266

Query: 241 VLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKD 300
           VLS+  + G   NGR +HG+ VKMG+DSG+ V NALID+YGK K + EA  IFE M+E+D
Sbjct: 267 VLSSFTVSGDLDNGRSIHGLAVKMGFDSGIVVSNALIDLYGKSKWLEEANSIFEAMDERD 326

Query: 301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHG 360
           +F+WNS++ VH+ CG+HDGTL LF+ ML +G +PD+VT +TVLP C  LA+L  GR+IHG
Sbjct: 327 LFTWNSVLCVHDYCGDHDGTLALFETMLCSGIRPDIVTLTTVLPTCGRLASLKQGREIHG 386

Query: 361 YIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGY 420
           Y++ +GL    S       F++N+LMDMY KCG +RDA+MVF  M  KD ASWNIMI GY
Sbjct: 387 YMIASGLLNRKSSNG----FIHNSLMDMYVKCGDLRDARMVFDSMRVKDSASWNIMINGY 442

Query: 421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT 480
           G+   G+ ALDMFSCMC A +KPDE+TFVG+L ACSHSGF+++GR FL  ME+ Y ++PT
Sbjct: 443 GVQSCGELALDMFSCMCRAGVKPDEITFVGLLQACSHSGFVNEGRNFLAQMETLYNILPT 502

Query: 481 IEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVF 540
            +HY CVIDMLGRA +L EAY+LA++MP   NPVVWR++L++ RLHGN DLA +A +R++
Sbjct: 503 SDHYACVIDMLGRADKLEEAYDLAISMPICDNPVVWRSILSSCRLHGNKDLAVVAGKRLY 562

Query: 541 QLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSD 600
           +LEP HCG YVLMSN+YV   KYEEVLD+R TM++QNV+K PGCSWI L++G+HTF + D
Sbjct: 563 ELEPEHCGVYVLMSNVYVEAKKYEEVLDVRDTMKEQNVKKTPGCSWIGLQNGVHTFFTGD 622

Query: 601 RSHPEAKSIYAELHSLTARLREH 623
           ++HPE +SI+  L  L + +  H
Sbjct: 623 QTHPEFESIHGWLSLLISHMHGH 645

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15231917|ref|NP_188091.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75274207|sp|Q9LUC2.1|PP231_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At3g14730 gi|9294394|dbj|BAB02404.1| unnamed protein product [Arabidopsis thaliana] gi|332642039|gb|AEE75560.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  697 bits (1800), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 340/623 (54%), Positives = 444/623 (71%), Gaps = 14/623 (2%)

Query: 8   INPFSSCFNFSTSSGNQTFNHP-----FTLATCIASLQLCAHQTNLQKGQEIHSYMLRTG 62
           I P S+  +  ++   Q   +P       +ATCIA+LQ CA + +   GQ+IH +M+R G
Sbjct: 31  IKPSSALASLYSTVSGQIEENPKRYEHHNVATCIATLQRCAQRKDYVSGQQIHGFMVRKG 90

Query: 63  IID-SPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDF 121
            +D SP + TSL+NMY+KC  M+ A+ VF     E +VF YNA+ISGF  N      ++ 
Sbjct: 91  FLDDSPRAGTSLVNMYAKCGLMRRAVLVFGG--SERDVFGYNALISGFVVNGSPLDAMET 148

Query: 122 FNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLK 181
           +  MR  G+LPDKYTFP L+K   D M + +VKK+HGL FKLG D D Y+GS LV +Y K
Sbjct: 149 YREMRANGILPDKYTFPSLLKGS-DAMELSDVKKVHGLAFKLGFDSDCYVGSGLVTSYSK 207

Query: 182 CQFMEEALKVFEELPLRD-VVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTG 240
              +E+A KVF+ELP RD  VLWNA+VNGY+QI  F  AL VF +M +EG+ +SR T+T 
Sbjct: 208 FMSVEDAQKVFDELPDRDDSVLWNALVNGYSQIFRFEDALLVFSKMREEGVGVSRHTITS 267

Query: 241 VLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKD 300
           VLSA  + G   NGR +HG+ VK G  S + V NALIDMYGK K + EA  IFE M+E+D
Sbjct: 268 VLSAFTVSGDIDNGRSIHGLAVKTGSGSDIVVSNALIDMYGKSKWLEEANSIFEAMDERD 327

Query: 301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHG 360
           +F+WNS++ VH+ CG+HDGTL LF+RML +G +PD+VT +TVLP C  LA+L  GR+IHG
Sbjct: 328 LFTWNSVLCVHDYCGDHDGTLALFERMLCSGIRPDIVTLTTVLPTCGRLASLRQGREIHG 387

Query: 361 YIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGY 420
           Y++V+GL    S  +    F++N+LMDMY KCG +RDA+MVF  M  KD ASWNIMI GY
Sbjct: 388 YMIVSGLLNRKSSNE----FIHNSLMDMYVKCGDLRDARMVFDSMRVKDSASWNIMINGY 443

Query: 421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT 480
           G+   G+ ALDMFSCMC A +KPDE+TFVG+L ACSHSGFL++GR FL  ME+ Y ++PT
Sbjct: 444 GVQSCGELALDMFSCMCRAGVKPDEITFVGLLQACSHSGFLNEGRNFLAQMETVYNILPT 503

Query: 481 IEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVF 540
            +HY CVIDMLGRA +L EAYELA++ P   NPVVWR++L++ RLHGN DLA +A +R+ 
Sbjct: 504 SDHYACVIDMLGRADKLEEAYELAISKPICDNPVVWRSILSSCRLHGNKDLALVAGKRLH 563

Query: 541 QLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSD 600
           +LEP HCG YVLMSN+YV  GKYEEVLD+R  MRQQNV+K PGCSWI LK+G+HTF + +
Sbjct: 564 ELEPEHCGGYVLMSNVYVEAGKYEEVLDVRDAMRQQNVKKTPGCSWIVLKNGVHTFFTGN 623

Query: 601 RSHPEAKSIYAELHSLTARLREH 623
           ++HPE KSI+  L  + + +  H
Sbjct: 624 QTHPEFKSIHDWLSLVISHMHGH 646

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	660
TAIR|locus:2089591	653	AT3G14730 "AT3G14730" [Arabido	0.921	0.931	0.549	1.2e-182
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.884	0.656	0.360	1.5e-108
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.869	0.662	0.354	2.9e-103
TAIR|locus:2141171	857	AT4G21300 [Arabidopsis thalian	0.925	0.712	0.357	3.7e-103
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.874	0.713	0.354	6.9e-102
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.921	0.698	0.355	1.7e-100
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.893	0.679	0.344	3.1e-99
TAIR|locus:2181201	691	AT5G27110 [Arabidopsis thalian	0.85	0.811	0.370	3.1e-99
TAIR|locus:2064828	860	AT2G40720 [Arabidopsis thalian	0.868	0.666	0.349	7.4e-98
TAIR|locus:2178188	995	MEF7 "AT5G09950" [Arabidopsis	0.863	0.572	0.357	3.2e-97

TAIR|locus:2089591 AT3G14730 "AT3G14730" [Arabidopsis thaliana (taxid:3702)]

 Score = 1772 (628.8 bits), Expect = 1.2e-182, P = 1.2e-182
 Identities = 343/624 (54%), Positives = 447/624 (71%)

Query:     8 INPFSSCFN-FSTSSGN-----QTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRT 61
             I P S+  + +ST SG      + + H   +ATCIA+LQ CA + +   GQ+IH +M+R 
Sbjct:    31 IKPSSALASLYSTVSGQIEENPKRYEH-HNVATCIATLQRCAQRKDYVSGQQIHGFMVRK 89

Query:    62 GIID-SPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLD 120
             G +D SP + TSL+NMY+KC  M+ A+ VF     E +VF YNA+ISGF  N      ++
Sbjct:    90 GFLDDSPRAGTSLVNMYAKCGLMRRAVLVFGG--SERDVFGYNALISGFVVNGSPLDAME 147

Query:   121 FFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYL 180
              +  MR  G+LPDKYTFP L+K   D M + +VKK+HGL FKLG D D Y+GS LV +Y 
Sbjct:   148 TYREMRANGILPDKYTFPSLLKGS-DAMELSDVKKVHGLAFKLGFDSDCYVGSGLVTSYS 206

Query:   181 KCQFMEEALKVFEELPLRD-VVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVT 239
             K   +E+A KVF+ELP RD  VLWNA+VNGY+QI  F  AL VF +M +EG+ +SR T+T
Sbjct:   207 KFMSVEDAQKVFDELPDRDDSVLWNALVNGYSQIFRFEDALLVFSKMREEGVGVSRHTIT 266

Query:   240 GVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEK 299
              VLSA  + G   NGR +HG+ VK G  S + V NALIDMYGK K + EA  IFE M+E+
Sbjct:   267 SVLSAFTVSGDIDNGRSIHGLAVKTGSGSDIVVSNALIDMYGKSKWLEEANSIFEAMDER 326

Query:   300 DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIH 359
             D+F+WNS++ VH+ CG+HDGTL LF+RML +G +PD+VT +TVLP C  LA+L  GR+IH
Sbjct:   327 DLFTWNSVLCVHDYCGDHDGTLALFERMLCSGIRPDIVTLTTVLPTCGRLASLRQGREIH 386

Query:   360 GYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILG 419
             GY++V+GL    S  +    F++N+LMDMY KCG +RDA+MVF  M  KD ASWNIMI G
Sbjct:   387 GYMIVSGLLNRKSSNE----FIHNSLMDMYVKCGDLRDARMVFDSMRVKDSASWNIMING 442

Query:   420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVP 479
             YG+   G+ ALDMFSCMC A +KPDE+TFVG+L ACSHSGFL++GR FL  ME+ Y ++P
Sbjct:   443 YGVQSCGELALDMFSCMCRAGVKPDEITFVGLLQACSHSGFLNEGRNFLAQMETVYNILP 502

Query:   480 TIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRV 539
             T +HY CVIDMLGRA +L EAYELA++ P   NPVVWR++L++ RLHGN DLA +A +R+
Sbjct:   503 TSDHYACVIDMLGRADKLEEAYELAISKPICDNPVVWRSILSSCRLHGNKDLALVAGKRL 562

Query:   540 FQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISS 599
              +LEP HCG YVLMSN+YV  GKYEEVLD+R  MRQQNV+K PGCSWI LK+G+HTF + 
Sbjct:   563 HELEPEHCGGYVLMSNVYVEAGKYEEVLDVRDAMRQQNVKKTPGCSWIVLKNGVHTFFTG 622

Query:   600 DRSHPEAKSIYAELHSLTARLREH 623
             +++HPE KSI+  L  + + +  H
Sbjct:   623 NQTHPEFKSIHDWLSLVISHMHGH 646

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1073 (382.8 bits), Expect = 1.5e-108, P = 1.5e-108
 Identities = 220/610 (36%), Positives = 361/610 (59%)

Query:    30 FTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFV 89
             FTL + + +         L  G+++H+Y LR G ++S + I +L+ MY K  ++  +  +
Sbjct:   200 FTLVSVVTACSNLPMPEGLMMGKQVHAYGLRKGELNSFI-INTLVAMYGKLGKLASSKVL 258

Query:    90 FNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMA 149
               +     ++ T+N ++S    N+   + L++   M   GV PD++T   ++  C  +  
Sbjct:   259 LGSFGGR-DLVTWNTVLSSLCQNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEM 317

Query:   150 VLEVKKIHGLVFKLG-LDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVN 208
             +   K++H    K G LD + ++GSALV+ Y  C+ +    +VF+ +  R + LWNAM+ 
Sbjct:   318 LRTGKELHAYALKNGSLDENSFVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIA 377

Query:   209 GYAQIGEFHKALEVFRRMSKE-GIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYD 267
             GY+Q     +AL +F  M +  G+  +  T+ GV+ A +  G F     +HG VVK G D
Sbjct:   378 GYSQNEHDKEALLLFIGMEESAGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRGLD 437

Query:   268 SGVPVMNALIDMYGK-GKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDR 326
                 V N L+DMY + GK +  A+ IF  ME++D+ +WN+++T +    +H+  L L  +
Sbjct:   438 RDRFVQNTLMDMYSRLGK-IDIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHK 496

Query:   327 M------LSAG-----FQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKD 375
             M      +S G      +P+ +T  T+LP+C+ L+AL  G++IH Y + N LA       
Sbjct:   497 MQNLERKVSKGASRVSLKPNSITLMTILPSCAALSALAKGKEIHAYAIKNNLAT------ 550

Query:   376 IDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSC 435
               DV + +AL+DMY KCG ++ ++ VF ++ +K+V +WN++I+ YGM G G+EA+D+   
Sbjct:   551 --DVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEAIDLLRM 608

Query:   436 MCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG 495
             M    +KP+EVTF+ V +ACSHSG + +G     +M+  YGV P+ +HY CV+D+LGRAG
Sbjct:   609 MMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAG 668

Query:   496 QLNEAYELALAMPNEANPV-VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMS 554
             ++ EAY+L   MP + N    W +LL ASR+H N ++ EIAAQ + QLEP    +YVL++
Sbjct:   669 RIKEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVASHYVLLA 728

Query:   555 NIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELH 614
             NIY + G +++  ++R  M++Q VRK PGCSWIE  D +H F++ D SHP+++ +   L 
Sbjct:   729 NIYSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLE 788

Query:   615 SLTARLREHG 624
             +L  R+R+ G
Sbjct:   789 TLWERMRKEG 798

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

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

 Score = 1023 (365.2 bits), Expect = 2.9e-103, P = 2.9e-103
 Identities = 210/592 (35%), Positives = 334/592 (56%)

Query:    35 CIASLQLCAHQTNLQKGQEIHSYMLRTGI-IDSPLSITSLINMYSKCCQMKYALFVFNNL 93
             C+  L+ C    +L +G+E+H +++R G  +D  + + +LI MY KC  +K A  +F+ +
Sbjct:   201 CV--LRTCGGIPDLARGKEVHVHVVRYGYELDIDV-VNALITMYVKCGDVKSARLLFDRM 257

Query:    94 SCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEV 153
                 ++ ++NAMISG++ N    +GL+ F  MR L V PD  T   +I  C +++    +
Sbjct:   258 P-RRDIISWNAMISGYFENGMCHEGLELFFAMRGLSVDPDLMTLTSVISAC-ELLGDRRL 315

Query:   154 -KKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQ 212
              + IH  V   G  +D+ + ++L   YL      EA K+F  +  +D+V W  M++GY  
Sbjct:   316 GRDIHAYVITTGFAVDISVCNSLTQMYLNAGSWREAEKLFSRMERKDIVSWTTMISGYEY 375

Query:   213 IGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPV 272
                  KA++ +R M ++ +     TV  VLSA   +G    G  +H + +K    S V V
Sbjct:   376 NFLPDKAIDTYRMMDQDSVKPDEITVAAVLSACATLGDLDTGVELHKLAIKARLISYVIV 435

Query:   273 MNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGF 332
              N LI+MY K KC+ +AL+IF  +  K++ SW SI+    +  N      +F R +    
Sbjct:   436 ANNLINMYSKCKCIDKALDIFHNIPRKNVISWTSIIA-GLRLNNRCFEALIFLRQMKMTL 494

Query:   333 QPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKC 392
             QP+ +T +  L AC+ + ALM G++IH +++  G+        +DD F+ NAL+DMY +C
Sbjct:   495 QPNAITLTAALAACARIGALMCGKEIHAHVLRTGVG-------LDD-FLPNALLDMYVRC 546

Query:   393 GSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVL 452
             G M  A   F    KKDV SWNI++ GY   GQG   +++F  M +++++PDE+TF+ +L
Sbjct:   547 GRMNTAWSQFNSQ-KKDVTSWNILLTGYSERGQGSMVVELFDRMVKSRVRPDEITFISLL 605

Query:   453 SACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEAN 512
               CS S  + QG  +   ME  YGV P ++HY CV+D+LGRAG+L EA++    MP   +
Sbjct:   606 CGCSKSQMVRQGLMYFSKMED-YGVTPNLKHYACVVDLLGRAGELQEAHKFIQKMPVTPD 664

Query:   513 PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT 572
             P VW  LL A R+H   DL E++AQ +F+L+    G Y+L+ N+Y   GK+ EV  +R  
Sbjct:   665 PAVWGALLNACRIHHKIDLGELSAQHIFELDKKSVGYYILLCNLYADCGKWREVAKVRRM 724

Query:   573 MRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
             M++  +  + GCSW+E+K  +H F+S D+ HP+ K I   L     ++ E G
Sbjct:   725 MKENGLTVDAGCSWVEVKGKVHAFLSDDKYHPQTKEINTVLEGFYEKMSEVG 776

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

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

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

 Score = 1022 (364.8 bits), Expect = 3.7e-103, P = 3.7e-103
 Identities = 224/627 (35%), Positives = 355/627 (56%)

Query:     1 MLSKISRINPFSSCFN-FSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYML 59
             ML+  ++     S    FS    +Q   +  T   C+  L +CA +  +  G ++H  ++
Sbjct:   210 MLNGYAKCGALDSVIKGFSVMRMDQISPNAVTF-DCV--LSVCASKLLIDLGVQLHGLVV 266

Query:    60 RTGIIDSPLSI-TSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKG 118
              +G+ D   SI  SL++MYSKC +   A  +F  +S    V T+N MISG+  +    + 
Sbjct:   267 VSGV-DFEGSIKNSLLSMYSKCGRFDDASKLFRMMSRADTV-TWNCMISGYVQSGLMEES 324

Query:   119 LDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNT 178
             L FF  M   GVLPD  TF  L+        +   K+IH  + +  + LD+++ SAL++ 
Sbjct:   325 LTFFYEMISSGVLPDAITFSSLLPSVSKFENLEYCKQIHCYIMRHSISLDIFLTSALIDA 384

Query:   179 YLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTV 238
             Y KC+ +  A  +F +    DVV++ AM++GY   G +  +LE+FR + K  I  +  T+
Sbjct:   385 YFKCRGVSMAQNIFSQCNSVDVVVFTAMISGYLHNGLYIDSLEMFRWLVKVKISPNEITL 444

Query:   239 TGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE 298
               +L  + ++   K GR +HG ++K G+D+   +  A+IDMY K   +  A EIFE + +
Sbjct:   445 VSILPVIGILLALKLGRELHGFIIKKGFDNRCNIGCAVIDMYAKCGRMNLAYEIFERLSK 504

Query:   299 KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQI 358
             +DI SWNS++T   Q  N    + +F +M  +G   D V+ S  L AC++L +   G+ I
Sbjct:   505 RDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVSISAALSACANLPSESFGKAI 564

Query:   359 HGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMIL 418
             HG+++ + LA         DV+  + L+DMY KCG+++ A  VF  M +K++ SWN +I 
Sbjct:   565 HGFMIKHSLAS--------DVYSESTLIDMYAKCGNLKAAMNVFKTMKEKNIVSWNSIIA 616

Query:   419 GYGMDGQGKEALDMFSCMCEAK-LKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGV 477
               G  G+ K++L +F  M E   ++PD++TF+ ++S+C H G + +G  F   M   YG+
Sbjct:   617 ACGNHGKLKDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGVRFFRSMTEDYGI 676

Query:   478 VPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQ 537
              P  EHY CV+D+ GRAG+L EAYE   +MP   +  VW TLL A RLH N +LAE+A+ 
Sbjct:   677 QPQQEHYACVVDLFGRAGRLTEAYETVKSMPFPPDAGVWGTLLGACRLHKNVELAEVASS 736

Query:   538 RVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFI 597
             ++  L+P + G YVL+SN +    ++E V  +R  M+++ V+K PG SWIE+    H F+
Sbjct:   737 KLMDLDPSNSGYYVLISNAHANAREWESVTKVRSLMKEREVQKIPGYSWIEINKRTHLFV 796

Query:   598 SSDRSHPEAKSIYAELHSLTARLREHG 624
             S D +HPE+  IY+ L+SL   LR  G
Sbjct:   797 SGDVNHPESSHIYSLLNSLLGELRLEG 823

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 1010 (360.6 bits), Expect = 6.9e-102, P = 6.9e-102
 Identities = 208/586 (35%), Positives = 346/586 (59%)

Query:    39 LQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPN 98
             L++C  +  L+ G+EIH  ++++G      ++T L NMY+KC Q+  A  VF+ +  E +
Sbjct:   142 LKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMP-ERD 200

Query:    99 VFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHG 158
             + ++N +++G+  N  A   L+    M +  + P   T   ++     +  +   K+IHG
Sbjct:   201 LVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHG 260

Query:   159 LVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHK 218
                + G D  V I +ALV+ Y KC  +E A ++F+ +  R+VV WN+M++ Y Q     +
Sbjct:   261 YAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKE 320

Query:   219 ALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALID 278
             A+ +F++M  EG+  +  +V G L A   +G  + GR +H + V++G D  V V+N+LI 
Sbjct:   321 AMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVVNSLIS 380

Query:   279 MYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVT 338
             MY K K V  A  +F  ++ + + SWN+++    Q G     L  F +M S   +PD  T
Sbjct:   381 MYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPDTFT 440

Query:   339 FSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDA 398
             + +V+ A + L+   H + IHG ++ + L KN        VF+  AL+DMY KCG++  A
Sbjct:   441 YVSVITAIAELSITHHAKWIHGVVMRSCLDKN--------VFVTTALVDMYAKCGAIMIA 492

Query:   399 QMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS 458
             +++F  MS++ V +WN MI GYG  G GK AL++F  M +  +KP+ VTF+ V+SACSHS
Sbjct:   493 RLIFDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHS 552

Query:   459 GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRT 518
             G +  G +   +M+  Y +  +++HY  ++D+LGRAG+LNEA++  + MP +    V+  
Sbjct:   553 GLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGA 612

Query:   519 LLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV 578
             +L A ++H N + AE AA+R+F+L P   G +VL++NIY A   +E+V  +R +M +Q +
Sbjct:   613 MLGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGL 672

Query:   579 RKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
             RK PGCS +E+K+ +H+F S   +HP++K IYA L  L   ++E G
Sbjct:   673 RKTPGCSMVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIKEAG 718

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

 Score = 997 (356.0 bits), Expect = 1.7e-100, P = 1.7e-100
 Identities = 224/630 (35%), Positives = 359/630 (56%)

Query:     1 MLSKISRINPFSSC---FNFSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSY 57
             +++++++   FS     F    SSG +  ++ F+   C++  +  +   ++  G+++H +
Sbjct:   166 LMNELAKSGDFSGSIGLFKKMMSSGVEMDSYTFS---CVS--KSFSSLRSVHGGEQLHGF 220

Query:    58 MLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFK 117
             +L++G  +      SL+  Y K  ++  A  VF+ ++ E +V ++N++I+G+ SN  A K
Sbjct:   221 ILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMT-ERDVISWNSIINGYVSNGLAEK 279

Query:   118 GLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVN 177
             GL  F  M   G+  D  T   +   C D   +   + +H +  K     +    + L++
Sbjct:   280 GLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLD 339

Query:   178 TYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFT 237
              Y KC  ++ A  VF E+  R VV + +M+ GYA+ G   +A+++F  M +EGI    +T
Sbjct:   340 MYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYT 399

Query:   238 VTGVLSALIMMGFFKNGRVVHGIVVK--MGYDSGVPVMNALIDMYGKGKCVGEALEIFEM 295
             VT VL+          G+ VH  + +  +G+D  + V NAL+DMY K   + EA  +F  
Sbjct:   400 VTAVLNCCARYRLLDEGKRVHEWIKENDLGFD--IFVSNALMDMYAKCGSMQEAELVFSE 457

Query:   296 MEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAG-FQPDLVTFSTVLPACSHLAALMH 354
             M  KDI SWN+I+  + +    +  L LF+ +L    F PD  T + VLPAC+ L+A   
Sbjct:   458 MRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDK 517

Query:   355 GRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWN 414
             GR+IHGYI+ NG           D  + N+L+DMY KCG++  A M+F  ++ KD+ SW 
Sbjct:   518 GREIHGYIMRNGY--------FSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWT 569

Query:   415 IMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESR 474
             +MI GYGM G GKEA+ +F+ M +A ++ DE++FV +L ACSHSG + +G  F  +M   
Sbjct:   570 VMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHE 629

Query:   475 YGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEI 534
               + PT+EHY C++DML R G L +AY     MP   +  +W  LL   R+H +  LAE 
Sbjct:   630 CKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEK 689

Query:   535 AAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLH 594
              A++VF+LEP + G YVLM+NIY    K+E+V  +R  + Q+ +RKNPGCSWIE+K  ++
Sbjct:   690 VAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVN 749

Query:   595 TFISSDRSHPEAKSIYAELHSLTARLREHG 624
              F++ D S+PE ++I A L  + AR+ E G
Sbjct:   750 IFVAGDSSNPETENIEAFLRKVRARMIEEG 779

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

 Score = 985 (351.8 bits), Expect = 3.1e-99, P = 3.1e-99
 Identities = 211/612 (34%), Positives = 360/612 (58%)

Query:    17 FSTSSGNQTFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSIT-SLIN 75
             F       T  + FT A   A+L + A +    +G ++H+ +++ G+ D  + ++ SLIN
Sbjct:   182 FMRMQNEGTQPNSFTFA---AALGVLAEEGVGGRGLQVHTVVVKNGL-DKTIPVSNSLIN 237

Query:    76 MYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKY 135
             +Y KC  ++ A  +F+    + +V T+N+MISG+ +N    + L  F  MR   V   + 
Sbjct:   238 LYLKCGNVRKARILFDKTEVK-SVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSES 296

Query:   136 TFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEEL 195
             +F  +IK C ++  +   +++H  V K G   D  I +AL+  Y KC  M +AL++F+E+
Sbjct:   297 SFASVIKLCANLKELRFTEQLHCSVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEI 356

Query:   196 P-LRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNG 254
               + +VV W AM++G+ Q     +A+++F  M ++G+  + FT + +L+AL ++    + 
Sbjct:   357 GCVGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALPVI----SP 412

Query:   255 RVVHGIVVKMGYDSGVPVMNALIDMYGK-GKCVGEALEIFEMMEEKDIFSWNSIMTVHEQ 313
               VH  VVK  Y+    V  AL+D Y K GK V EA ++F  +++KDI +W++++  + Q
Sbjct:   413 SEVHAQVVKTNYERSSTVGTALLDAYVKLGK-VEEAAKVFSGIDDKDIVAWSAMLAGYAQ 471

Query:   314 CGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALM-HGRQIHGYIVVNGLAKNGS 372
              G  +  +++F  +   G +P+  TFS++L  C+   A M  G+Q HG+ + + L  +  
Sbjct:   472 TGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRL-DSSL 530

Query:   373 CKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDM 432
             C       +++AL+ MY K G++  A+ VF +  +KD+ SWN MI GY   GQ  +ALD+
Sbjct:   531 C-------VSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDV 583

Query:   433 FSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLG 492
             F  M + K+K D VTF+GV +AC+H+G + +G ++  +M     + PT EH +C++D+  
Sbjct:   584 FKEMKKRKVKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYS 643

Query:   493 RAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVL 552
             RAGQL +A ++   MPN A   +WRT+LAA R+H  T+L  +AA+++  ++P     YVL
Sbjct:   644 RAGQLEKAMKVIENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVL 703

Query:   553 MSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAE 612
             +SN+Y   G ++E   +R  M ++NV+K PG SWIE+K+  ++F++ DRSHP    IY +
Sbjct:   704 LSNMYAESGDWQERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMK 763

Query:   613 LHSLTARLREHG 624
             L  L+ RL++ G
Sbjct:   764 LEDLSTRLKDLG 775

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2181201 AT5G27110 [Arabidopsis thaliana (taxid:3702)]

 Score = 985 (351.8 bits), Expect = 3.1e-99, P = 3.1e-99
 Identities = 214/578 (37%), Positives = 340/578 (58%)

Query:    51 GQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFY 110
             G+ IH+ ++++G +   +  +SL+ MY+K    + +L VF+ +  E +V ++N +IS FY
Sbjct:   126 GRMIHTLVVKSGYVCDVVVASSLVGMYAKFNLFENSLQVFDEMP-ERDVASWNTVISCFY 184

Query:   111 SNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVY 170
              +  A K L+ F  M   G  P+  +    I  C  ++ +   K+IH    K G +LD Y
Sbjct:   185 QSGEAEKALELFGRMESSGFEPNSVSLTVAISACSRLLWLERGKEIHRKCVKKGFELDEY 244

Query:   171 IGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEG 230
             + SALV+ Y KC  +E A +VF+++P + +V WN+M+ GY   G+    +E+  RM  EG
Sbjct:   245 VNSALVDMYGKCDCLEVAREVFQKMPRKSLVAWNSMIKGYVAKGDSKSCVEILNRMIIEG 304

Query:   231 IWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEA- 289
                S+ T+T +L A        +G+ +HG V++   ++ + V  +LID+Y K  C GEA 
Sbjct:   305 TRPSQTTLTSILMACSRSRNLLHGKFIHGYVIRSVVNADIYVNCSLIDLYFK--C-GEAN 361

Query:   290 -LEIFEMMEEKDIF-SWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACS 347
               E      +KD+  SWN +++ +   GN    + ++D+M+S G +PD+VTF++VLPACS
Sbjct:   362 LAETVFSKTQKDVAESWNVMISSYISVGNWFKAVEVYDQMVSVGVKPDVVTFTSVLPACS 421

Query:   348 HLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK 407
              LAAL  G+QIH       L+ + S  + D++ ++ AL+DMY+KCG+ ++A  +F  + K
Sbjct:   422 QLAALEKGKQIH-------LSISESRLETDELLLS-ALLDMYSKCGNEKEAFRIFNSIPK 473

Query:   408 KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREF 467
             KDV SW +MI  YG  GQ +EAL  F  M +  LKPD VT + VLSAC H+G + +G +F
Sbjct:   474 KDVVSWTVMISAYGSHGQPREALYQFDEMQKFGLKPDGVTLLAVLSACGHAGLIDEGLKF 533

Query:   468 LPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEA-NPVVWRTLLAASRLH 526
                M S+YG+ P IEHY+C+ID+LGRAG+L EAYE+    P  + N  +  TL +A  LH
Sbjct:   534 FSQMRSKYGIEPIIEHYSCMIDILGRAGRLLEAYEIIQQTPETSDNAELLSTLFSACCLH 593

Query:   527 GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSW 586
                 L +  A+ + +  P     Y+++ N+Y +G  ++    +R  M++  +RK PGCSW
Sbjct:   594 LEHSLGDRIARLLVENYPDDASTYMVLFNLYASGESWDAARRVRLKMKEMGLRKKPGCSW 653

Query:   587 IELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
             IE+ D +  F + DRSH  A+++Y  L  L+  + E G
Sbjct:   654 IEMSDKVCHFFAEDRSHLRAENVYECLALLSGHM-ESG 690

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2064828 AT2G40720 [Arabidopsis thaliana (taxid:3702)]

 Score = 972 (347.2 bits), Expect = 7.4e-98, P = 7.4e-98
 Identities = 205/586 (34%), Positives = 332/586 (56%)

Query:    38 SLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEP 97
             +L  C+   N   G++IH  +++ G+ + P   TSL++MYSKC  +  A  VF+ +  + 
Sbjct:   278 ALGACSQSENSGFGRQIHCDVVKMGLHNDPYVCTSLLSMYSKCGMVGEAETVFSCV-VDK 336

Query:    98 NVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEV-KKI 156
              +  +NAM++ +  ND+ +  LD F  MRQ  VLPD +T   +I CC  V+ +    K +
Sbjct:   337 RLEIWNAMVAAYAENDYGYSALDLFGFMRQKSVLPDSFTLSNVISCC-SVLGLYNYGKSV 395

Query:   157 HGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEF 216
             H  +FK  +     I SAL+  Y KC    +A  VF+ +  +D+V W ++++G  + G+F
Sbjct:   396 HAELFKRPIQSTSTIESALLTLYSKCGCDPDAYLVFKSMEEKDMVAWGSLISGLCKNGKF 455

Query:   217 HKALEVFRRMSKE--GIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMN 274
              +AL+VF  M  +   +      +T V +A   +   + G  VHG ++K G    V V +
Sbjct:   456 KEALKVFGDMKDDDDSLKPDSDIMTSVTNACAGLEALRFGLQVHGSMIKTGLVLNVFVGS 515

Query:   275 ALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQP 334
             +LID+Y K      AL++F  M  +++ +WNS+++ + +    + ++ LF+ MLS G  P
Sbjct:   516 SLIDLYSKCGLPEMALKVFTSMSTENMVAWNSMISCYSRNNLPELSIDLFNLMLSQGIFP 575

Query:   335 DLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGS 394
             D V+ ++VL A S  A+L+ G+ +HGY +  G+          D  + NAL+DMY KCG 
Sbjct:   576 DSVSITSVLVAISSTASLLKGKSLHGYTLRLGIPS--------DTHLKNALIDMYVKCGF 627

Query:   395 MRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA 454
              + A+ +F KM  K + +WN+MI GYG  G    AL +F  M +A   PD+VTF+ ++SA
Sbjct:   628 SKYAENIFKKMQHKSLITWNLMIYGYGSHGDCITALSLFDEMKKAGESPDDVTFLSLISA 687

Query:   455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPV 514
             C+HSGF+ +G+     M+  YG+ P +EHY  ++D+LGRAG L EAY    AMP EA+  
Sbjct:   688 CNHSGFVEEGKNIFEFMKQDYGIEPNMEHYANMVDLLGRAGLLEEAYSFIKAMPIEADSS 747

Query:   515 VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMR 574
             +W  LL+ASR H N +L  ++A+++ ++EP     YV + N+Y+  G   E   +   M+
Sbjct:   748 IWLCLLSASRTHHNVELGILSAEKLLRMEPERGSTYVQLINLYMEAGLKNEAAKLLGLMK 807

Query:   575 QQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARL 620
             ++ + K PGCSWIE+ D  + F S   S P    I+  L+ L + +
Sbjct:   808 EKGLHKQPGCSWIEVSDRTNVFFSGGSSSPMKAEIFNVLNRLKSNM 853

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2178188 MEF7 "AT5G09950" [Arabidopsis thaliana (taxid:3702)]

 Score = 966 (345.1 bits), Expect = 3.2e-97, P = 3.2e-97
 Identities = 211/591 (35%), Positives = 342/591 (57%)

Query:    43 AHQTNLQKGQEIHSYMLRTGIIDSPLSI-TSLINMYSKCCQMKYALFVFNNLSCEPNVFT 101
             A +  L+KG+E+H +++ TG++D  + I   L+NMY+KC  +  A  VF  ++ + +V +
Sbjct:   324 AEEVGLKKGREVHGHVITTGLVDFMVGIGNGLVNMYAKCGSIADARRVFYFMTDKDSV-S 382

Query:   102 YNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVF 161
             +N+MI+G   N    + ++ +  MR+  +LP  +T    +  C  +      ++IHG   
Sbjct:   383 WNSMITGLDQNGCFIEAVERYKSMRRHDILPGSFTLISSLSSCASLKWAKLGQQIHGESL 442

Query:   162 KLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGE-FHKAL 220
             KLG+DL+V + +AL+  Y +  ++ E  K+F  +P  D V WN+++   A+      +A+
Sbjct:   443 KLGIDLNVSVSNALMTLYAETGYLNECRKIFSSMPEHDQVSWNSIIGALARSERSLPEAV 502

Query:   221 EVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMY 280
               F    + G  ++R T + VLSA+  + F + G+ +HG+ +K          NALI  Y
Sbjct:   503 VCFLNAQRAGQKLNRITFSSVLSAVSSLSFGELGKQIHGLALKNNIADEATTENALIACY 562

Query:   281 GK-GKCVGEALEIFEMM-EEKDIFSWNSIMT--VHEQCGNHDGTLRLFDRMLSAGFQPDL 336
             GK G+  G   +IF  M E +D  +WNS+++  +H +       L  F  ML  G + D 
Sbjct:   563 GKCGEMDG-CEKIFSRMAERRDNVTWNSMISGYIHNELLAKALDLVWF--MLQTGQRLDS 619

Query:   337 VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMR 396
               ++TVL A + +A L  G ++H   V        +C +  DV + +AL+DMY+KCG + 
Sbjct:   620 FMYATVLSAFASVATLERGMEVHACSV-------RACLE-SDVVVGSALVDMYSKCGRLD 671

Query:   397 DAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCM-CEAKLKPDEVTFVGVLSAC 455
              A   F  M  ++  SWN MI GY   GQG+EAL +F  M  + +  PD VTFVGVLSAC
Sbjct:   672 YALRFFNTMPVRNSYSWNSMISGYARHGQGEEALKLFETMKLDGQTPPDHVTFVGVLSAC 731

Query:   456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVV 515
             SH+G L +G +    M   YG+ P IEH++C+ D+LGRAG+L++  +    MP + N ++
Sbjct:   732 SHAGLLEEGFKHFESMSDSYGLAPRIEHFSCMADVLGRAGELDKLEDFIEKMPMKPNVLI 791

Query:   516 WRTLLAAS-RLHGN-TDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTM 573
             WRT+L A  R +G   +L + AA+ +FQLEP +  NYVL+ N+Y AGG++E+++  R  M
Sbjct:   792 WRTVLGACCRANGRKAELGKKAAEMLFQLEPENAVNYVLLGNMYAAGGRWEDLVKARKKM 851

Query:   574 RQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
             +  +V+K  G SW+ +KDG+H F++ D+SHP+A  IY +L  L  ++R+ G
Sbjct:   852 KDADVKKEAGYSWVTMKDGVHMFVAGDKSHPDADVIYKKLKELNRKMRDAG 902

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0009451 "RNA modification" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LUC2	PP231_ARATH	No assigned EC number	0.5457	0.9227	0.9326	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	660
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-154
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-111
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-77
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-64
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-41
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-30
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	7e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
cd00189	100	cd00189, TPR, Tetratricopeptide repeat domain; typ	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.002

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

 Score =  465 bits (1198), Expect = e-154
 Identities = 222/588 (37%), Positives = 340/588 (57%), Gaps = 15/588 (2%)

Query: 39  LQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPN 98
           L+ C    +L +G+E+H++++R G       + +LI MY KC  +  A  VF+ +    +
Sbjct: 194 LRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR-D 252

Query: 99  VFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHG 158
             ++NAMISG++ N    +GL+ F  MR+L V PD  T   +I  C  +      +++HG
Sbjct: 253 CISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHG 312

Query: 159 LVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHK 218
            V K G  +DV + ++L+  YL      EA KVF  +  +D V W AM++GY + G   K
Sbjct: 313 YVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDK 372

Query: 219 ALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALID 278
           ALE +  M ++ +     T+  VLSA   +G    G  +H +  + G  S V V NALI+
Sbjct: 373 ALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE 432

Query: 279 MYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDG--TLRLFDRMLSAGFQPDL 336
           MY K KC+ +ALE+F  + EKD+ SW SI  +     N+     L  F +ML    +P+ 
Sbjct: 433 MYSKCKCIDKALEVFHNIPEKDVISWTSI--IAGLRLNNRCFEALIFFRQML-LTLKPNS 489

Query: 337 VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMR 396
           VT    L AC+ + ALM G++IH +++  G+  +G        F+ NAL+D+Y +CG M 
Sbjct: 490 VTLIAALSACARIGALMCGKEIHAHVLRTGIGFDG--------FLPNALLDLYVRCGRMN 541

Query: 397 DAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACS 456
            A   F    +KDV SWNI++ GY   G+G  A+++F+ M E+ + PDEVTF+ +L ACS
Sbjct: 542 YAWNQFN-SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

Query: 457 HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVW 516
            SG ++QG E+   ME +Y + P ++HY CV+D+LGRAG+L EAY     MP   +P VW
Sbjct: 601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVW 660

Query: 517 RTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ 576
             LL A R+H + +L E+AAQ +F+L+P   G Y+L+ N+Y   GK++EV  +R TMR+ 
Sbjct: 661 GALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMREN 720

Query: 577 NVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHG 624
            +  +PGCSW+E+K  +H F++ D SHP+ K I   L     +++  G
Sbjct: 721 GLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASG 768

Length = 857

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

 Score =  350 bits (900), Expect = e-111
 Identities = 161/489 (32%), Positives = 269/489 (55%), Gaps = 8/489 (1%)

Query: 136 TFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEEL 195
           T+  L++ C  + ++  VK ++  V   G + D Y+ + ++  ++KC  + +A ++F+E+
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 196 PLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGR 255
           P R++  W  ++ G    G + +A  +FR M ++G      T   +L A   +G  + G+
Sbjct: 185 PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ 244

Query: 256 VVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCG 315
            +H  V+K G      V  ALIDMY K   + +A  +F+ M EK   +WNS++  +   G
Sbjct: 245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHG 304

Query: 316 NHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKD 375
             +  L L+  M  +G   D  TFS ++   S LA L H +Q H  ++  G         
Sbjct: 305 YSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPL------ 358

Query: 376 IDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSC 435
             D+  N AL+D+Y+K G M DA+ VF +M +K++ SWN +I GYG  G+G +A++MF  
Sbjct: 359 --DIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFER 416

Query: 436 MCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG 495
           M    + P+ VTF+ VLSAC +SG   QG E    M   + + P   HY C+I++LGR G
Sbjct: 417 MIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG 476

Query: 496 QLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSN 555
            L+EAY +    P +    +W  LL A R+H N +L  +AA++++ + P    NYV++ N
Sbjct: 477 LLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLN 536

Query: 556 IYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHS 615
           +Y + G+  E   +  T++++ +  +P C+WIE+K   H+F S DR HP+++ IY +L  
Sbjct: 537 LYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDE 596

Query: 616 LTARLREHG 624
           L   + E+G
Sbjct: 597 LMKEISEYG 605

Length = 697

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

 Score =  264 bits (677), Expect = 1e-77
 Identities = 157/501 (31%), Positives = 259/501 (51%), Gaps = 21/501 (4%)

Query: 36  IASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSC 95
           +A  +LC  +  +++G  + S  L +          ++++M+ +  ++ +A +VF  +  
Sbjct: 90  VALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMP- 148

Query: 96  EPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKK 155
           E ++F++N ++ G+    +  + L  ++ M   GV PD YTFPC+++ C  +  +   ++
Sbjct: 149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGRE 208

Query: 156 IHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGE 215
           +H  V + G +LDV + +AL+  Y+KC  +  A  VF+ +P RD + WNAM++GY + GE
Sbjct: 209 VHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGE 268

Query: 216 FHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNA 275
             + LE+F  M +  +     T+T V+SA  ++G  + GR +HG VVK G+   V V N+
Sbjct: 269 CLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNS 328

Query: 276 LIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPD 335
           LI MY      GEA ++F  ME KD  SW ++++ +E+ G  D  L  +  M      PD
Sbjct: 329 LIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPD 388

Query: 336 LVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSM 395
            +T ++VL AC+ L  L  G ++H      GL        I  V + NAL++MY+KC  +
Sbjct: 389 EITIASVLSACACLGDLDVGVKLHELAERKGL--------ISYVVVANALIEMYSKCKCI 440

Query: 396 RDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC 455
             A  VF  + +KDV SW  +I G  ++ +  EAL  F  M    LKP+ VT +  LSAC
Sbjct: 441 DKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQM-LLTLKPNSVTLIAALSAC 499

Query: 456 SHSGFLSQGREF----LPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEA 511
           +  G L  G+E     L       G +P       ++D+  R G++N  Y       +E 
Sbjct: 500 ARIGALMCGKEIHAHVLRTGIGFDGFLP-----NALLDLYVRCGRMN--YAWNQFNSHEK 552

Query: 512 NPVVWRTLLAASRLHGNTDLA 532
           + V W  LL     HG   +A
Sbjct: 553 DVVSWNILLTGYVAHGKGSMA 573

Length = 857

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

 Score =  228 bits (584), Expect = 1e-64
 Identities = 133/428 (31%), Positives = 216/428 (50%), Gaps = 18/428 (4%)

Query: 103 NAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFK 162
           N+ +    S+    + L     M++L V  D+  +  L + C    AV E  ++      
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 163 LGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEV 222
               L V +G+A+++ +++   +  A  VF ++P RD+  WN +V GYA+ G F +AL +
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCL 174

Query: 223 FRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGK 282
           + RM   G+    +T   VL     +     GR VH  VV+ G++  V V+NALI MY K
Sbjct: 175 YHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVK 234

Query: 283 GKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTV 342
              V  A  +F+ M  +D  SWN++++ + + G     L LF  M      PDL+T ++V
Sbjct: 235 CGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSV 294

Query: 343 LPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVF 402
           + AC  L     GR++HGY+V  G A         DV + N+L+ MY   GS  +A+ VF
Sbjct: 295 ISACELLGDERLGREMHGYVVKTGFAV--------DVSVCNSLIQMYLSLGSWGEAEKVF 346

Query: 403 TKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLS 462
           ++M  KD  SW  MI GY  +G   +AL+ ++ M +  + PDE+T   VLSAC+  G L 
Sbjct: 347 SRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLD 406

Query: 463 QGREFLPLMES----RYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRT 518
            G +   L E      Y VV        +I+M  +   +++A E+   +P + + + W +
Sbjct: 407 VGVKLHELAERKGLISYVVVA-----NALIEMYSKCKCIDKALEVFHNIPEK-DVISWTS 460

Query: 519 LLAASRLH 526
           ++A  RL+
Sbjct: 461 IIAGLRLN 468

Length = 857

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

 Score =  158 bits (402), Expect = 5e-41
 Identities = 109/477 (22%), Positives = 214/477 (44%), Gaps = 48/477 (10%)

Query: 27  NHPFTL--ATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMK 84
             PFTL  +T  A ++ C    +++  + ++ ++  +G       +  ++ M+ KC  + 
Sbjct: 116 GCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLI 175

Query: 85  YALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCC 144
            A  +F+ +  E N+ ++  +I G        +    F  M + G   +  TF  +++  
Sbjct: 176 DARRLFDEMP-ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRAS 234

Query: 145 CDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWN 204
             + +    +++H  V K G+  D ++  AL++ Y KC  +E+A  VF+ +P +  V WN
Sbjct: 235 AGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWN 294

Query: 205 AMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKM 264
           +M+ GYA  G   +AL ++  M   G+ + +FT + ++     +   ++ +  H  +++ 
Sbjct: 295 SMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT 354

Query: 265 GYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLF 324
           G+   +    AL+D+Y K   + +A  +F+ M  K++ SWN+++  +   G     + +F
Sbjct: 355 GFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMF 414

Query: 325 DRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNA 384
           +RM++ G  P+ VTF  VL AC +                +GL++ G      ++F    
Sbjct: 415 ERMIAEGVAPNHVTFLAVLSACRY----------------SGLSEQGW-----EIFQ--- 450

Query: 385 LMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD 444
                    SM +   +     K     +  MI   G +G   EA  M      A  KP 
Sbjct: 451 ---------SMSENHRI-----KPRAMHYACMIELLGREGLLDEAYAMIR---RAPFKPT 493

Query: 445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEA 500
              +  +L+AC     L  GR      E  YG+ P  + +Y  ++++   +G+  EA
Sbjct: 494 VNMWAALLTACRIHKNLELGRL---AAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEA 547

Length = 697

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

 Score =  125 bits (316), Expect = 7e-30
 Identities = 93/381 (24%), Positives = 159/381 (41%), Gaps = 57/381 (14%)

Query: 34  TCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNL 93
           T  + L  CA   +L  G ++H    R G+I   +   +LI MYSKC  +  AL VF+N+
Sbjct: 391 TIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI 450

Query: 94  SCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEV 153
             E +V ++ ++I+G   N+  F+ L FF  M  L + P+  T    +  C  + A++  
Sbjct: 451 P-EKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCG 508

Query: 154 KKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQI 213
           K+IH  V + G+  D ++ +AL++ Y++C  M  A   F     +DVV WN ++ GY   
Sbjct: 509 KEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-NSHEKDVVSWNILLTGYVAH 567

Query: 214 GEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVM 273
           G+   A+E+F RM + G+     T   +L A                             
Sbjct: 568 GKGSMAVELFNRMVESGVNPDEVTFISLLCAC---------------------------- 599

Query: 274 NALIDMYGKGKCVGEALEIFEMMEEK-----DIFSWNSIMTVHEQCGNHDGTLRLFDRML 328
                   +   V + LE F  MEEK     ++  +  ++ +  + G         ++M 
Sbjct: 600 -------SRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM- 651

Query: 329 SAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCK-DIDDVFMNNALMD 387
                PD   +  +L AC          +IH ++ +  LA     + D + V     L +
Sbjct: 652 --PITPDPAVWGALLNAC----------RIHRHVELGELAAQHIFELDPNSVGYYILLCN 699

Query: 388 MYTKCGSMRDAQMVFTKMSKK 408
           +Y   G   +   V   M + 
Sbjct: 700 LYADAGKWDEVARVRKTMREN 720

Length = 857

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

 Score = 91.9 bits (228), Expect = 3e-19
 Identities = 65/221 (29%), Positives = 106/221 (47%), Gaps = 13/221 (5%)

Query: 314 CGNHDGTLRLFDRMLSAG--FQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNG 371
           CG H   L LF  +L AG  F     T+  ++ AC  L ++   + ++ ++  +G     
Sbjct: 100 CGRHREALELF-EILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGF---- 154

Query: 372 SCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALD 431
              + D   MN  L+ M+ KCG + DA+ +F +M ++++ASW  +I G    G  +EA  
Sbjct: 155 ---EPDQYMMNRVLL-MHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFA 210

Query: 432 MFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDML 491
           +F  M E     +  TFV +L A +  G    G++ L     + GVV        +IDM 
Sbjct: 211 LFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQ-LHCCVLKTGVVGDTFVSCALIDMY 269

Query: 492 GRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLA 532
            + G + +A  +   MP E   V W ++LA   LHG ++ A
Sbjct: 270 SKCGDIEDARCVFDGMP-EKTTVAWNSMLAGYALHGYSEEA 309

Length = 697

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

 Score = 58.6 bits (143), Expect = 2e-11
 Identities = 18/50 (36%), Positives = 27/50 (54%)

Query: 97  PNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCD 146
           P+V TYN +I G+       + L  FN M++ G+ P+ YT+  LI   C 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 58.0 bits (140), Expect = 1e-08
 Identities = 61/289 (21%), Positives = 112/289 (38%), Gaps = 50/289 (17%)

Query: 71  TSLINMYSKCCQMKYALF-VFNNLS---CEPNVFTYNAMISGFYSNDFAFKGLDFFNHMR 126
           T+LI+  +K  ++  A+F VF+ +     E NV T+ A+I G        K    +  MR
Sbjct: 476 TTLISTCAKSGKVD-AMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 127 QLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFME 186
              V PD+  F  LI  C    AV                                   +
Sbjct: 535 SKNVKPDRVVFNALISACGQSGAV-----------------------------------D 559

Query: 187 EALKVFEEL-----PLR-DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTG 240
            A  V  E+     P+  D +   A++   A  G+  +A EV++ + +  I  +    T 
Sbjct: 560 RAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTI 619

Query: 241 VLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKD 300
            +++    G +     ++  + K G        +AL+D+ G    + +A EI +   ++ 
Sbjct: 620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG 679

Query: 301 I----FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPA 345
           I     S++S+M       N    L L++ + S   +P + T + ++ A
Sbjct: 680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITA 728

Length = 1060

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

 Score = 50.5 bits (122), Expect = 2e-08
 Identities = 11/50 (22%), Positives = 28/50 (56%)

Query: 299 KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSH 348
            D+ ++N+++  + + G  +  L+LF+ M   G +P++ T+S ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 57.6 bits (139), Expect = 2e-08
 Identities = 50/226 (22%), Positives = 99/226 (43%), Gaps = 15/226 (6%)

Query: 282 KGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFST 341
           K + V EA    +++    + ++N +M+V     + DG LR+   +  AG + D   ++T
Sbjct: 418 KQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTT 477

Query: 342 VLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMV 401
           ++  C+    +    ++   +V  G+  N        V    AL+D   + G +  A   
Sbjct: 478 LISTCAKSGKVDAMFEVFHEMVNAGVEAN--------VHTFGALIDGCARAGQVAKAFGA 529

Query: 402 FTKMSKKDVAS----WNIMILGYGMDGQGKEALDMFSCM-CEAK-LKPDEVTFVGVLSAC 455
           +  M  K+V      +N +I   G  G    A D+ + M  E   + PD +T   ++ AC
Sbjct: 530 YGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Query: 456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAY 501
           +++G + + +E   ++   Y +  T E YT  ++   + G  + A 
Sbjct: 590 ANAGQVDRAKEVYQMIH-EYNIKGTPEVYTIAVNSCSQKGDWDFAL 634

Length = 1060

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

 Score = 47.8 bits (115), Expect = 2e-07
 Identities = 15/50 (30%), Positives = 28/50 (56%)

Query: 408 KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSH 457
            DV ++N +I GY   G+ +EAL +F+ M +  +KP+  T+  ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 46.2 bits (111), Expect = 5e-07
 Identities = 16/47 (34%), Positives = 30/47 (63%)

Query: 199 DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSAL 245
           DVV +N +++GY + G+  +AL++F  M K GI  + +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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 50.6 bits (121), Expect = 2e-06
 Identities = 60/259 (23%), Positives = 108/259 (41%), Gaps = 28/259 (10%)

Query: 350 AALMHGRQIHGYI-VVNGLAKNGSCKDIDDVF--MNNA-LMDM--------YTKC---GS 394
             +   R+   YI   N L ++G  KD  D+   M    L+DM        +  C    +
Sbjct: 362 GGVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRA 421

Query: 395 MRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKE-ALDMFSCMCEAKLKPDEVTFVGVLS 453
           +++A   F K+ +    S   M++      Q  + AL +   + EA LK D   +  ++S
Sbjct: 422 VKEA-FRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLIS 480

Query: 454 ACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEA---YELALAMPNE 510
            C+ SG +    E    M +  GV   +  +  +ID   RAGQ+ +A   Y +  +   +
Sbjct: 481 TCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVK 539

Query: 511 ANPVVWRTLLAASRLHGNTD-----LAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEE 565
            + VV+  L++A    G  D     LAE+ A+    ++P H     LM       G+ + 
Sbjct: 540 PDRVVFNALISACGQSGAVDRAFDVLAEMKAE-THPIDPDHITVGALMKAC-ANAGQVDR 597

Query: 566 VLDIRHTMRQQNVRKNPGC 584
             ++   + + N++  P  
Sbjct: 598 AKEVYQMIHEYNIKGTPEV 616

Length = 1060

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

 Score = 48.3 bits (115), Expect = 1e-05
 Identities = 86/402 (21%), Positives = 161/402 (40%), Gaps = 57/402 (14%)

Query: 136 TFPCLIKCCC---DVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVF 192
           TF  L+  C    D+   L V +   LV + GL  D  + + L++T  K   ++   +VF
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLR---LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVF 495

Query: 193 EELPLR----DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMM 248
            E+       +V  + A+++G A+ G+  KA   +  M  + +   R     ++SA    
Sbjct: 496 HEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQS 555

Query: 249 GFFKNGRVVHGIVVKMGYDSGVPV------MNALIDMYGKGKCVGEALEIFEMMEEKDIF 302
           G       V   + +M  ++  P+      + AL+        V  A E+++M+ E +I 
Sbjct: 556 GAVDRAFDV---LAEMKAET-HPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIK 611

Query: 303 SWNSIMTV----HEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAAL------ 352
               + T+      Q G+ D  L ++D M   G +PD V FS ++    H   L      
Sbjct: 612 GTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEI 671

Query: 353 MHGRQIHGY----IVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK 408
           +   +  G     +  + L   G+C +  +     AL ++Y    S++          + 
Sbjct: 672 LQDARKQGIKLGTVSYSSLM--GACSNAKN--WKKAL-ELYEDIKSIK---------LRP 717

Query: 409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFL 468
            V++ N +I       Q  +AL++ S M    L P+ +T+  +L A         G    
Sbjct: 718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG--LD 775

Query: 469 PLMESRY-GVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN 509
            L +++  G+ P +    C+  +  R       +E A A+  
Sbjct: 776 LLSQAKEDGIKPNLVMCRCITGLCLR------RFEKACALGE 811

Length = 1060

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

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 11/31 (35%), Positives = 24/31 (77%)

Query: 201 VLWNAMVNGYAQIGEFHKALEVFRRMSKEGI 231
           V +N++++GY + G+  +ALE+F+ M ++G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 40.1 bits (95), Expect = 6e-05
 Identities = 11/31 (35%), Positives = 20/31 (64%)

Query: 201 VLWNAMVNGYAQIGEFHKALEVFRRMSKEGI 231
           V +N +++G  + G   +ALE+F+ M + GI
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31

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

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

 Score = 40.1 bits (95), Expect = 8e-05
 Identities = 15/42 (35%), Positives = 25/42 (59%), Gaps = 3/42 (7%)

Query: 71  TSLINMYSKCCQMKYALFVFN---NLSCEPNVFTYNAMISGF 109
            +LI+ Y K  +++ AL +FN       +PNV+TY+ +I G 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 37.2 bits (87), Expect = 7e-04
 Identities = 9/32 (28%), Positives = 16/32 (50%)

Query: 200 VVLWNAMVNGYAQIGEFHKALEVFRRMSKEGI 231
           +  +NA++   A+ G+   AL V   M   G+
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGL 32

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

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

 Score = 36.6 bits (86), Expect = 0.001
 Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 4/47 (8%)

Query: 378 DVFMNNALMDMYTKCGSMRDAQMVFTKMSKK----DVASWNIMILGY 420
           DV   N L+D Y K G + +A  +F +M K+    +V +++I+I 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|238112 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 Cdc27p components of the cyclosome/APC, the Pex5p/Pas10p receptor for peroxisomal targeting signals, the Tom70p co-receptor for mitochondrial targeting signals, Ser/Thr phosphatase 5C and the p110 subunit of O-GlcNAc transferase; three copies of the repeat are present here

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 23/78 (29%), Positives = 35/78 (44%), Gaps = 4/78 (5%)

Query: 494 AGQLNEA---YELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNY 550
            G  +EA   YE AL + +  N   +  L AA    G  + A    ++  +L+P +   Y
Sbjct: 13  LGDYDEALEYYEKALEL-DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAY 71

Query: 551 VLMSNIYVAGGKYEEVLD 568
             +   Y   GKYEE L+
Sbjct: 72  YNLGLAYYKLGKYEEALE 89

Length = 100

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

 Score = 36.2 bits (85), Expect = 0.002
 Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 6/35 (17%)

Query: 95  CEPNVFTYNAMISGFYSN---DFAFKGLDFFNHMR 126
            +P+V TYN +I G       D A +     + M 
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVE---LLDEME 34

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

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

 Score = 35.8 bits (84), Expect = 0.002
 Identities = 9/29 (31%), Positives = 17/29 (58%)

Query: 199 DVVLWNAMVNGYAQIGEFHKALEVFRRMS 227
           DVV +N +++G  + G   +A+E+   M 
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	660
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
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	99.95
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PRK14574	822	hmsH outer membrane protein; Provisional	99.8
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.79
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
PRK14574	822	hmsH outer membrane protein; Provisional	99.79
KOG2003	840	consensus TPR repeat-containing protein [General f	99.75
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.74
KOG2076	895	consensus RNA polymerase III transcription factor	99.71
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.69
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.65
KOG2076	895	consensus RNA polymerase III transcription factor	99.61
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.59
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.59
KOG2003	840	consensus TPR repeat-containing protein [General f	99.56
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.55
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.55
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.54
KOG1126	638	consensus DNA-binding cell division cycle control	99.54
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.53
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.52
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.52
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.51
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.5
KOG1126	638	consensus DNA-binding cell division cycle control	99.49
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.49
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.44
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.43
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.43
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.42
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.38
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.37
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.37
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.37
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.36
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.35
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.32
PF13041	50	PPR_2: PPR repeat family	99.28
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.27
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.25
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.24
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.24
PF13041	50	PPR_2: PPR repeat family	99.23
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.23
PRK12370	553	invasion protein regulator; Provisional	99.22
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.18
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.17
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.16
PRK12370	553	invasion protein regulator; Provisional	99.16
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.14
KOG1129	478	consensus TPR repeat-containing protein [General f	99.14
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.13
PRK11189	296	lipoprotein NlpI; Provisional	99.13
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.12
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.11
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.09
PRK11189	296	lipoprotein NlpI; Provisional	99.09
KOG1129	478	consensus TPR repeat-containing protein [General f	99.08
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.06
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.06
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.01
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.0
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.99
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.97
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.93
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.93
KOG1125	579	consensus TPR repeat-containing protein [General f	98.92
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.91
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.91
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.9
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.9
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.9
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.88
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.86
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.83
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.81
PRK04841	903	transcriptional regulator MalT; Provisional	98.8
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.74
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.73
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.73
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.72
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.71
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.7
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.67
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.67
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.65
PRK15359	144	type III secretion system chaperone protein SscB;	98.65
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.65
PRK15359	144	type III secretion system chaperone protein SscB;	98.61
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.58
PLN02789	320	farnesyltranstransferase	98.53
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.53
PF12854	34	PPR_1: PPR repeat	98.49
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.49
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.47
PF12854	34	PPR_1: PPR repeat	98.45
PRK04841	903	transcriptional regulator MalT; Provisional	98.45
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.45
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.43
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.37
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.34
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.34
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.33
KOG1125	579	consensus TPR repeat-containing protein [General f	98.33
PLN02789	320	farnesyltranstransferase	98.32
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.27
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.25
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.23
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.23
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.21
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.2
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.19
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.19
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.17
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.09
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.09
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.05
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.05
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.04
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.04
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.02
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.01
KOG0553	304	consensus TPR repeat-containing protein [General f	98.01
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.99
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.99
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.99
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.98
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.97
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.95
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.92
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.91
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.9
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.88
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.81
KOG0553	304	consensus TPR repeat-containing protein [General f	97.77
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.76
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.71
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.69
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.67
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.65
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.65
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.65
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.65
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.65
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.61
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.6
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.59
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.59
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.58
PF13371	73	TPR_9: Tetratricopeptide repeat	97.56
PRK15331	165	chaperone protein SicA; Provisional	97.55
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.54
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.49
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.47
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.46
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.42
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.4
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.38
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.38
PF13431	34	TPR_17: Tetratricopeptide repeat	97.37
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.37
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.37
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.35
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.31
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.27
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.26
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.25
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.24
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.23
PF13428	44	TPR_14: Tetratricopeptide repeat	97.2
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.19
PF12688	120	TPR_5: Tetratrico peptide repeat	97.17
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.15
PF13371	73	TPR_9: Tetratricopeptide repeat	97.14
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.13
PRK10803	263	tol-pal system protein YbgF; Provisional	97.13
PF12688	120	TPR_5: Tetratrico peptide repeat	97.1
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.07
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.04
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.03
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.01
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.0
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.97
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.97
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.96
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.87
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.84
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.79
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.75
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.75
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.74
PRK10803	263	tol-pal system protein YbgF; Provisional	96.73
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.7
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.67
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	96.6
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.56
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.54
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.5
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.48
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.43
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.43
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.41
PF13512	142	TPR_18: Tetratricopeptide repeat	96.39
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.36
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.35
KOG4555	175	consensus TPR repeat-containing protein [Function	96.32
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.22
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.18
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.98
PRK11906	458	transcriptional regulator; Provisional	95.95
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.82
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.71
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.67
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.54
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.47
KOG1258	577	consensus mRNA processing protein [RNA processing	95.46
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.46
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.45
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.37
PRK11906	458	transcriptional regulator; Provisional	95.3
KOG1585	308	consensus Protein required for fusion of vesicles	95.27
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.27
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.19
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.12
PRK15331	165	chaperone protein SicA; Provisional	95.08
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.98
KOG3941	406	consensus Intermediate in Toll signal transduction	94.86
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.6
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	94.6
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.57
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.51
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.45
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.44
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.29
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.26
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.25
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.2
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.19
KOG4234	271	consensus TPR repeat-containing protein [General f	94.16
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.1
KOG3941	406	consensus Intermediate in Toll signal transduction	93.97
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.85
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.8
COG0457	291	NrfG FOG: TPR repeat [General function prediction	93.7
KOG1585	308	consensus Protein required for fusion of vesicles	93.68
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.57
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.4
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.33
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.32
KOG4555	175	consensus TPR repeat-containing protein [Function	93.03
KOG1258	577	consensus mRNA processing protein [RNA processing	93.0
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.89
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.78
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.62
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	92.42
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.14
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.14
PRK11619	644	lytic murein transglycosylase; Provisional	92.07
PF13512	142	TPR_18: Tetratricopeptide repeat	91.83
PF13428	44	TPR_14: Tetratricopeptide repeat	91.78
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.44
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.05
PRK09687	280	putative lyase; Provisional	91.04
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.87
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.81
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.35
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	90.03
PRK09687	280	putative lyase; Provisional	89.93
PRK12798	421	chemotaxis protein; Reviewed	89.89
PRK10941	269	hypothetical protein; Provisional	89.78
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	89.51
COG4105	254	ComL DNA uptake lipoprotein [General function pred	89.45
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.38
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.18
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	89.0
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	88.64
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.61
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	88.61
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	88.51
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.49
KOG4234	271	consensus TPR repeat-containing protein [General f	88.49
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	88.45
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.43
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.11
COG3629	280	DnrI DNA-binding transcriptional activator of the	87.48
PHA02875	413	ankyrin repeat protein; Provisional	87.44
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	87.38
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.35
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.19
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	86.81
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	86.66
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.62
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	86.59
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.29
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.23
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.92
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	85.81
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	85.61
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.55
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	85.53
KOG3364	149	consensus Membrane protein involved in organellar	85.28
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	85.15
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	85.12
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.06
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	84.9
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	84.41
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	84.11
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	83.74
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	83.44
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	82.75
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	82.73
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	82.51
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.34
KOG1550	552	consensus Extracellular protein SEL-1 and related	82.2
PF13431	34	TPR_17: Tetratricopeptide repeat	82.07
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	81.2
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	80.24

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.1e-94  Score=806.92  Aligned_cols=616  Identities=36%  Similarity=0.647  Sum_probs=592.7

Q ss_pred             CCCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHH
Q 048281           27 NHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMI  106 (660)
Q Consensus        27 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li  106 (660)
                      ...|+..+|+.+|++|...+++..+.++|..|.+.|+.|++.++|+||++|+++|+++.|.++|+ .++.||+.+||++|
T Consensus       182 g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~-~m~~~d~~s~n~li  260 (857)
T PLN03077        182 GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFD-RMPRRDCISWNAMI  260 (857)
T ss_pred             CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHh-cCCCCCcchhHHHH
Confidence            45566667777777777777777777777777777777788888999999999999999999999 88999999999999


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChH
Q 048281          107 SGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFME  186 (660)
Q Consensus       107 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  186 (660)
                      .+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++||.+|+++|+++
T Consensus       261 ~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~  340 (857)
T PLN03077        261 SGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWG  340 (857)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCC
Q 048281          187 EALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGY  266 (660)
Q Consensus       187 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~  266 (660)
                      +|.++|++|..+|..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+
T Consensus       341 ~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~  420 (857)
T PLN03077        341 EAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGL  420 (857)
T ss_pred             HHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 048281          267 DSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPAC  346 (660)
Q Consensus       267 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~  346 (660)
                      .|+..++++|+++|+++|++++|.++|++|.++|+++|+++|.+|++.|+.++|+.+|++|.. ++.||..||+.++.+|
T Consensus       421 ~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~  499 (857)
T PLN03077        421 ISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSAC  499 (857)
T ss_pred             CcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999986 6999999999999999


Q ss_pred             hcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCCh
Q 048281          347 SHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQG  426 (660)
Q Consensus       347 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~  426 (660)
                      ++.|+++.+.+++..+.+.|+.++        ..++|+|+++|+++|++++|.++|+.+ .+|+.+||+||.+|+++|+.
T Consensus       500 ~~~g~l~~~~~i~~~~~~~g~~~~--------~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~  570 (857)
T PLN03077        500 ARIGALMCGKEIHAHVLRTGIGFD--------GFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKG  570 (857)
T ss_pred             hhhchHHHhHHHHHHHHHhCCCcc--------ceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCH
Confidence            999999999999999999999998        999999999999999999999999999 89999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHh
Q 048281          427 KEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALA  506 (660)
Q Consensus       427 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  506 (660)
                      ++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+++|+.|+..+|++++++|+++|++++|.+++++
T Consensus       571 ~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~  650 (857)
T PLN03077        571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK  650 (857)
T ss_pred             HHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999996679999999999999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCcEEE
Q 048281          507 MPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSW  586 (660)
Q Consensus       507 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  586 (660)
                      |+.+||..+|++|+.+|..+|+.+.|+.+.+++++++|+++..|..|+++|+..|+|++|.++++.|++.|++++||+||
T Consensus       651 m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~  730 (857)
T PLN03077        651 MPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW  730 (857)
T ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccE
Confidence            99899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHcCcccCceeeccCCChhhhhHhhhHHHHHhhc
Q 048281          587 IELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAK  654 (660)
Q Consensus       587 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~  654 (660)
                      +++++.+|.|..++.+||+..+|+..++.|..+|++.||.||+.... +.+.++.|..+.+++||||-
T Consensus       731 ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~-~~~~~~k~~~~~~hse~la~  797 (857)
T PLN03077        731 VEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSM-DEIEVSKDDIFCGHSERLAI  797 (857)
T ss_pred             EEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhc-cccHHHHHHHHHhccHHHHH
Confidence            99999999999999999999999999999999999999999987544 55778899999999999984

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

Probab=100.00  E-value=1.2e-84  Score=709.21  Aligned_cols=554  Identities=30%  Similarity=0.532  Sum_probs=542.3

Q ss_pred             CCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCC-CCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhH
Q 048281           93 LSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLG-VLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYI  171 (660)
Q Consensus        93 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  171 (660)
                      ....++..+|+.+|.++.+.|++++|+++|+.|...+ ..||..||+.++.+|++.++++.+.+++..|.+.|+.||..+
T Consensus        81 ~~~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~  160 (697)
T PLN03081         81 TQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYM  160 (697)
T ss_pred             ccCCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHH
Confidence            3445677899999999999999999999999998864 789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc
Q 048281          172 GSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFF  251 (660)
Q Consensus       172 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~  251 (660)
                      |+.|+.+|+++|++++|.++|++|.+||.++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|..
T Consensus       161 ~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~  240 (697)
T PLN03081        161 MNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA  240 (697)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcC
Q 048281          252 KNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAG  331 (660)
Q Consensus       252 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  331 (660)
                      +.+.+++..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+++||++|.+|++.|++++|+++|++|.+.|
T Consensus       241 ~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g  320 (697)
T PLN03081        241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSG  320 (697)
T ss_pred             HHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHh
Q 048281          332 FQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVA  411 (660)
Q Consensus       332 ~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  411 (660)
                      +.||..||+.++.+|++.|+++.|.+++..+.+.|+.++        ..++++|+++|+++|++++|.++|++|.++|+.
T Consensus       321 ~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d--------~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~  392 (697)
T PLN03081        321 VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLD--------IVANTALVDLYSKWGRMEDARNVFDRMPRKNLI  392 (697)
T ss_pred             CCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCC--------eeehHHHHHHHHHCCCHHHHHHHHHhCCCCCee
Confidence            999999999999999999999999999999999999998        999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDML  491 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  491 (660)
                      +||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+++|+.|+..+|++++++|
T Consensus       393 t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l  472 (697)
T PLN03081        393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL  472 (697)
T ss_pred             eHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999988779999999999999999


Q ss_pred             hhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHH
Q 048281          492 GRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRH  571 (660)
Q Consensus       492 ~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  571 (660)
                      ++.|++++|.+++++|+.+|+..+|++|+.+|+.+|+++.|+.++++++++.|++..+|..|+++|++.|+|++|.++++
T Consensus       473 ~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~  552 (697)
T PLN03081        473 GREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVE  552 (697)
T ss_pred             HhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCccCCcEEEEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHcCcccCceeeccCCChhhhhHhhhHHHHH
Q 048281          572 TMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEV  651 (660)
Q Consensus       572 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~  651 (660)
                      .|++.|+++.||++|+++.+.+|.|..++..||+..+++..+..+..+|++.||.||+.....+++.++.|..+.+++||
T Consensus       553 ~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~hsek  632 (697)
T PLN03081        553 TLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEK  632 (697)
T ss_pred             HHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccHHHHHHHHHhccHH
Confidence            99999999999999999999999999999999999999999999999999999999998888899999999999999999


Q ss_pred             hhc
Q 048281          652 IAK  654 (660)
Q Consensus       652 ~~~  654 (660)
                      ||-
T Consensus       633 la~  635 (697)
T PLN03081        633 LAI  635 (697)
T ss_pred             HHH
Confidence            974

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.6e-78  Score=675.29  Aligned_cols=543  Identities=30%  Similarity=0.495  Sum_probs=521.5

Q ss_pred             CCCCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHH
Q 048281           26 FNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAM  105 (660)
Q Consensus        26 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l  105 (660)
                      .+.+|+..+|..++..|.+.+.++.|.++|..+.+.|..++...+|+|+++|++.|+++.|.++|+ .+++||+.+||.+
T Consensus        80 ~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~-~m~~~d~~~~n~l  158 (857)
T PLN03077         80 LRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFG-KMPERDLFSWNVL  158 (857)
T ss_pred             cCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHh-cCCCCCeeEHHHH
Confidence            455677778888888888888888888888888888888888899999999999999999999999 8899999999999


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCCh
Q 048281          106 ISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFM  185 (660)
Q Consensus       106 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  185 (660)
                      |.+|++.|++++|+++|++|...|+.||..||+.++++|+..+++..+.+++..+.+.|+.||..++++||.+|+++|++
T Consensus       159 i~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~  238 (857)
T PLN03077        159 VGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDV  238 (857)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhC
Q 048281          186 EEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMG  265 (660)
Q Consensus       186 ~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  265 (660)
                      ++|.++|++|+.+|.++||++|.+|++.|++++|+++|.+|...|+.||..||+.++.+|++.|+++.|.+++..+.+.|
T Consensus       239 ~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g  318 (857)
T PLN03077        239 VSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTG  318 (857)
T ss_pred             HHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 048281          266 YDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPA  345 (660)
Q Consensus       266 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~  345 (660)
                      +.||..+|++|+.+|+++|++++|.++|++|.++|+.+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+
T Consensus       319 ~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a  398 (857)
T PLN03077        319 FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSA  398 (857)
T ss_pred             CccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCC
Q 048281          346 CSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQ  425 (660)
Q Consensus       346 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~  425 (660)
                      |++.|+++.|.++++.+.+.|+.++        ..++++|+++|+++|++++|.++|++|.++|+++|+.||.+|++.|+
T Consensus       399 ~~~~g~~~~a~~l~~~~~~~g~~~~--------~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~  470 (857)
T PLN03077        399 CACLGDLDVGVKLHELAERKGLISY--------VVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNR  470 (857)
T ss_pred             HhccchHHHHHHHHHHHHHhCCCcc--------hHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCC
Confidence            9999999999999999999999998        99999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHH
Q 048281          426 GKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELAL  505 (660)
Q Consensus       426 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  505 (660)
                      .++|+.+|++|.. +++||..||+.++.+|++.|+++.+.+++..+.+. |+.++..++++|+++|+++|++++|.++|+
T Consensus       471 ~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~  548 (857)
T PLN03077        471 CFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFN  548 (857)
T ss_pred             HHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccceechHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999986 59999999999999999999999999999999995 999999999999999999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCCcchHHHHHHHHHhCCChHHHHHHHHHHH-hCCCccCC
Q 048281          506 AMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL--EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMR-QQNVRKNP  582 (660)
Q Consensus       506 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~  582 (660)
                      .+  ++|..+|++++.+|.++|+.++|.++|++|.+.  .|+ ..+|..++.+|.+.|++++|.++|+.|. +.|+.|+.
T Consensus       549 ~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd-~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~  625 (857)
T PLN03077        549 SH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD-EVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNL  625 (857)
T ss_pred             hc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-cccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCch
Confidence            98  689999999999999999999999999999885  564 5789999999999999999999999997 67887764

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-65  Score=561.22  Aligned_cols=503  Identities=17%  Similarity=0.196  Sum_probs=404.0

Q ss_pred             CCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCC-CCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHH
Q 048281           28 HPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGI-IDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMI  106 (660)
Q Consensus        28 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li  106 (660)
                      ++++...|..++..|.+.|+++.|.++|+.|.+.|+ .++..+++.++..|++.|.+++|.++|+ .++.||..+||.+|
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~-~M~~pd~~Tyn~LL  444 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAK-LIRNPTLSTFNMLM  444 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHH-HcCCCCHHHHHHHH
Confidence            345566778888888888888888888888888885 5677777888888888888888888888 77778888888888


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChH
Q 048281          107 SGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFME  186 (660)
Q Consensus       107 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  186 (660)
                      .+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.||.+|++.|+++
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            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHccCC----CCCchhHHHHHHHHHhCCChhHHHHHHHHHHH--CCCCCChhhHHHHHHHHHccCCchhHHHHHHH
Q 048281          187 EALKVFEELP----LRDVVLWNAMVNGYAQIGEFHKALEVFRRMSK--EGIWMSRFTVTGVLSALIMMGFFKNGRVVHGI  260 (660)
Q Consensus       187 ~A~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~--~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  260 (660)
                      +|.++|+.|.    .||..+|+.||.+|++.|++++|.++|++|..  .|+.||..+|++++.+|++.|++++|.++|+.
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            8888888885    46888888888888888888888888888865  56788888888888888888888888888888


Q ss_pred             HHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCH
Q 048281          261 VVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE----KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL  336 (660)
Q Consensus       261 ~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  336 (660)
                      |.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+    ||..+|+.+|.+|++.|++++|.++|++|.+.|+.||.
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            88888888888888888888888888888888888864    57778888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCCHhH
Q 048281          337 VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS----KKDVAS  412 (660)
Q Consensus       337 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~  412 (660)
                      .+|+.+|.+|++.|+++.|.++|+.|...|+.|+        ..+|+.||.+|++.|++++|.++|++|.    .||..+
T Consensus       685 ~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~Pd--------vvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~T  756 (1060)
T PLN03218        685 VSYSSLMGACSNAKNWKKALELYEDIKSIKLRPT--------VSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTIT  756 (1060)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC--------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence            8888888888888888888888888888787777        8888888888888888888888888775    478888


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----c-------------------CCHHHHHHHHH
Q 048281          413 WNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSH----S-------------------GFLSQGREFLP  469 (660)
Q Consensus       413 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~-------------------g~~~~a~~~~~  469 (660)
                      |+.++.+|++.|+.++|.+++.+|.+.|+.||..+|+.++..|.+    .                   +..+.|..+|+
T Consensus       757 y~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~  836 (1060)
T PLN03218        757 YSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYR  836 (1060)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHH
Confidence            888888888888888888888888888888888888887765432    1                   11355777777


Q ss_pred             HhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          470 LMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN---EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       470 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      +|.+. |+.||..+|+.++.++.+.+..+.+..+++.|..   .|+..+|++++.++.+.  .++|..++++|.+.
T Consensus       837 eM~~~-Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~  909 (1060)
T PLN03218        837 ETISA-GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASL  909 (1060)
T ss_pred             HHHHC-CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHc
Confidence            77774 7777777777777777777777777777776643   35566777777776322  35677777777664

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=7.8e-66  Score=562.53  Aligned_cols=504  Identities=17%  Similarity=0.198  Sum_probs=466.0

Q ss_pred             CCCChhHHHHHHHHhHcCCChhHHHHHHccCCCC-----CCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccH
Q 048281           63 IIDSPLSITSLINMYSKCCQMKYALFVFNNLSCE-----PNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTF  137 (660)
Q Consensus        63 ~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  137 (660)
                      ..++...|..+++.+++.|++++|+++|+ .|+.     ++...++.++.+|.+.|..++|+.+|+.|..    ||..+|
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd-~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Ty  440 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLE-DMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTF  440 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHH-HHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHH
Confidence            45678899999999999999999999999 5443     4555677888899999999999999999974    899999


Q ss_pred             HHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC----CCCchhHHHHHHHHHhC
Q 048281          138 PCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP----LRDVVLWNAMVNGYAQI  213 (660)
Q Consensus       138 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~  213 (660)
                      +.+|.+|++.|+++.|.++|+.|.+.|+.||..+|+.||.+|+++|++++|.++|++|.    .||..+|+++|.+|++.
T Consensus       441 n~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~  520 (1060)
T PLN03218        441 NMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARA  520 (1060)
T ss_pred             HHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence            99999999999999999999999999999999999999999999999999999999998    57999999999999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHH--hCCCCCchHHHHHHHHHHcCCCHHHHHH
Q 048281          214 GEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVK--MGYDSGVPVMNALIDMYGKGKCVGEALE  291 (660)
Q Consensus       214 ~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~li~~~~~~~~~~~A~~  291 (660)
                      |++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|+.|.+  .|+.||..+|++++.+|++.|++++|.+
T Consensus       521 G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~e  600 (1060)
T PLN03218        521 GQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE  600 (1060)
T ss_pred             cCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999987  6789999999999999999999999999


Q ss_pred             HHHhcCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCc
Q 048281          292 IFEMMEE----KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGL  367 (660)
Q Consensus       292 ~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  367 (660)
                      +|+.|.+    ++..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.|.+.|+
T Consensus       601 lf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~  680 (1060)
T PLN03218        601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGI  680 (1060)
T ss_pred             HHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            9999976    467899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048281          368 AKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS----KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP  443 (660)
Q Consensus       368 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  443 (660)
                      .++        ..+|++||.+|+++|++++|.++|++|.    .||..+||.||.+|++.|++++|+++|++|...|+.|
T Consensus       681 ~pd--------~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~P  752 (1060)
T PLN03218        681 KLG--------TVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP  752 (1060)
T ss_pred             CCC--------HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            998        9999999999999999999999999995    6899999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHh----hcC-------------------CHHHH
Q 048281          444 DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLG----RAG-------------------QLNEA  500 (660)
Q Consensus       444 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g-------------------~~~~A  500 (660)
                      |..||+.++.+|++.|++++|.++|++|.+. |+.||..+|++++.++.    +++                   ..++|
T Consensus       753 d~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~A  831 (1060)
T PLN03218        753 NTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWA  831 (1060)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHH
Confidence            9999999999999999999999999999995 99999999999997643    222                   24679


Q ss_pred             HHHHHhCCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          501 YELALAMPN---EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL-EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       501 ~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ..+|++|..   .||..+|+.++.++...+..+.+..+++.+... .+.+..+|..|++.+.+.  .++|..++++|...
T Consensus       832 l~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~  909 (1060)
T PLN03218        832 LMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASL  909 (1060)
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHc
Confidence            999999876   699999999998888888888888888776432 445567899999887332  36899999999999


Q ss_pred             CCccCC
Q 048281          577 NVRKNP  582 (660)
Q Consensus       577 ~~~~~~  582 (660)
                      |+.|+.
T Consensus       910 Gi~p~~  915 (1060)
T PLN03218        910 GVVPSV  915 (1060)
T ss_pred             CCCCCc
Confidence            998875

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

Probab=100.00  E-value=2.2e-64  Score=550.04  Aligned_cols=442  Identities=20%  Similarity=0.364  Sum_probs=426.3

Q ss_pred             CCCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHH
Q 048281           27 NHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMI  106 (660)
Q Consensus        27 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li  106 (660)
                      +.+|+..+|+.++.+|.+.++++.|.++|..|.+.|+.|++.+||.|+++|++.|+++.|.++|+ .++.||..+||++|
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~-~m~~~~~~t~n~li  196 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFD-EMPERNLASWGTII  196 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHh-cCCCCCeeeHHHHH
Confidence            34578899999999999999999999999999999999999999999999999999999999999 88899999999999


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChH
Q 048281          107 SGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFME  186 (660)
Q Consensus       107 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  186 (660)
                      .+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|..+.+.+++..+.+.|+.||..++++||++|+++|+++
T Consensus       197 ~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~  276 (697)
T PLN03081        197 GGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIE  276 (697)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCC
Q 048281          187 EALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGY  266 (660)
Q Consensus       187 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~  266 (660)
                      +|.++|++|..+|+++||++|.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|+++.|.+++..|.+.|+
T Consensus       277 ~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~  356 (697)
T PLN03081        277 DARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF  356 (697)
T ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 048281          267 DSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPAC  346 (660)
Q Consensus       267 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~  346 (660)
                      .||..++++|+++|+++|++++|.++|++|.++|+.+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|
T Consensus       357 ~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  436 (697)
T PLN03081        357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC  436 (697)
T ss_pred             CCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcccchHHHHHHHHHHHH-hCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC-CCCHhHHHHHHHHHHhcC
Q 048281          347 SHLAALMHGRQIHGYIVV-NGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS-KKDVASWNIMILGYGMDG  424 (660)
Q Consensus       347 ~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g  424 (660)
                      ++.|.+++|.++|+.|.+ .|+.|+        ..+|+.++++|++.|++++|.+++++|. .|+..+|++|+.+|..+|
T Consensus       437 ~~~g~~~~a~~~f~~m~~~~g~~p~--------~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g  508 (697)
T PLN03081        437 RYSGLSEQGWEIFQSMSENHRIKPR--------AMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHK  508 (697)
T ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCC--------ccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Confidence            999999999999999986 588888        9999999999999999999999999997 789999999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC
Q 048281          425 QGKEALDMFSCMCEAKLKPD-EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT  480 (660)
Q Consensus       425 ~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~  480 (660)
                      +.+.|..+++++.+  +.|+ ..+|..++..|++.|++++|.++++.|.++ |+...
T Consensus       509 ~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~-g~~k~  562 (697)
T PLN03081        509 NLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRK-GLSMH  562 (697)
T ss_pred             CcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHc-CCccC
Confidence            99999999999875  4554 678999999999999999999999999985 77543

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

Probab=100.00  E-value=8e-32  Score=308.73  Aligned_cols=530  Identities=12%  Similarity=0.014  Sum_probs=361.5

Q ss_pred             CCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccC--CCCCCcccHHHHH
Q 048281           29 PFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNL--SCEPNVFTYNAMI  106 (660)
Q Consensus        29 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~li  106 (660)
                      |.+...+..+...+...|+++.|...+..+.... +.+...+..+...|.+.|++++|.+.|++.  ..+.+...|..+.
T Consensus       326 p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~  404 (899)
T TIGR02917       326 PNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLG  404 (899)
T ss_pred             CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            3445566677777788888888888888777654 345667777888888888888888888742  2233455677777


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChH
Q 048281          107 SGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFME  186 (660)
Q Consensus       107 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  186 (660)
                      ..+...|++++|+..|+.+.+.... +......++..+.+.|++++|..+++.+.+.. +.+..++..+...|...|+++
T Consensus       405 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  482 (899)
T TIGR02917       405 ISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLA  482 (899)
T ss_pred             HHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHH
Confidence            7777888888888888877765432 23344556667777777777777777776643 345667777777777777777


Q ss_pred             HHHHHHccCCC---CCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHH
Q 048281          187 EALKVFEELPL---RDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVK  263 (660)
Q Consensus       187 ~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  263 (660)
                      +|...|+++..   .+...+..+...+...|++++|.+.++++...+ +.+..++..+...+...|+.++|...+..+.+
T Consensus       483 ~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  561 (899)
T TIGR02917       483 KAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAE  561 (899)
T ss_pred             HHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777776542   245566667777777777777777777776643 23455666677777777777777777777766


Q ss_pred             hCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHH
Q 048281          264 MGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFS  340 (660)
Q Consensus       264 ~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  340 (660)
                      .+ +.+...+..++..|.+.|++++|..+++.+.+   .+...|..+...+...|++++|...|+++.+.. +.+...+.
T Consensus       562 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  639 (899)
T TIGR02917       562 LN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALL  639 (899)
T ss_pred             hC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            54 33455666677777777777777777777653   245667777777777777777777777776542 22444566


Q ss_pred             HHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHH
Q 048281          341 TVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMI  417 (660)
Q Consensus       341 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li  417 (660)
                      .+...+...|+++.|...++.+.......         ...+..++..+...|++++|.++++.+.+   .+...+..+.
T Consensus       640 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  710 (899)
T TIGR02917       640 LLADAYAVMKNYAKAITSLKRALELKPDN---------TEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEG  710 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCC---------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHH
Confidence            66666777777777777777776654333         56667777777777777777777776652   3455666667


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCH
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQL  497 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  497 (660)
                      ..+...|++++|+..|+++...  .|+..++..+..++.+.|+.++|.+.++.+.+  ..+.+...+..+...|.+.|++
T Consensus       711 ~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~  786 (899)
T TIGR02917       711 DLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLK--THPNDAVLRTALAELYLAQKDY  786 (899)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCH
Confidence            7777777777777777777764  34445666666677777777777777777765  3445566677777777777777


Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          498 NEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       498 ~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ++|...|+++..  ++++.+++.++..+...|+ ++|+..+++++++.|+++..+..++.++...|++++|.++++++.+
T Consensus       787 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~  865 (899)
T TIGR02917       787 DKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVN  865 (899)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            777777776543  3456666777777777777 6677777777777777766666777777777777777777777766


Q ss_pred             CCC
Q 048281          576 QNV  578 (660)
Q Consensus       576 ~~~  578 (660)
                      .+.
T Consensus       866 ~~~  868 (899)
T TIGR02917       866 IAP  868 (899)
T ss_pred             hCC
Confidence            543

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

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

Probab=100.00  E-value=1.7e-31  Score=306.00  Aligned_cols=524  Identities=12%  Similarity=0.012  Sum_probs=411.7

Q ss_pred             hhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccC--CCCCCcccHHHHHHHHH
Q 048281           33 ATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNL--SCEPNVFTYNAMISGFY  110 (660)
Q Consensus        33 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~li~~~~  110 (660)
                      ..+..+...+...|+++.|...+..+.+... .+...+..+...+.+.|+++.|...+++.  ..+.+...|+.+...+.
T Consensus       296 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  374 (899)
T TIGR02917       296 PALLLAGASEYQLGNLEQAYQYLNQILKYAP-NSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYL  374 (899)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            3444555667788888888888888877653 35566777788888889999998888742  23345667888888888


Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHH
Q 048281          111 SNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALK  190 (660)
Q Consensus       111 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  190 (660)
                      +.|++++|..+|+++.+... .+...+..+...+...|++++|...++.+.+.... .......++..+.+.|++++|..
T Consensus       375 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~  452 (899)
T TIGR02917       375 ALGDFEKAAEYLAKATELDP-ENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALA  452 (899)
T ss_pred             HCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHH
Confidence            88999999999888877532 24556777777788888899898888888876533 33455667788888899999988


Q ss_pred             HHccCCC---CCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCC
Q 048281          191 VFEELPL---RDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYD  267 (660)
Q Consensus       191 ~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  267 (660)
                      +++.+..   .+...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++.+.+.. +
T Consensus       453 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~  530 (899)
T TIGR02917       453 AAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-P  530 (899)
T ss_pred             HHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-c
Confidence            8887753   356778888888888899999999998887643 2344566777788888889999998888888765 3


Q ss_pred             CCchHHHHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 048281          268 SGVPVMNALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLP  344 (660)
Q Consensus       268 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~  344 (660)
                      .+..++..+...|.+.|+.++|..+|+++.+   .+...+..++..+...|++++|..+++++.+.. +.+...+..+..
T Consensus       531 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  609 (899)
T TIGR02917       531 KNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGR  609 (899)
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHH
Confidence            4667788888888888999999888888754   245667788888888899999999988887653 445677888888


Q ss_pred             HHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHH
Q 048281          345 ACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYG  421 (660)
Q Consensus       345 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~  421 (660)
                      .+...|+++.|...++.+.+.....         ...+..+...|.+.|++++|...|+++.   ..+..+|..++..+.
T Consensus       610 ~~~~~~~~~~A~~~~~~~~~~~~~~---------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  680 (899)
T TIGR02917       610 AQLAAGDLNKAVSSFKKLLALQPDS---------ALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLL  680 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCC---------hHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            8888899999998888887765433         6677888888888899999998888765   335678888888888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHH
Q 048281          422 MDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAY  501 (660)
Q Consensus       422 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  501 (660)
                      ..|++++|..+++.+.+.+ +++...+..+...+...|++++|...++.+..   ..|+..++..++.++.+.|++++|.
T Consensus       681 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~  756 (899)
T TIGR02917       681 AAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALK---RAPSSQNAIKLHRALLASGNTAEAV  756 (899)
T ss_pred             HcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHCCCHHHHH
Confidence            8899999999998888764 45666777777888888999999999888876   2355577778888888899999998


Q ss_pred             HHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          502 ELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       502 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +.++++..  +.+...+..+...|...|+.++|...|+++++..|+++..+..+++++...|+ .+|+.+++++.+.
T Consensus       757 ~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       757 KTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKL  832 (899)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh
Confidence            88887643  45677888888888888999999999999988888888888888899888888 8888888888664

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=99.95  E-value=1.1e-22  Score=233.55  Aligned_cols=521  Identities=11%  Similarity=0.032  Sum_probs=375.6

Q ss_pred             HHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHH-HHhHcCCChhHHHHHHccCC--CCCCcccHHHHHHHHHcC
Q 048281           36 IASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLI-NMYSKCCQMKYALFVFNNLS--CEPNVFTYNAMISGFYSN  112 (660)
Q Consensus        36 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll-~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~li~~~~~~  112 (660)
                      ..+...+...|++++|.+.++.+.+... |+........ ......|+.++|++.|++..  .+.+...+..+...+...
T Consensus       116 l~~A~ll~~~g~~~eA~~~~~~~l~~~p-~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~  194 (1157)
T PRK11447        116 LQQARLLATTGRTEEALASYDKLFNGAP-PELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSS  194 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHccCCC-CChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHcc
Confidence            3444567888999999999999887643 3322111122 22234589999999998522  233556678888889999


Q ss_pred             CChhHHHHHHHHHHHCCC------------------C--------------CCcccH---------------------HH
Q 048281          113 DFAFKGLDFFNHMRQLGV------------------L--------------PDKYTF---------------------PC  139 (660)
Q Consensus       113 ~~~~~a~~~~~~m~~~~~------------------~--------------p~~~t~---------------------~~  139 (660)
                      |+.++|+..|+++.+...                  .              |+...+                     ..
T Consensus       195 g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~  274 (1157)
T PRK11447        195 GRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARA  274 (1157)
T ss_pred             CCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHH
Confidence            999999999988754321                  0              111000                     01


Q ss_pred             HHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCC--CCc---hhHHHH--------
Q 048281          140 LIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPL--RDV---VLWNAM--------  206 (660)
Q Consensus       140 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~l--------  206 (660)
                      ....+...|++++|+..+++.++... .+...+..|..+|.+.|++++|...|++..+  |+.   ..|..+        
T Consensus       275 ~G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~  353 (1157)
T PRK11447        275 QGLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWL  353 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHH
Confidence            12334566888888888888887642 3567777888888888888888888877653  211   122221        


Q ss_pred             ----HHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHc
Q 048281          207 ----VNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGK  282 (660)
Q Consensus       207 ----i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  282 (660)
                          ...+.+.|++++|++.|++..... +.+...+..+...+...|++++|.+.++.+.+.. +.+...+..+...|. 
T Consensus       354 ~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-  430 (1157)
T PRK11447        354 LIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-  430 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-
Confidence                335667888888888888887753 2344566667778888888888888888887764 233455666666664 


Q ss_pred             CCCHHHHHHHHHhcCCCC------------hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCC-HHHHHHHHHHHhcc
Q 048281          283 GKCVGEALEIFEMMEEKD------------IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPD-LVTFSTVLPACSHL  349 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~~~------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~  349 (660)
                      .++.++|..+++.+....            ...+..+...+...|++++|++.|++..+.  .|+ ...+..+...+.+.
T Consensus       431 ~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~  508 (1157)
T PRK11447        431 QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQA  508 (1157)
T ss_pred             hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHc
Confidence            456788888887765321            123455667788899999999999999876  454 44566777888999


Q ss_pred             cchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC----CH---------hHHHHH
Q 048281          350 AALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK----DV---------ASWNIM  416 (660)
Q Consensus       350 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~---------~~~~~l  416 (660)
                      |++++|...++.+.+.....         ...+..+...+...++.++|...++.+...    +.         ..+..+
T Consensus       509 G~~~~A~~~l~~al~~~P~~---------~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~  579 (1157)
T PRK11447        509 GQRSQADALMRRLAQQKPND---------PEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLET  579 (1157)
T ss_pred             CCHHHHHHHHHHHHHcCCCC---------HHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHH
Confidence            99999999999988765433         445555666677889999999999987632    11         112345


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ  496 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  496 (660)
                      ...+...|+.++|+.+++.     .+++...+..+...+.+.|++++|+..|+.+.+  .-+.+...+..++.+|...|+
T Consensus       580 a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~--~~P~~~~a~~~la~~~~~~g~  652 (1157)
T PRK11447        580 ANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT--REPGNADARLGLIEVDIAQGD  652 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCC
Confidence            6678899999999999872     245556677788889999999999999999987  344567889999999999999


Q ss_pred             HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc------hHHHHHHHHHhCCChHHHHH
Q 048281          497 LNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG------NYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       497 ~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~a~~  568 (660)
                      +++|++.++....  +.+...+..+..++...|++++|.+.++++++..|+++.      .+..++.++...|++++|..
T Consensus       653 ~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~  732 (1157)
T PRK11447        653 LAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALE  732 (1157)
T ss_pred             HHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999998765  345667888889999999999999999999998765543      56677999999999999999


Q ss_pred             HHHHHHh-CCCc
Q 048281          569 IRHTMRQ-QNVR  579 (660)
Q Consensus       569 ~~~~~~~-~~~~  579 (660)
                      .+++... .|+.
T Consensus       733 ~y~~Al~~~~~~  744 (1157)
T PRK11447        733 TYKDAMVASGIT  744 (1157)
T ss_pred             HHHHHHhhcCCC
Confidence            9998853 3453

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.95  E-value=1.7e-22  Score=231.89  Aligned_cols=522  Identities=10%  Similarity=0.027  Sum_probs=288.5

Q ss_pred             HHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCC-CCCCcc-c-----------
Q 048281           35 CIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLS-CEPNVF-T-----------  101 (660)
Q Consensus        35 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~-~~~~~~-~-----------  101 (660)
                      .....+.+...++.+.|.+.+.++..... .++.++..++..+.+.|+.++|.+.+++.. ..|+.. .           
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p-~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~  109 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELIDP-NNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLST  109 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcC
Confidence            34444555555666666666665555432 244555555555566666666666555311 112111 1           


Q ss_pred             -----HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcc-cHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHH
Q 048281          102 -----YNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKY-TFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSAL  175 (660)
Q Consensus       102 -----~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  175 (660)
                           .-.+.+.+...|++++|+..|+.+.+.. +|+.. ............|+.++|+..++.+.+..+ -+...+..+
T Consensus       110 ~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P-~~~~~~~~L  187 (1157)
T PRK11447        110 PEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYP-GNTGLRNTL  187 (1157)
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCC-CCHHHHHHH
Confidence                 1122234555566666666666655432 12211 011111111233556666666666655432 234445555


Q ss_pred             HHHhHhcCChHHHHHHHccCCCCC-----------------------chhH-----------------------------
Q 048281          176 VNTYLKCQFMEEALKVFEELPLRD-----------------------VVLW-----------------------------  203 (660)
Q Consensus       176 i~~~~~~g~~~~A~~~~~~~~~~~-----------------------~~~~-----------------------------  203 (660)
                      ...+...|+.++|...|+++....                       ...+                             
T Consensus       188 A~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~d  267 (1157)
T PRK11447        188 ALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLAD  267 (1157)
T ss_pred             HHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccC
Confidence            555555666666655555432100                       0000                             


Q ss_pred             -----HHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCC-chHH----
Q 048281          204 -----NAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSG-VPVM----  273 (660)
Q Consensus       204 -----~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~----  273 (660)
                           ......+...|++++|+..|++..+.. +.+...+..+..++.+.|++++|...++...+...... ...+    
T Consensus       268 p~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll  346 (1157)
T PRK11447        268 PAFRARAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLL  346 (1157)
T ss_pred             cchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHH
Confidence                 011233455667777777777666532 12445566666666677777777777766665532211 1111    


Q ss_pred             --------HHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCC-HHHHHH
Q 048281          274 --------NALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPD-LVTFST  341 (660)
Q Consensus       274 --------~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~  341 (660)
                              ......+.+.|++++|+..|++..+   .+...+..+...+...|++++|++.|++..+.  .|+ ...+..
T Consensus       347 ~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~--~p~~~~a~~~  424 (1157)
T PRK11447        347 KVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRM--DPGNTNAVRG  424 (1157)
T ss_pred             HhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence                    1123445566777777777766654   23445566666677777777777777766654  232 222222


Q ss_pred             HHH------------------------------------------HHhcccchHHHHHHHHHHHHhCccCCCCCCCCcch
Q 048281          342 VLP------------------------------------------ACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDV  379 (660)
Q Consensus       342 ll~------------------------------------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  379 (660)
                      +..                                          .+...|++++|...++.+++..+..         .
T Consensus       425 L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~---------~  495 (1157)
T PRK11447        425 LANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGS---------V  495 (1157)
T ss_pred             HHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC---------H
Confidence            222                                          2334455555555555555444332         4


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH---------H
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSK--K-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEV---------T  447 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---------~  447 (660)
                      .++..+...|.+.|++++|...|+++.+  | +...+..+...+...++.++|+..++++......++..         .
T Consensus       496 ~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~  575 (1157)
T PRK11447        496 WLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQ  575 (1157)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhH
Confidence            4455555555555555555555555431  1 33333333344445555555555555443221111111         1


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHH
Q 048281          448 FVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRL  525 (660)
Q Consensus       448 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~  525 (660)
                      +......+...|+.++|..+++.      .+.+...+..+...|.+.|++++|++.|+++..  +.++..+..++..+..
T Consensus       576 ~l~~a~~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~  649 (1157)
T PRK11447        576 VLETANRLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIA  649 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            12234455666677777666651      234555677788888888999999888887654  4567788888888888


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          526 HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       526 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      .|++++|++.++++.+..|+++..+..++.++...|++++|.++++++....
T Consensus       650 ~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        650 QGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             CCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhC
Confidence            8999999999998888888888888888888888999999999988887653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.92  E-value=1.2e-19  Score=198.91  Aligned_cols=513  Identities=8%  Similarity=-0.031  Sum_probs=331.9

Q ss_pred             hccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCC-CCCCcccHHHHHHHHHcCCChhHHHHH
Q 048281           43 AHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLS-CEPNVFTYNAMISGFYSNDFAFKGLDF  121 (660)
Q Consensus        43 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~  121 (660)
                      ...|++++|...|+..++..+.. +.++..|...|.+.|++++|+..+++.. ..|+-..|..++..+   +++.+|..+
T Consensus        55 ~~~Gd~~~A~~~l~~Al~~dP~n-~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~  130 (987)
T PRK09782         55 QKNNDEATAIREFEYIHQQVPDN-IPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTT  130 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHH
Confidence            34488888888888888876443 7777888888888888888888887421 223222222222222   555566666


Q ss_pred             HHHHHHCC--------------------------------------CCCCcccHHHH-HHHHhhhCCHHHHHHHHHHHHH
Q 048281          122 FNHMRQLG--------------------------------------VLPDKYTFPCL-IKCCCDVMAVLEVKKIHGLVFK  162 (660)
Q Consensus       122 ~~~m~~~~--------------------------------------~~p~~~t~~~l-l~~~~~~~~~~~a~~~~~~~~~  162 (660)
                      |+++....                                      ..|+..+.... .+.|...+++++|+.++..+.+
T Consensus       131 ye~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k  210 (987)
T PRK09782        131 VEELLAQQKACDAVPTLRCRSEVGQNALRLAQLPVARAQLNDATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQ  210 (987)
T ss_pred             HHHHHHhCCCChhHHHHHHHHhhccchhhhhhHHHHHHHHHHhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHh
Confidence            66654431                                      12223333333 6677788888889999988888


Q ss_pred             hCCCCChhHHHHHHHHhHh-cCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCC-CChhhHHH
Q 048281          163 LGLDLDVYIGSALVNTYLK-CQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIW-MSRFTVTG  240 (660)
Q Consensus       163 ~g~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~~~t~~~  240 (660)
                      .+.. +......|..+|.. .++ +++..+++...+.+...+..+...|.+.|+.++|.++++++...-.. |...++..
T Consensus       211 ~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~  288 (987)
T PRK09782        211 QNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLY  288 (987)
T ss_pred             cCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHH
Confidence            8643 34446666667777 366 88888877655568888999999999999999999999987543221 22222211


Q ss_pred             H------------------------------HHHHHccCCchhHHHHHH-----------------------------HH
Q 048281          241 V------------------------------LSALIMMGFFKNGRVVHG-----------------------------IV  261 (660)
Q Consensus       241 l------------------------------l~~~~~~~~~~~a~~~~~-----------------------------~~  261 (660)
                      .                              +..+.+.++++.++++..                             .+
T Consensus       289 ~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~  368 (987)
T PRK09782        289 LLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLL  368 (987)
T ss_pred             HHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHH
Confidence            1                              233344444444443321                             11


Q ss_pred             HHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC-C-----ChhhHHHHHHHHHHcCC---hHHHHHH---------
Q 048281          262 VKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE-K-----DIFSWNSIMTVHEQCGN---HDGTLRL---------  323 (660)
Q Consensus       262 ~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~g~---~~~a~~~---------  323 (660)
                      .+. .+.+....--+.-...+.|+.++|.++|+.... +     +...-+-++..|.+.+.   ..++..+         
T Consensus       369 y~~-~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~  447 (987)
T PRK09782        369 YQQ-EPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQ  447 (987)
T ss_pred             Hhc-CCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchh
Confidence            111 011333333334445678888999998888754 1     22234456666666655   3333322         


Q ss_pred             -------------HHHHhh-cCCCC---CHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHH
Q 048281          324 -------------FDRMLS-AGFQP---DLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALM  386 (660)
Q Consensus       324 -------------~~~m~~-~g~~p---~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li  386 (660)
                                   +..... .+..|   +...+..+..++.. +++++|...+.......+.          ......+.
T Consensus       448 ~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd----------~~~~L~lA  516 (987)
T PRK09782        448 RQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPD----------AWQHRAVA  516 (987)
T ss_pred             HHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCc----------hHHHHHHH
Confidence                         111111 11223   34445555544444 7777788877766655432          22233445


Q ss_pred             HHHHhcCCHHHHHHHHhcCCC--CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHH
Q 048281          387 DMYTKCGSMRDAQMVFTKMSK--KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQG  464 (660)
Q Consensus       387 ~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  464 (660)
                      ..+...|++++|...|+++..  ++...+..+...+.+.|+.++|...+++..+.. +++...+..+...+...|++++|
T Consensus       517 ~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eA  595 (987)
T PRK09782        517 YQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELA  595 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHH
Confidence            555678888888888887652  344556667777888888888888888888753 22223333334445566888888


Q ss_pred             HHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          465 REFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       465 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      ...+++..+   ..|+...+..+..++.+.|+.++|...+++...  +.+...++.+..++...|+.++|+..+++++++
T Consensus       596 l~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        596 LNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            888888875   445677888888888888888888888887654  445667788888888888888888888888888


Q ss_pred             CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          543 EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       543 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      .|+++..+..++.++...|++++|...+++..+..
T Consensus       673 ~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        673 LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            88888888888888888888888888888876543

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

Probab=99.92  E-value=3.8e-21  Score=186.67  Aligned_cols=437  Identities=12%  Similarity=0.052  Sum_probs=319.0

Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHH
Q 048281          108 GFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEE  187 (660)
Q Consensus       108 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  187 (660)
                      -..+.|++++|.+.-...-+.+.. +....-.+-..+.+..+.+...+--....+.. +--..+|+.+.+.+-..|++++
T Consensus        57 ~~yq~gd~~~a~~h~nmv~~~d~t-~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~kerg~~~~  134 (966)
T KOG4626|consen   57 RLYQGGDYKQAEKHCNMVGQEDPT-NTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKERGQLQD  134 (966)
T ss_pred             HHHhccCHHHHHHHHhHhhccCCC-cccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHHhchHHH
Confidence            334456666665544433332211 22222222233333334444333322222221 2234566666777767777777


Q ss_pred             HHHHHccCCCC---CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHH-HHHHHHccCCchhHHHHHHHHHH
Q 048281          188 ALKVFEELPLR---DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTG-VLSALIMMGFFKNGRVVHGIVVK  263 (660)
Q Consensus       188 A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~-ll~~~~~~~~~~~a~~~~~~~~~  263 (660)
                      |+.+++.+.+.   .+..|-.+..++...|+.+.|.+.|.+..+  +.|+.....+ +-......|++.+|...+-+.+.
T Consensus       135 al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~  212 (966)
T KOG4626|consen  135 ALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKACYLKAIE  212 (966)
T ss_pred             HHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHHHHHHHHh
Confidence            77777665432   456677777777777777777777777765  3455543332 33334455777777777766665


Q ss_pred             hCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCCh---hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCH-HHH
Q 048281          264 MGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDI---FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL-VTF  339 (660)
Q Consensus       264 ~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~  339 (660)
                      ... .-...|+.|...+-..|+...|+..|++..+-|+   .+|-.|...|...+.+++|+..|.+....  .|+. ..+
T Consensus       213 ~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~A~a~  289 (966)
T KOG4626|consen  213 TQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNHAVAH  289 (966)
T ss_pred             hCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcchhhc
Confidence            531 2345677788888888999999999888776433   57888888899999999999988887764  5654 466


Q ss_pred             HHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHH
Q 048281          340 STVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIM  416 (660)
Q Consensus       340 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l  416 (660)
                      ..+...|-..|.++.|...+++.+...+..         +..|+.|..++-..|++.+|.+.|++..   ..-..+.+.|
T Consensus       290 gNla~iYyeqG~ldlAI~~Ykral~~~P~F---------~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NL  360 (966)
T KOG4626|consen  290 GNLACIYYEQGLLDLAIDTYKRALELQPNF---------PDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNL  360 (966)
T ss_pred             cceEEEEeccccHHHHHHHHHHHHhcCCCc---------hHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHH
Confidence            667777888899999999999988877666         7899999999999999999999999876   2345688999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh-HHHHHHHHHHhhc
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKLKPDE-VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI-EHYTCVIDMLGRA  494 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~  494 (660)
                      ...|...|.+++|..+|....+  +.|.- ..++.|...|-++|++++|+..|+++++   +.|+. ..|+.+...|...
T Consensus       361 gni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~NmGnt~ke~  435 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALSNMGNTYKEM  435 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHHhcchHHHHh
Confidence            9999999999999999999987  45553 5678888899999999999999999974   77775 7899999999999


Q ss_pred             CCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHH
Q 048281          495 GQLNEAYELALAMPN-EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEE  565 (660)
Q Consensus       495 g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  565 (660)
                      |+.+.|...+.+... .| -....+.|.+.|...|+..+|++.|+++++++|+.+.+|..++..+--..+|.+
T Consensus       436 g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  436 GDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             hhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccc
Confidence            999999999988654 33 356889999999999999999999999999999999999999887766555554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.91  E-value=4.1e-19  Score=194.80  Aligned_cols=520  Identities=9%  Similarity=-0.025  Sum_probs=357.1

Q ss_pred             hHHHHHHHhhccCChhHHHHHHHHHHHhCCCCC--hhHHHHHHH--HhHcCCChhHHHHHHccC--CCCCCcccHHHHHH
Q 048281           34 TCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDS--PLSITSLIN--MYSKCCQMKYALFVFNNL--SCEPNVFTYNAMIS  107 (660)
Q Consensus        34 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~ll~--~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~li~  107 (660)
                      ++..||-.|...+..- +..+-....+.++.+-  -.++-.+..  .+...|++++|+..|+..  ..+-+...+..|.+
T Consensus         8 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~f~~a~~~~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~   86 (987)
T PRK09782          8 GWSGLLLTSLLSTSAL-ADNIGTSAEELGLSDYRHFVIYPRLDKALKAQKNNDEATAIREFEYIHQQVPDNIPLTLYLAE   86 (987)
T ss_pred             CchHHHHHHHhccHhh-hhhcccccccCCCchHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3444444444443332 3333334455555432  122223333  233459999999999952  33445778899999


Q ss_pred             HHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHH--------h
Q 048281          108 GFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNT--------Y  179 (660)
Q Consensus       108 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~--------~  179 (660)
                      .|...|++++|+..+++..+.  .|+...|..++..+   ++.++|..+++++.+..+. +..++..+...        |
T Consensus        87 ~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i---~~~~kA~~~ye~l~~~~P~-n~~~~~~la~~~~~~~~l~y  160 (987)
T PRK09782         87 AYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAI---PVEVKSVTTVEELLAQQKA-CDAVPTLRCRSEVGQNALRL  160 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHh---ccChhHHHHHHHHHHhCCC-ChhHHHHHHHHhhccchhhh
Confidence            999999999999999999886  45555555555333   8999999999999997533 45555555555        7


Q ss_pred             HhcCChHHHHHHHccCCCCC--chhHH-HHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc-cCCchhHH
Q 048281          180 LKCQFMEEALKVFEELPLRD--VVLWN-AMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIM-MGFFKNGR  255 (660)
Q Consensus       180 ~~~g~~~~A~~~~~~~~~~~--~~~~~-~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~-~~~~~~a~  255 (660)
                      .+.++..+++.  .+...++  ..... .+...|.+.+++++|++++.++.+.+.. +..-...+-.++.. .++ +.+.
T Consensus       161 ~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~  236 (987)
T PRK09782        161 AQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLL  236 (987)
T ss_pred             hhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHH
Confidence            77777777776  3333343  43344 4489999999999999999999997643 33335555556766 366 6666


Q ss_pred             HHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC-----CChhh---------------------------
Q 048281          256 VVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE-----KDIFS---------------------------  303 (660)
Q Consensus       256 ~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~~~~~---------------------------  303 (660)
                      .+++.    .+..+..++..++..|.+.|+.++|.++++++..     |...+                           
T Consensus       237 al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~  312 (987)
T PRK09782        237 ALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNR  312 (987)
T ss_pred             HHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHH
Confidence            66432    3346788888999999999999999988887642     00000                           


Q ss_pred             ----------------HH--------------------------------------------------HHHHHHHHcCCh
Q 048281          304 ----------------WN--------------------------------------------------SIMTVHEQCGNH  317 (660)
Q Consensus       304 ----------------~~--------------------------------------------------~li~~~~~~g~~  317 (660)
                                      |.                                                  -+.-...+.|+.
T Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~  392 (987)
T PRK09782        313 QYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQS  392 (987)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccH
Confidence                            00                                                  001123456888


Q ss_pred             HHHHHHHHHHhhc-C-CCCCHHHHHHHHHHHhcccc---hHHH----------------------HHHHHHHHHhCccCC
Q 048281          318 DGTLRLFDRMLSA-G-FQPDLVTFSTVLPACSHLAA---LMHG----------------------RQIHGYIVVNGLAKN  370 (660)
Q Consensus       318 ~~a~~~~~~m~~~-g-~~p~~~t~~~ll~~~~~~~~---~~~a----------------------~~~~~~~~~~~~~~~  370 (660)
                      ++|.++|+..... + ..++......++..+...+.   ...+                      ......+...-. .+
T Consensus       393 ~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~-~~  471 (987)
T PRK09782        393 REAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLG-DM  471 (987)
T ss_pred             HHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcc-cC
Confidence            9999999998762 1 23344444466666655544   2222                      222222222211 10


Q ss_pred             CCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH
Q 048281          371 GSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS--KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTF  448 (660)
Q Consensus       371 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  448 (660)
                         +..-+...+..+..++.. ++.++|...|.+..  .|+......+...+...|++++|...|+++...  .|+...+
T Consensus       472 ---p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~  545 (987)
T PRK09782        472 ---SPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDL  545 (987)
T ss_pred             ---CCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHH
Confidence               000017788888888887 89989999777765  344333333344456899999999999998664  5555666


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcC
Q 048281          449 VGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAASRLHG  527 (660)
Q Consensus       449 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~g  527 (660)
                      ..+..++.+.|+.++|...++...+. . +.....+..+...+.+.|++++|...+++... .|+...|..+..++.+.|
T Consensus       546 ~~la~all~~Gd~~eA~~~l~qAL~l-~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG  623 (987)
T PRK09782        546 LAAANTAQAAGNGAARDRWLQQAEQR-G-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRH  623 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc-C-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC
Confidence            67778889999999999999999873 2 33334444444555567999999999998664 578889999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          528 NTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       528 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      +.++|+..++++++++|+++..+..++.++...|++++|+..+++..+..
T Consensus       624 ~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~  673 (987)
T PRK09782        624 NVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL  673 (987)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999987754

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

Probab=99.88  E-value=1.1e-19  Score=176.52  Aligned_cols=418  Identities=11%  Similarity=0.076  Sum_probs=337.2

Q ss_pred             HHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCC---CchhHHHHHHHHHhCCC
Q 048281          139 CLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLR---DVVLWNAMVNGYAQIGE  215 (660)
Q Consensus       139 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~  215 (660)
                      .|..-..+.|++.+|++.-..+-... +.+....-.+-..+....+.+.....-....+.   -..+|..+...+-..|+
T Consensus        53 ~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~  131 (966)
T KOG4626|consen   53 ELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQ  131 (966)
T ss_pred             HHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhch
Confidence            34444557789999888665554432 222233333445566666776655433332222   45689999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCch-HHHHHHHHHHcCCCHHHHHHHH
Q 048281          216 FHKALEVFRRMSKEGIWMS-RFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVP-VMNALIDMYGKGKCVGEALEIF  293 (660)
Q Consensus       216 ~~~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~~~~~~~~~~A~~~~  293 (660)
                      +++|+.+++.+++.  .|+ ...|..+..++...|+.+.|.+.|.+.++..  |+.. ..+-+.......|++.+|...+
T Consensus       132 ~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  132 LQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             HHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHHHH
Confidence            99999999999884  454 5589999999999999999999999888764  4433 3344555666688999999988


Q ss_pred             HhcCC--CC-hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCH-HHHHHHHHHHhcccchHHHHHHHHHHHHhCccC
Q 048281          294 EMMEE--KD-IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL-VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAK  369 (660)
Q Consensus       294 ~~~~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  369 (660)
                      .+..+  |. .++|+.|...+-..|+...|+..|++..+.  .|+- ..|..+-..+...+.++.|...+..........
T Consensus       208 lkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~  285 (966)
T KOG4626|consen  208 LKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNH  285 (966)
T ss_pred             HHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcc
Confidence            77654  32 368999999999999999999999999864  5654 467777788888888888888888877665554


Q ss_pred             CCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC--CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H
Q 048281          370 NGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS--KK-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD-E  445 (660)
Q Consensus       370 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~  445 (660)
                               ..++..+...|-..|.++.|+..|++..  +| -...|+.|..++-..|++.+|...|.+....  .|+ .
T Consensus       286 ---------A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~ha  354 (966)
T KOG4626|consen  286 ---------AVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHA  354 (966)
T ss_pred             ---------hhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccH
Confidence                     7788889999999999999999999876  34 3579999999999999999999999999985  444 4


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN-PVVWRTLLAA  522 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~  522 (660)
                      ...+.|...+...|.++.|..+|....+   +.|. ...++.|...|-.+|++++|+.-+++... +|. ...++.+...
T Consensus       355 dam~NLgni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt  431 (966)
T KOG4626|consen  355 DAMNNLGNIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNT  431 (966)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchH
Confidence            6788899999999999999999999865   4555 46789999999999999999999998654 454 5689999999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      |...|+.+.|.+.+.+++..+|.-++++..|+.+|-..|+..+|+.-++...+..
T Consensus       432 ~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  432 YKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC
Confidence            9999999999999999999999999999999999999999999999999987743

>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=3.3e-18  Score=184.69  Aligned_cols=417  Identities=11%  Similarity=-0.012  Sum_probs=270.0

Q ss_pred             HHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCC---CchhHHHHHHHHHhCCC
Q 048281          139 CLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLR---DVVLWNAMVNGYAQIGE  215 (660)
Q Consensus       139 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~  215 (660)
                      .....+.+.|+++.|...|++.++.  .|+...|..+..+|.+.|++++|+..++...+.   +...|..+..+|...|+
T Consensus       132 ~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~  209 (615)
T TIGR00990       132 EKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGK  209 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCC
Confidence            4444556666777777777666653  345556666666677777777777666655432   34466666667777777


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHh
Q 048281          216 FHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEM  295 (660)
Q Consensus       216 ~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  295 (660)
                      +++|+..|......+.. +......++.....    ..+........+.. +.+...+..+.. |...........-+..
T Consensus       210 ~~eA~~~~~~~~~~~~~-~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  282 (615)
T TIGR00990       210 YADALLDLTASCIIDGF-RNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGLED  282 (615)
T ss_pred             HHHHHHHHHHHHHhCCC-ccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhhhc
Confidence            77777666555432211 11111111111110    11111111222211 122222222222 2111111111111111


Q ss_pred             cCCCCh---hhHHHHHHHH---HHcCChHHHHHHHHHHhhcC-CCCCH-HHHHHHHHHHhcccchHHHHHHHHHHHHhCc
Q 048281          296 MEEKDI---FSWNSIMTVH---EQCGNHDGTLRLFDRMLSAG-FQPDL-VTFSTVLPACSHLAALMHGRQIHGYIVVNGL  367 (660)
Q Consensus       296 ~~~~~~---~~~~~li~~~---~~~g~~~~a~~~~~~m~~~g-~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  367 (660)
                      ..+.+.   ..+..+...+   ...+++++|++.|++..+.+ ..|+. ..+..+...+...|+++.|...++..+....
T Consensus       283 ~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P  362 (615)
T TIGR00990       283 SNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP  362 (615)
T ss_pred             ccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            111111   1111111111   23467889999999888764 33433 4566666677788999999999998887754


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048281          368 AKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD  444 (660)
Q Consensus       368 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  444 (660)
                      ..         ...|..+...+...|++++|...|+...   ..+...|..+...+...|++++|+..|++.++.. +.+
T Consensus       363 ~~---------~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~  432 (615)
T TIGR00990       363 RV---------TQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDF  432 (615)
T ss_pred             Cc---------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccC
Confidence            43         6678888899999999999999998765   3467789999999999999999999999999853 334


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC-HH-------H
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN-PV-------V  515 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~-------~  515 (660)
                      ...+..+...+.+.|++++|+..++.+.+  ..+.+...+..+..+|...|++++|.+.|++... .|+ ..       .
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l  510 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPL  510 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHH
Confidence            56677777888999999999999999987  3455678899999999999999999999988543 222 11       1


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          516 WRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       516 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ++..+..+...|++++|+..++++++++|++...+..++.++.+.|++++|.+++++..+.
T Consensus       511 ~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       511 INKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            2222233445699999999999999999999889999999999999999999999998664

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

Probab=99.85  E-value=2.5e-17  Score=168.96  Aligned_cols=526  Identities=13%  Similarity=0.045  Sum_probs=372.4

Q ss_pred             HHHHHHHhh--ccCChhHHHHHHHHHHHhCC--CCChhHHHHHHHHhHcCCChhHHHHHHccCCCCC---CcccHHHHHH
Q 048281           35 CIASLQLCA--HQTNLQKGQEIHSYMLRTGI--IDSPLSITSLINMYSKCCQMKYALFVFNNLSCEP---NVFTYNAMIS  107 (660)
Q Consensus        35 ~~~ll~~~~--~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~li~  107 (660)
                      ...|.++|.  ..+++..|..+|...+....  .|++.  ..+-.++.+.|+.+.|+..|. ...+.   ++.++-.|--
T Consensus       165 l~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~r--Igig~Cf~kl~~~~~a~~a~~-ralqLdp~~v~alv~L~~  241 (1018)
T KOG2002|consen  165 LALLGKARIAYNKKDYRGALKYYKKALRINPACKADVR--IGIGHCFWKLGMSEKALLAFE-RALQLDPTCVSALVALGE  241 (1018)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCcc--chhhhHHHhccchhhHHHHHH-HHHhcChhhHHHHHHHHH
Confidence            344556665  45689999999999766653  34443  334466778999999999998 43332   3333332222


Q ss_pred             HHHcCC---ChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCC--ChhHHHHHHHHhHhc
Q 048281          108 GFYSND---FAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDL--DVYIGSALVNTYLKC  182 (660)
Q Consensus       108 ~~~~~~---~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~~~~~  182 (660)
                      .-....   .+..++.++...-.... -|+...+.|.+.+...|++..+..+...+......-  -...|--+..+|-..
T Consensus       242 ~~l~~~d~~s~~~~~~ll~~ay~~n~-~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~  320 (1018)
T KOG2002|consen  242 VDLNFNDSDSYKKGVQLLQRAYKENN-ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQ  320 (1018)
T ss_pred             HHHHccchHHHHHHHHHHHHHHhhcC-CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhh
Confidence            222333   34456666655544332 367788889999999999999999999888764221  123466688899999


Q ss_pred             CChHHHHHHHccCCCC--C--chhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccC----Cchh
Q 048281          183 QFMEEALKVFEELPLR--D--VVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMS-RFTVTGVLSALIMMG----FFKN  253 (660)
Q Consensus       183 g~~~~A~~~~~~~~~~--~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~----~~~~  253 (660)
                      |++++|...|.+....  |  +..+--|...|.+.|+++.+...|+...+.  .|| ..|...+...|+..+    ..+.
T Consensus       321 Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~--~p~~~etm~iLG~Lya~~~~~~~~~d~  398 (1018)
T KOG2002|consen  321 GDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ--LPNNYETMKILGCLYAHSAKKQEKRDK  398 (1018)
T ss_pred             ccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh--CcchHHHHHHHHhHHHhhhhhhHHHHH
Confidence            9999999998776543  2  344556788899999999999999999874  344 456777777777664    3455


Q ss_pred             HHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHH------HHHHHHHhc-CCCChhhHHHHHHHHHHcCChHHHHHHHHH
Q 048281          254 GRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVG------EALEIFEMM-EEKDIFSWNSIMTVHEQCGNHDGTLRLFDR  326 (660)
Q Consensus       254 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~------~A~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  326 (660)
                      |..++....+.- +.|...|-.+...|-....+.      .|..++..- ....+...|.+...+...|++.+|...|..
T Consensus       399 a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~  477 (1018)
T KOG2002|consen  399 ASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKS  477 (1018)
T ss_pred             HHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHH
Confidence            555555555443 456777877777776654433      333333222 235677889999999999999999999988


Q ss_pred             Hhhc---CCCCCH------HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHH
Q 048281          327 MLSA---GFQPDL------VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRD  397 (660)
Q Consensus       327 m~~~---g~~p~~------~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  397 (660)
                      ....   -..+|.      .+--.+.......++.+.|.+.+..+.+..+..         +..|-.++.+....+...+
T Consensus       478 A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~Y---------Id~ylRl~~ma~~k~~~~e  548 (1018)
T KOG2002|consen  478 ALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGY---------IDAYLRLGCMARDKNNLYE  548 (1018)
T ss_pred             HhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchh---------HHHHHHhhHHHHhccCcHH
Confidence            7754   123333      122234445566778999999999998876554         4555555544445577788


Q ss_pred             HHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhc------------cCCH
Q 048281          398 AQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAK-LKPDEVTFVGVLSACSH------------SGFL  461 (660)
Q Consensus       398 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~------------~g~~  461 (660)
                      |...+....   ..++..|..+...+.....+..|.+-|....+.- ..+|..+..+|.+.|.+            .+..
T Consensus       549 a~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~  628 (1018)
T KOG2002|consen  549 ASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQ  628 (1018)
T ss_pred             HHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHH
Confidence            888888765   4577788888888888888888888777666542 24677777777665533            2456


Q ss_pred             HHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 048281          462 SQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRV  539 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  539 (660)
                      ++|+++|.++++  ..+.|...-+.+.-+++..|++.+|..+|.++.+  ..+..+|-.+..+|...|++..|+++|+..
T Consensus       629 ~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~  706 (1018)
T KOG2002|consen  629 EKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENC  706 (1018)
T ss_pred             HHHHHHHHHHHh--cCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHH
Confidence            788899998887  5666777778888889999999999999998765  235678999999999999999999999999


Q ss_pred             Hhc--CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          540 FQL--EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       540 ~~~--~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      ++.  ..+++.....|++++.+.|+|.+|.+.+.......+
T Consensus       707 lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  707 LKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             HHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            886  345677888999999999999999999888766543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=9.7e-19  Score=179.38  Aligned_cols=292  Identities=12%  Similarity=0.084  Sum_probs=197.6

Q ss_pred             HHcCCCHHHHHHHHHhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCC---HHHHHHHHHHHhcccchH
Q 048281          280 YGKGKCVGEALEIFEMMEEK---DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPD---LVTFSTVLPACSHLAALM  353 (660)
Q Consensus       280 ~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~t~~~ll~~~~~~~~~~  353 (660)
                      +...|++++|...|+++.+.   +..++..+...+...|++++|..+++.+...+..++   ...+..+...+...|+++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            34445555555555555431   223455555555555555555555555554321111   123444455555556666


Q ss_pred             HHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC--------HhHHHHHHHHHHhcCC
Q 048281          354 HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKD--------VASWNIMILGYGMDGQ  425 (660)
Q Consensus       354 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------~~~~~~li~~~~~~g~  425 (660)
                      .|..++..+.+.....         ..+++.++..|.+.|++++|.+.++.+.+.+        ...|..++..+.+.|+
T Consensus       125 ~A~~~~~~~l~~~~~~---------~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  195 (389)
T PRK11788        125 RAEELFLQLVDEGDFA---------EGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGD  195 (389)
T ss_pred             HHHHHHHHHHcCCcch---------HHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCC
Confidence            6666665555432211         4556666666666677777766666654211        1235567777888899


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHH
Q 048281          426 GKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELAL  505 (660)
Q Consensus       426 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  505 (660)
                      +++|...|+++.+.. +.+...+..+...+.+.|++++|.++++++.+. +......++..++.+|...|++++|...++
T Consensus       196 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~  273 (389)
T PRK11788        196 LDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLR  273 (389)
T ss_pred             HHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999988753 233556777778888999999999999998763 222224567888999999999999999998


Q ss_pred             hCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHh---CCChHHHHHHHHHHHhCCCccC
Q 048281          506 AMPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVA---GGKYEEVLDIRHTMRQQNVRKN  581 (660)
Q Consensus       506 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~  581 (660)
                      ++.. .|+...+..++..+.+.|++++|...++++++..|+++ .+..+...+..   .|+.+++..++++|.++++.++
T Consensus       274 ~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~  352 (389)
T PRK11788        274 RALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRK  352 (389)
T ss_pred             HHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCC
Confidence            8654 56766778889999999999999999999999999875 45555555443   5689999999999999999888


Q ss_pred             Cc
Q 048281          582 PG  583 (660)
Q Consensus       582 ~~  583 (660)
                      |.
T Consensus       353 p~  354 (389)
T PRK11788        353 PR  354 (389)
T ss_pred             CC
Confidence            86

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=1.3e-16  Score=175.42  Aligned_cols=393  Identities=9%  Similarity=0.010  Sum_probs=198.0

Q ss_pred             HHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC---CCCchhHHHHHHHHHhCCCh
Q 048281          140 LIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP---LRDVVLWNAMVNGYAQIGEF  216 (660)
Q Consensus       140 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~  216 (660)
                      .+......|+.++|++++..+.... +.+...+..+...+.+.|++++|..+|++..   ..+...+..+...+...|++
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~   99 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQY   99 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH
Confidence            3344444455555555555444311 2223334455555555555555555555532   12334444555555555555


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhc
Q 048281          217 HKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMM  296 (660)
Q Consensus       217 ~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  296 (660)
                      ++|+..+++..+.. +.+.. +..+..++...|+.+.|...++.+.+.. +.+...+..+..++...+..+.|++.++..
T Consensus       100 ~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~  176 (765)
T PRK10049        100 DEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDA  176 (765)
T ss_pred             HHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhC
Confidence            55555555555431 11222 4444445555555555555555555543 223334445566666666677777766665


Q ss_pred             CCCChh--------hHHHHHHHHH-----HcCCh---HHHHHHHHHHhhc-CCCCCHH-HHHHHHHHHhcccchHHHHHH
Q 048281          297 EEKDIF--------SWNSIMTVHE-----QCGNH---DGTLRLFDRMLSA-GFQPDLV-TFSTVLPACSHLAALMHGRQI  358 (660)
Q Consensus       297 ~~~~~~--------~~~~li~~~~-----~~g~~---~~a~~~~~~m~~~-g~~p~~~-t~~~ll~~~~~~~~~~~a~~~  358 (660)
                      .. ++.        ....++....     ..+++   ++|++.++.+.+. ...|+.. .+.                  
T Consensus       177 ~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~------------------  237 (765)
T PRK10049        177 NL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQ------------------  237 (765)
T ss_pred             CC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHH------------------
Confidence            54 111        0111111111     11112   4445555554432 1112111 000                  


Q ss_pred             HHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---H-hHHHHHHHHHHhcCChHHHHHHHH
Q 048281          359 HGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKD---V-ASWNIMILGYGMDGQGKEALDMFS  434 (660)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~-~~~~~li~~~~~~g~~~~A~~~~~  434 (660)
                                           ......+.++...|++++|+..|+.+.+.+   + ..-..+...|...|++++|+..|+
T Consensus       238 ---------------------~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~  296 (765)
T PRK10049        238 ---------------------RARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILT  296 (765)
T ss_pred             ---------------------HHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHH
Confidence                                 000111122234455666666666555321   1 111113455666666666666666


Q ss_pred             HHHHcCCCC---CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC----------CCCC---hHHHHHHHHHHhhcCCHH
Q 048281          435 CMCEAKLKP---DEVTFVGVLSACSHSGFLSQGREFLPLMESRYG----------VVPT---IEHYTCVIDMLGRAGQLN  498 (660)
Q Consensus       435 ~m~~~g~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~  498 (660)
                      ++.......   .......+..++...|++++|.++++.+.+...          -.|+   ...+..+...+...|+++
T Consensus       297 ~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~  376 (765)
T PRK10049        297 ELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLP  376 (765)
T ss_pred             HHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHH
Confidence            655432110   012344444455666666666666666654210          0122   123455666667777777


Q ss_pred             HHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          499 EAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       499 ~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +|++.++++..  +.+...+..++..+...|+.++|++.++++++++|+++..+..++..+...|++++|..+++.+.+.
T Consensus       377 eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        377 QAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            77777776543  3455667777777777777777777777777777777777777777777777777777777776553

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=7.1e-18  Score=173.00  Aligned_cols=289  Identities=13%  Similarity=0.063  Sum_probs=196.3

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCC---chHHHHHHHHHHcCCCH
Q 048281          210 YAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSG---VPVMNALIDMYGKGKCV  286 (660)
Q Consensus       210 ~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~~~~~~  286 (660)
                      +...|++++|+..|.++.+.+. .+..++..+...+...|+++.|..+++.+.+.+..++   ...+..++..|.+.|++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            3455566666666666655321 1223444455555555555555555555444321111   13455566666666666


Q ss_pred             HHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHH
Q 048281          287 GEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIV  363 (660)
Q Consensus       287 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  363 (660)
                      ++|..+|+++.+   .+..+++.++..+.+.|++++|.+.++.+.+.+..+.....                        
T Consensus       124 ~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~------------------------  179 (389)
T PRK11788        124 DRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEI------------------------  179 (389)
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHH------------------------
Confidence            667666666654   24455666666666666666666666666654322211100                        


Q ss_pred             HhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048281          364 VNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAK  440 (660)
Q Consensus       364 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  440 (660)
                                     ...+..+...+.+.|++++|...|+++.+   .+...+..++..+.+.|++++|.++|+++.+.+
T Consensus       180 ---------------~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  244 (389)
T PRK11788        180 ---------------AHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQD  244 (389)
T ss_pred             ---------------HHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence                           23445667777888888888888887652   245678888899999999999999999998764


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHH
Q 048281          441 LKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTL  519 (660)
Q Consensus       441 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l  519 (660)
                      ......++..+..+|...|++++|...++.+.+.   .|+...+..++..+.+.|++++|..+++++.. .|+...++.+
T Consensus       245 p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l  321 (389)
T PRK11788        245 PEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE---YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRL  321 (389)
T ss_pred             hhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            2223456788889999999999999999998763   46667778899999999999999999987654 6888889988


Q ss_pred             HHHHHH---cCChHHHHHHHHHHHh
Q 048281          520 LAASRL---HGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       520 ~~~~~~---~g~~~~A~~~~~~~~~  541 (660)
                      +..+..   .|+.+++...++++++
T Consensus       322 ~~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        322 LDYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             HHHhhhccCCccchhHHHHHHHHHH
Confidence            887765   5688899988888876

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=6.2e-17  Score=174.06  Aligned_cols=352  Identities=11%  Similarity=-0.028  Sum_probs=259.8

Q ss_pred             hcCChHHHHHHHccCCCC------CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhH
Q 048281          181 KCQFMEEALKVFEELPLR------DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNG  254 (660)
Q Consensus       181 ~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a  254 (660)
                      +..+++.-.-.|...++.      +......++..+.+.|++++|+.+++........+ ...+..+..+....|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHH
Confidence            344444444444444321      23334556677788888888888888887764333 33444455666678888888


Q ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcC
Q 048281          255 RVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE--K-DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAG  331 (660)
Q Consensus       255 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  331 (660)
                      ...++.+.+.. +.+...+..+...+.+.|++++|...+++..+  | +...+..+...+...|++++|...++.+....
T Consensus        96 ~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~  174 (656)
T PRK15174         96 LQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV  174 (656)
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC
Confidence            88888887764 34556777888888899999999999888765  3 55678888888999999999999998887653


Q ss_pred             CCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---C
Q 048281          332 FQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---K  408 (660)
Q Consensus       332 ~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~  408 (660)
                        |+.......+..+...|++++|...++.+........        ......+...+.+.|++++|...|++...   .
T Consensus       175 --P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~--------~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~  244 (656)
T PRK15174        175 --PPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALER--------QESAGLAVDTLCAVGKYQEAIQTGESALARGLD  244 (656)
T ss_pred             --CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcc--------hhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence              3322222223346778999999998888776643332        44455667788899999999999988763   3


Q ss_pred             CHhHHHHHHHHHHhcCChHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHH
Q 048281          409 DVASWNIMILGYGMDGQGKE----ALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHY  484 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  484 (660)
                      +...+..+...+...|++++    |+..|++..+.. +.+...+..+...+...|++++|...++.+.+.  .+.+...+
T Consensus       245 ~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~  321 (656)
T PRK15174        245 GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVR  321 (656)
T ss_pred             CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence            56788889999999999885    899999998853 334567888888999999999999999998872  33445677


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHH-HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          485 TCVIDMLGRAGQLNEAYELALAMPN-EANPVV-WRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       485 ~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      ..+..+|.+.|++++|...++++.. .|+... +..+..++...|+.++|+..|+++++..|++.
T Consensus       322 ~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        322 AMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            8889999999999999999988764 455433 44456788999999999999999999998864

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

Probab=99.82  E-value=4.4e-16  Score=160.00  Aligned_cols=522  Identities=13%  Similarity=0.045  Sum_probs=378.7

Q ss_pred             HHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHc---CCChhHHHHHHcc--CCCCCCcccHHHHHHHHHcCCC
Q 048281           40 QLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSK---CCQMKYALFVFNN--LSCEPNVFTYNAMISGFYSNDF  114 (660)
Q Consensus        40 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~---~g~~~~A~~~~~~--~~~~~~~~~~~~li~~~~~~~~  114 (660)
                      ..+...++.+.|...|.+.+.... -++.++-.|--.-..   ...+..+..++..  ....-|++..+.|-.-|.-.|+
T Consensus       207 ~Cf~kl~~~~~a~~a~~ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~d  285 (1018)
T KOG2002|consen  207 HCFWKLGMSEKALLAFERALQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKD  285 (1018)
T ss_pred             hHHHhccchhhHHHHHHHHHhcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhccc
Confidence            334677889999999999888653 122222222211111   2345555666552  1345678889999999999999


Q ss_pred             hhHHHHHHHHHHHCCCC--CCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHH
Q 048281          115 AFKGLDFFNHMRQLGVL--PDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVF  192 (660)
Q Consensus       115 ~~~a~~~~~~m~~~~~~--p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  192 (660)
                      +..++.+...+......  .-...|..+.+++-..|++++|..+|.+..+....--...+--|..+|.+.|+++.+...|
T Consensus       286 y~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~f  365 (1018)
T KOG2002|consen  286 YERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCF  365 (1018)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHH
Confidence            99999999999875311  1234588899999999999999999988877543222344456889999999999999999


Q ss_pred             ccCCCC---CchhHHHHHHHHHhCC----ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHH----
Q 048281          193 EELPLR---DVVLWNAMVNGYAQIG----EFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIV----  261 (660)
Q Consensus       193 ~~~~~~---~~~~~~~li~~~~~~~----~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~----  261 (660)
                      +.+...   +..+...|...|...+    ..+.|..++.+..+.- +.|...|..+...+-...-+.. ..++..+    
T Consensus       366 Ekv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L  443 (1018)
T KOG2002|consen  366 EKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDIL  443 (1018)
T ss_pred             HHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHH
Confidence            998643   4556666666666664    4567777777766542 3456677766666665544443 6666544    


Q ss_pred             HHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCC-------Ch------hhHHHHHHHHHHcCChHHHHHHHHHHh
Q 048281          262 VKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEK-------DI------FSWNSIMTVHEQCGNHDGTLRLFDRML  328 (660)
Q Consensus       262 ~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-------~~------~~~~~li~~~~~~g~~~~a~~~~~~m~  328 (660)
                      ...+-.+.+.+.|.+...+...|++++|...|......       +.      ..-..+...+-..++++.|.+.|..+.
T Consensus       444 ~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Il  523 (1018)
T KOG2002|consen  444 ESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSIL  523 (1018)
T ss_pred             HHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            45566688889999999999999999999999876432       22      123345566666789999999999999


Q ss_pred             hcCCCCCHH-HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC-
Q 048281          329 SAGFQPDLV-TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS-  406 (660)
Q Consensus       329 ~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-  406 (660)
                      +.  .|.-. .|..+....-..+....|...+..+....-..         +.+++.+.+.|.+...+..|.+-|..+. 
T Consensus       524 ke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~n---------p~arsl~G~~~l~k~~~~~a~k~f~~i~~  592 (1018)
T KOG2002|consen  524 KE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSN---------PNARSLLGNLHLKKSEWKPAKKKFETILK  592 (1018)
T ss_pred             HH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCC---------cHHHHHHHHHHHhhhhhcccccHHHHHHh
Confidence            76  56654 33333323334567788888888776654433         6788888889999999988888666554 


Q ss_pred             ----CCCHhHHHHHHHHHHh------------cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048281          407 ----KKDVASWNIMILGYGM------------DGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPL  470 (660)
Q Consensus       407 ----~~~~~~~~~li~~~~~------------~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  470 (660)
                          .+|..+.-+|.+.|.+            .+..++|+++|.+.+... +-|...-+.+.-.++..|++..|..+|.+
T Consensus       593 ~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsq  671 (1018)
T KOG2002|consen  593 KTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQ  671 (1018)
T ss_pred             hhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHH
Confidence                2355555555554432            345788999999998864 44667777777889999999999999999


Q ss_pred             hHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          471 MESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN----EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       471 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      +.+.  ......+|-.+.++|..+|++-.|+++|+....    +.++.+...|..++...|.+.+|.+.+..++.+.|.+
T Consensus       672 VrEa--~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~  749 (1018)
T KOG2002|consen  672 VREA--TSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSN  749 (1018)
T ss_pred             HHHH--HhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCcc
Confidence            9984  334456889999999999999999999987533    4678899999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHh-------------------CCChHHHHHHHHHHHhCCC
Q 048281          547 CGNYVLMSNIYVA-------------------GGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       547 ~~~~~~l~~~~~~-------------------~g~~~~a~~~~~~~~~~~~  578 (660)
                      +.....++-+..+                   .+..++|.++|..+...+-
T Consensus       750 ~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d  800 (1018)
T KOG2002|consen  750 TSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGD  800 (1018)
T ss_pred             chHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            8877766655443                   2467788888888866543

>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=99.82  E-value=5.4e-16  Score=167.53  Aligned_cols=421  Identities=11%  Similarity=-0.056  Sum_probs=293.8

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHh
Q 048281          102 YNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLK  181 (660)
Q Consensus       102 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  181 (660)
                      +......+.+.|++++|+..|++..+  +.|+...|..+..++.+.|++++|...++..++... .+...+..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHH
Confidence            34566788899999999999999886  467888899999999999999999999999988642 345688889999999


Q ss_pred             cCChHHHHHHHccCCCC---CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHH
Q 048281          182 CQFMEEALKVFEELPLR---DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVH  258 (660)
Q Consensus       182 ~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~  258 (660)
                      .|++++|...|......   +......++..+..    ..+........+.. +++...+..+.. +...........-+
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~  280 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGL  280 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhh
Confidence            99999999877654321   11111122221111    22233333333221 122122222222 21111111111111


Q ss_pred             HHHHHhCCCCCc-hHHHHHHHH---HHcCCCHHHHHHHHHhcCCC------ChhhHHHHHHHHHHcCChHHHHHHHHHHh
Q 048281          259 GIVVKMGYDSGV-PVMNALIDM---YGKGKCVGEALEIFEMMEEK------DIFSWNSIMTVHEQCGNHDGTLRLFDRML  328 (660)
Q Consensus       259 ~~~~~~g~~~~~-~~~~~li~~---~~~~~~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~  328 (660)
                      ....+  ..+.. ..+..+...   ....+.+++|.+.|+...+.      ....|+.+...+...|++++|+..|++..
T Consensus       281 ~~~~~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal  358 (615)
T TIGR00990       281 EDSNE--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSI  358 (615)
T ss_pred             hcccc--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            11000  11111 111111111   12346789999999887642      34568888889999999999999999988


Q ss_pred             hcCCCCC-HHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 048281          329 SAGFQPD-LVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK  407 (660)
Q Consensus       329 ~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  407 (660)
                      +.  .|+ ...|..+...+...|+++.|...++.++......         ..++..+...|...|++++|...|++...
T Consensus       359 ~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~---------~~~~~~lg~~~~~~g~~~~A~~~~~kal~  427 (615)
T TIGR00990       359 EL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSED---------PDIYYHRAQLHFIKGEFAQAGKDYQKSID  427 (615)
T ss_pred             Hc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC---------HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            75  455 4477777788889999999999999998775433         77899999999999999999999998763


Q ss_pred             ---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh---
Q 048281          408 ---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI---  481 (660)
Q Consensus       408 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---  481 (660)
                         .+...|..+...+.+.|++++|+..|++.+... +.+...+..+...+...|++++|...|+...+. .-..+.   
T Consensus       428 l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l-~p~~~~~~~  505 (615)
T TIGR00990       428 LDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL-EKETKPMYM  505 (615)
T ss_pred             cCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc-CCccccccc
Confidence               356788889999999999999999999998752 335678888889999999999999999998762 211111   


Q ss_pred             ---HHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          482 ---EHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       482 ---~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                         ..++.....+...|++++|.+++++...  +.+...+..++..+...|++++|+..|+++.++.+..
T Consensus       506 ~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~  575 (615)
T TIGR00990       506 NVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTE  575 (615)
T ss_pred             cHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccH
Confidence               1122223334457999999999998533  3445678999999999999999999999999987654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=1.8e-16  Score=170.53  Aligned_cols=327  Identities=11%  Similarity=-0.045  Sum_probs=268.6

Q ss_pred             hhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC--C-ChhhHHHHHHHH
Q 048281          235 RFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE--K-DIFSWNSIMTVH  311 (660)
Q Consensus       235 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~li~~~  311 (660)
                      ......++..+.+.|+++.|..++.........+ ...+..++.++...|++++|...|+++.+  | +...|..+...+
T Consensus        42 ~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l  120 (656)
T PRK15174         42 EQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVL  120 (656)
T ss_pred             ccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            3445667888899999999999999998886444 44455556777789999999999999875  3 556788899999


Q ss_pred             HHcCChHHHHHHHHHHhhcCCCCC-HHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHH
Q 048281          312 EQCGNHDGTLRLFDRMLSAGFQPD-LVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYT  390 (660)
Q Consensus       312 ~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  390 (660)
                      .+.|++++|...+++..+.  .|+ ...+..+...+...|+++.|...+..+......+         ...+..+. .+.
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~---------~~a~~~~~-~l~  188 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR---------GDMIATCL-SFL  188 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC---------HHHHHHHH-HHH
Confidence            9999999999999999875  454 4567778888999999999999999887776554         33443343 478


Q ss_pred             hcCCHHHHHHHHhcCCCC----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH---
Q 048281          391 KCGSMRDAQMVFTKMSKK----DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQ---  463 (660)
Q Consensus       391 ~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~---  463 (660)
                      ..|++++|...++.+.+.    +...+..+...+.+.|++++|+..++++.+.. +.+...+..+...+...|++++   
T Consensus       189 ~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~  267 (656)
T PRK15174        189 NKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKL  267 (656)
T ss_pred             HcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHH
Confidence            899999999999987642    33345556778899999999999999999864 3356677778889999999985   


Q ss_pred             -HHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 048281          464 -GREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVF  540 (660)
Q Consensus       464 -a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  540 (660)
                       |...++.+.+  ..+.+...+..+...+.+.|++++|...+++...  +.+...+..+..++...|++++|+..+++++
T Consensus       268 ~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al  345 (656)
T PRK15174        268 QAAEHWRHALQ--FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLA  345 (656)
T ss_pred             HHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence             8999999986  3344668899999999999999999999998654  4456788889999999999999999999999


Q ss_pred             hcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          541 QLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       541 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      +..|+++..+..++.++...|++++|...+++..+..
T Consensus       346 ~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        346 REKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9999987767778899999999999999999987654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.80  E-value=2.9e-15  Score=161.31  Aligned_cols=435  Identities=11%  Similarity=0.002  Sum_probs=272.9

Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCc--ccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChH
Q 048281          109 FYSNDFAFKGLDFFNHMRQLGVLPDK--YTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFME  186 (660)
Q Consensus       109 ~~~~~~~~~a~~~~~~m~~~~~~p~~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  186 (660)
                      ..++|++..|+..|++..+.  .|+.  ..+ .++..+...|+.++|..++++.... -.........+...|...|+++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHH
Confidence            45667777777777777654  3332  233 6666666667777777777766511 0111222222344666667777


Q ss_pred             HHHHHHccCCCC---CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHH
Q 048281          187 EALKVFEELPLR---DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVK  263 (660)
Q Consensus       187 ~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  263 (660)
                      +|.++|+++.+.   +...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|.+.++++.+
T Consensus       120 ~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        120 QALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            777777766532   4455556666667777777777777776553  34444443333333334444446666666666


Q ss_pred             hCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCC-ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHH
Q 048281          264 MGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEK-DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTV  342 (660)
Q Consensus       264 ~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  342 (660)
                      .. +.+...+..+..++.+.|-...|.++..+-+.- +...+.-+        +.+.|.    ++++.+..|+..     
T Consensus       198 ~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l--------~~~~~a----~~vr~a~~~~~~-----  259 (822)
T PRK14574        198 LA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQL--------ERDAAA----EQVRMAVLPTRS-----  259 (822)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHH--------HHHHHH----HHHhhccccccc-----
Confidence            54 334555566666666666666666665553320 00000000        001111    111111111100     


Q ss_pred             HHHHhcccc---hHHHHHHHHHHHHh-CccCCCCCCCCcc-hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC----HhHH
Q 048281          343 LPACSHLAA---LMHGRQIHGYIVVN-GLAKNGSCKDIDD-VFMNNALMDMYTKCGSMRDAQMVFTKMSKKD----VASW  413 (660)
Q Consensus       343 l~~~~~~~~---~~~a~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~  413 (660)
                           ...+   .+.+..-++.+... +..|.    ..+. ..+.--.+-++.+.|++.++++.|+.+..+.    ..+-
T Consensus       260 -----~~~r~~~~d~ala~~~~l~~~~~~~p~----~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~  330 (822)
T PRK14574        260 -----ETERFDIADKALADYQNLLTRWGKDPE----AQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYAR  330 (822)
T ss_pred             -----chhhHHHHHHHHHHHHHHHhhccCCCc----cchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHH
Confidence                 0111   23344444444332 11111    0000 1122233456778999999999999998432    2355


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC----------CC
Q 048281          414 NIMILGYGMDGQGKEALDMFSCMCEAK-----LKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYG----------VV  478 (660)
Q Consensus       414 ~~li~~~~~~g~~~~A~~~~~~m~~~g-----~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----------~~  478 (660)
                      ..+..+|...+++++|+.+|+++....     ..++......|.-++...+++++|..+++.+.+...          -.
T Consensus       331 ~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~  410 (822)
T PRK14574        331 RWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKE  410 (822)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCC
Confidence            678899999999999999999997643     122333457788899999999999999999987211          01


Q ss_pred             CCh---HHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          479 PTI---EHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       479 ~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      |+.   ..+..++..+...|++.+|++.++++..  +.|...+..+...+...|+...|++.++.+..++|++..+....
T Consensus       411 pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~  490 (822)
T PRK14574        411 PNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQ  490 (822)
T ss_pred             CCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHH
Confidence            222   3455678888999999999999999754  67888999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCChHHHHHHHHHHHhC
Q 048281          554 SNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       554 ~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +.++...|+|.+|..+.+.+.+.
T Consensus       491 ~~~al~l~e~~~A~~~~~~l~~~  513 (822)
T PRK14574        491 AETAMALQEWHQMELLTDDVISR  513 (822)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhh
Confidence            99999999999999999887654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.79  E-value=5.5e-15  Score=162.65  Aligned_cols=412  Identities=10%  Similarity=-0.046  Sum_probs=275.0

Q ss_pred             CCCCCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccC--CCCCCcccH
Q 048281           25 TFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNL--SCEPNVFTY  102 (660)
Q Consensus        25 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~--~~~~~~~~~  102 (660)
                      ....|.++.-..-.+......|+.++|..++....... +.+...+..+..++.+.|++++|..+|++.  ..+.+...+
T Consensus         8 ~~~~~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~   86 (765)
T PRK10049          8 ALKSALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQ   86 (765)
T ss_pred             hhccCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            45667888888889999999999999999999887733 345567889999999999999999999952  334556678


Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhc
Q 048281          103 NAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKC  182 (660)
Q Consensus       103 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  182 (660)
                      ..+...+...|++++|+..+++..+... .+.. +..+..++...|+.++|...++++.+..+. +...+..+..++...
T Consensus        87 ~~la~~l~~~g~~~eA~~~l~~~l~~~P-~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~  163 (765)
T PRK10049         87 RGLILTLADAGQYDEALVKAKQLVSGAP-DKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNN  163 (765)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHC
Confidence            8888999999999999999999988632 2445 888888899999999999999999997543 455666778888889


Q ss_pred             CChHHHHHHHccCCCCCch--------hHHHHHHHHHh-----CCCh---hHHHHHHHHHHHC-CCCCChh-hHH----H
Q 048281          183 QFMEEALKVFEELPLRDVV--------LWNAMVNGYAQ-----IGEF---HKALEVFRRMSKE-GIWMSRF-TVT----G  240 (660)
Q Consensus       183 g~~~~A~~~~~~~~~~~~~--------~~~~li~~~~~-----~~~~---~~A~~~~~~m~~~-~~~p~~~-t~~----~  240 (660)
                      |..+.|...++.... ++.        ....++.....     .+++   ++|++.++.+.+. ...|+.. .+.    .
T Consensus       164 ~~~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d  242 (765)
T PRK10049        164 RLSAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARID  242 (765)
T ss_pred             CChHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHH
Confidence            999999999988775 211        12222222221     1233   6778888887753 2223221 111    1


Q ss_pred             HHHHHHccCCchhHHHHHHHHHHhCCC-CCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCC-------hhhHHHHHHHHH
Q 048281          241 VLSALIMMGFFKNGRVVHGIVVKMGYD-SGVPVMNALIDMYGKGKCVGEALEIFEMMEEKD-------IFSWNSIMTVHE  312 (660)
Q Consensus       241 ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-------~~~~~~li~~~~  312 (660)
                      .+.++...|+.++|...|+.+.+.+.. |+. ....+...|...|++++|+..|+++.+.+       ...+..+..++.
T Consensus       243 ~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~  321 (765)
T PRK10049        243 RLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLL  321 (765)
T ss_pred             HHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHH
Confidence            133445557777777777777766522 221 22224566777777777777777664422       123444555666


Q ss_pred             HcCChHHHHHHHHHHhhcCCCCCHH-HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh
Q 048281          313 QCGNHDGTLRLFDRMLSAGFQPDLV-TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK  391 (660)
Q Consensus       313 ~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~  391 (660)
                      ..|++++|..+++.+.+.  .|... .+...                       ...|+     ......+..+...+..
T Consensus       322 ~~g~~~eA~~~l~~~~~~--~P~~~~~~~~~-----------------------~~~p~-----~~~~~a~~~~a~~l~~  371 (765)
T PRK10049        322 ESENYPGALTVTAHTINN--SPPFLRLYGSP-----------------------TSIPN-----DDWLQGQSLLSQVAKY  371 (765)
T ss_pred             hcccHHHHHHHHHHHhhc--CCceEeecCCC-----------------------CCCCC-----chHHHHHHHHHHHHHH
Confidence            777777777777776654  22111 00000                       00000     0002344556667777


Q ss_pred             cCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHH
Q 048281          392 CGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD-EVTFVGVLSACSHSGFLSQGREF  467 (660)
Q Consensus       392 ~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~  467 (660)
                      .|+.++|+++++++.   ..+...+..+...+...|++++|++.+++....  .|+ ...+......+...|++++|..+
T Consensus       372 ~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~  449 (765)
T PRK10049        372 SNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVL  449 (765)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            777777777777765   235667777777888888888888888877774  455 34445555567777888888888


Q ss_pred             HHHhHHh
Q 048281          468 LPLMESR  474 (660)
Q Consensus       468 ~~~~~~~  474 (660)
                      ++.+++.
T Consensus       450 ~~~ll~~  456 (765)
T PRK10049        450 TDDVVAR  456 (765)
T ss_pred             HHHHHHh
Confidence            8888764

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=1.6e-14  Score=135.21  Aligned_cols=427  Identities=12%  Similarity=0.080  Sum_probs=265.7

Q ss_pred             CCCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHc--CCChhHHHHH-H-c-----c-----
Q 048281           27 NHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSK--CCQMKYALFV-F-N-----N-----   92 (660)
Q Consensus        27 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~--~g~~~~A~~~-~-~-----~-----   92 (660)
                      -.|.+..+=+.|++ ....|.++.+.-+++.|...|.+.+..+--.|+...+-  ..++.-|+.- | .     +     
T Consensus       111 ~~~~~V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~s  189 (625)
T KOG4422|consen  111 ADPLQVETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSS  189 (625)
T ss_pred             CCchhhcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccc
Confidence            34556666677766 45678899999999999999998888888877765443  3333322211 1 1     0     


Q ss_pred             -----------CCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHH
Q 048281           93 -----------LSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVF  161 (660)
Q Consensus        93 -----------~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  161 (660)
                                 ...+.+..+|.+||.++++--..+.|.++|++......+.+..+||.+|.+..-.    ..+++..+|.
T Consensus       190 WK~G~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMi  265 (625)
T KOG4422|consen  190 WKSGAVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMI  265 (625)
T ss_pred             cccccHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHH
Confidence                       1123455678888888888877888888888887777777888888887765433    3377778888


Q ss_pred             HhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHH
Q 048281          162 KLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGV  241 (660)
Q Consensus       162 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~l  241 (660)
                      .....||..|+|+++++..+.|+++.|..                           .|++++.+|++-|+.|...+|..+
T Consensus       266 sqkm~Pnl~TfNalL~c~akfg~F~~ar~---------------------------aalqil~EmKeiGVePsLsSyh~i  318 (625)
T KOG4422|consen  266 SQKMTPNLFTFNALLSCAAKFGKFEDARK---------------------------AALQILGEMKEIGVEPSLSSYHLI  318 (625)
T ss_pred             HhhcCCchHhHHHHHHHHHHhcchHHHHH---------------------------HHHHHHHHHHHhCCCcchhhHHHH
Confidence            88788888888888888888887777664                           356777777788888888888877


Q ss_pred             HHHHHccCCchh-HHHHHHHHHHh----CCCC----CchHHHHHHHHHHcCCCHHHHHHHHHhcCCC-----------Ch
Q 048281          242 LSALIMMGFFKN-GRVVHGIVVKM----GYDS----GVPVMNALIDMYGKGKCVGEALEIFEMMEEK-----------DI  301 (660)
Q Consensus       242 l~~~~~~~~~~~-a~~~~~~~~~~----g~~~----~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----------~~  301 (660)
                      |..+.+.++..+ +..+...+...    .++|    |...+..-+..|.+..+.+-|.++-.-+...           ..
T Consensus       319 ik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~  398 (625)
T KOG4422|consen  319 IKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRN  398 (625)
T ss_pred             HHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHH
Confidence            777777766644 23333333221    1222    3334455566666777777776665544321           12


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhH
Q 048281          302 FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFM  381 (660)
Q Consensus       302 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  381 (660)
                      .-|..+....|+....+.-..+|+.|.-.-+-|+..+...++++..-.+.++-..+++..++..|....        ..+
T Consensus       399 fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r--------~~l  470 (625)
T KOG4422|consen  399 FYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFR--------SDL  470 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhh--------HHH
Confidence            346667788888888999999999999888889999999999999999999999999988888776554        333


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCCHh---HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSKKDVA---SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS  458 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  458 (660)
                      ..-++..+++..-            .|+..   -+.....-++ ..-.+.....-.+|.+..+.|  ...+.++-.+.+.
T Consensus       471 ~eeil~~L~~~k~------------hp~tp~r~Ql~~~~ak~a-ad~~e~~e~~~~R~r~~~~~~--t~l~~ia~Ll~R~  535 (625)
T KOG4422|consen  471 REEILMLLARDKL------------HPLTPEREQLQVAFAKCA-ADIKEAYESQPIRQRAQDWPA--TSLNCIAILLLRA  535 (625)
T ss_pred             HHHHHHHHhcCCC------------CCCChHHHHHHHHHHHHH-HHHHHHHHhhHHHHHhccCCh--hHHHHHHHHHHHc
Confidence            3223333332210            11111   1111111000 001111122223344433333  3344444556667


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHH---HHHHHHhhcCCHHHHHHHHHhCC
Q 048281          459 GFLSQGREFLPLMESRYGVVPTIEHYT---CVIDMLGRAGQLNEAYELALAMP  508 (660)
Q Consensus       459 g~~~~a~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~g~~~~A~~~~~~~~  508 (660)
                      |..++|.+++..+.++.+-.|.....+   -+++.-.+..+.-.|...++-|.
T Consensus       536 G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~  588 (625)
T KOG4422|consen  536 GRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLAS  588 (625)
T ss_pred             chHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            777777777777655433334444444   33444455666666666666653

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.79  E-value=1e-14  Score=157.15  Aligned_cols=440  Identities=11%  Similarity=-0.002  Sum_probs=309.0

Q ss_pred             HHhHcCCChhHHHHHHccCC-CCCCcc-cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCccc-HHHH--HHHHhhhCC
Q 048281           75 NMYSKCCQMKYALFVFNNLS-CEPNVF-TYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYT-FPCL--IKCCCDVMA  149 (660)
Q Consensus        75 ~~~~~~g~~~~A~~~~~~~~-~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t-~~~l--l~~~~~~~~  149 (660)
                      -...+.|+++.|+..|++.. ..|+.. ....++..+...|+.++|+..+++..    .|+... +..+  ...+...|+
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gd  117 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKR  117 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCC
Confidence            34568899999999999532 334432 23388899999999999999999987    343333 3333  456778899


Q ss_pred             HHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHh--CCChhHHHHHHHHHH
Q 048281          150 VLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQ--IGEFHKALEVFRRMS  227 (660)
Q Consensus       150 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~--~~~~~~A~~~~~~m~  227 (660)
                      +++|.++++.+.+..+. +...+..++..|...++.++|+..++++...+......+..++..  .++..+|++.++++.
T Consensus       118 yd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        118 WDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             HHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            99999999999997643 466777888999999999999999999986544433334444444  566666999999999


Q ss_pred             HCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHH
Q 048281          228 KEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSI  307 (660)
Q Consensus       228 ~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l  307 (660)
                      +.. +-+...+.....++.+.|-...|.++...      .|+..+-......     +.+.|.+..+.-..++..-    
T Consensus       197 ~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~------~p~~f~~~~~~~l-----~~~~~a~~vr~a~~~~~~~----  260 (822)
T PRK14574        197 RLA-PTSEEVLKNHLEILQRNRIVEPALRLAKE------NPNLVSAEHYRQL-----ERDAAAEQVRMAVLPTRSE----  260 (822)
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHh------CccccCHHHHHHH-----HHHHHHHHHhhcccccccc----
Confidence            863 23455678888899999998888877554      2332221111110     1222222222211110000    


Q ss_pred             HHHHHHcCChHHHHHHHHHHhhc-CCCCCH-HH----HHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhH
Q 048281          308 MTVHEQCGNHDGTLRLFDRMLSA-GFQPDL-VT----FSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFM  381 (660)
Q Consensus       308 i~~~~~~g~~~~a~~~~~~m~~~-g~~p~~-~t----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  381 (660)
                      -.   +---.+.|+.-++.+... +-.|.. ..    ..--+-++...++...+.+.++.+...+.+..        ..+
T Consensus       261 ~~---r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P--------~y~  329 (822)
T PRK14574        261 TE---RFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMP--------DYA  329 (822)
T ss_pred             hh---hHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCC--------HHH
Confidence            00   000124455555555431 222322 11    22334567778888888888888888776544        778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCC---------CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----------
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSKK---------DVASWNIMILGYGMDGQGKEALDMFSCMCEAKL-----------  441 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----------  441 (660)
                      ..++.++|...+++++|+.+|..+...         +......|.-+|...+++++|..+++++.+...           
T Consensus       330 ~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~  409 (822)
T PRK14574        330 RRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGK  409 (822)
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCC
Confidence            888899999999999999999887431         223346788899999999999999999987311           


Q ss_pred             CCCH--H-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHH
Q 048281          442 KPDE--V-TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVW  516 (660)
Q Consensus       442 ~p~~--~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~  516 (660)
                      .||+  . .+..++..+...|++.+|++.++++..  .-+-|......+.+.+...|.+.+|++.++....  +.+..+.
T Consensus       410 ~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~  487 (822)
T PRK14574        410 EPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILE  487 (822)
T ss_pred             CCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHH
Confidence            1222  2 234456678899999999999999976  5677889999999999999999999999987544  4456677


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc
Q 048281          517 RTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       517 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                      ...+.++...+++++|..+.+.+++..|+++.
T Consensus       488 ~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~  519 (822)
T PRK14574        488 RAQAETAMALQEWHQMELLTDDVISRSPEDIP  519 (822)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHhhCCCchh
Confidence            78888999999999999999999999999874

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

Probab=99.75  E-value=4.1e-15  Score=139.87  Aligned_cols=272  Identities=13%  Similarity=0.033  Sum_probs=205.6

Q ss_pred             HHHHcCCCHHHHHHHHHhcCCCChhhHHH----HHH-HHHH-cCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccc
Q 048281          278 DMYGKGKCVGEALEIFEMMEEKDIFSWNS----IMT-VHEQ-CGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAA  351 (660)
Q Consensus       278 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~----li~-~~~~-~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~  351 (660)
                      .-|.+.|+++.|+++++-..++|..+-.+    |-. -|.+ -.++..|.++-+...... +-+......--......|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            45778899999999888887665433222    211 2222 235666666655544321 1122111111122335689


Q ss_pred             hHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHH
Q 048281          352 LMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKE  428 (660)
Q Consensus       352 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~  428 (660)
                      +++|.+.+.+.+......         ......+.-.+-+.|++++|++.|-++.   ..++...-.+...|-...+..+
T Consensus       506 ~dka~~~ykeal~ndasc---------~ealfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aq  576 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASC---------TEALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQ  576 (840)
T ss_pred             HHHHHHHHHHHHcCchHH---------HHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHH
Confidence            999999999988776555         3344445667788999999999998765   4577777788889999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 048281          429 ALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMP  508 (660)
Q Consensus       429 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  508 (660)
                      |++++.+.... ++.|+..+.-|...|-+.|+-.+|.+.+-+--+  -++.+..+...|..-|....-+++|+.+|++..
T Consensus       577 aie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaa  653 (840)
T KOG2003|consen  577 AIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA  653 (840)
T ss_pred             HHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            99999887764 566778888899999999999999998877655  566788999999999999999999999999864


Q ss_pred             C-CCCHHHHHHHHHHH-HHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCC
Q 048281          509 N-EANPVVWRTLLAAS-RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGK  562 (660)
Q Consensus       509 ~-~~~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  562 (660)
                      . +|+.+-|..++..| ++.|++.+|..+|+......|.+...+..|.+++...|.
T Consensus       654 liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  654 LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            4 89999999988755 678999999999999999999999999999999988874

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.74  E-value=5.9e-14  Score=131.45  Aligned_cols=346  Identities=13%  Similarity=0.064  Sum_probs=255.0

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhC--CHHHH-HHHHHHHHHhCCCCChhHHHH
Q 048281           98 NVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVM--AVLEV-KKIHGLVFKLGLDLDVYIGSA  174 (660)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~--~~~~a-~~~~~~~~~~g~~~~~~~~~~  174 (660)
                      .+.+=|.|+.. ..+|....+.-+|+.|.+.|+..+...--.|++..+-.+  ++--+ .+.|-.|.+.|-+. ..+|  
T Consensus       115 ~V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S-~~sW--  190 (625)
T KOG4422|consen  115 QVETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDS-TSSW--  190 (625)
T ss_pred             hhcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccc-cccc--
Confidence            34456666664 566788999999999999998777766556655533222  22211 22333444444322 2222  


Q ss_pred             HHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhH
Q 048281          175 LVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNG  254 (660)
Q Consensus       175 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a  254 (660)
                            +.|.+.+   ++-+...+...+|.+||.++++--..+.|.+++++-.....+.+..+||.+|.+.+-.    ..
T Consensus       191 ------K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~  257 (625)
T KOG4422|consen  191 ------KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VG  257 (625)
T ss_pred             ------ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----cc
Confidence                  4455544   4445555677899999999999999999999999999998999999999999876543    33


Q ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCC
Q 048281          255 RVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQP  334 (660)
Q Consensus       255 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  334 (660)
                      +++..+|....+.||..|+|+++++..+.|+++.|.+.                           |++++.+|++.|+.|
T Consensus       258 K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~a---------------------------alqil~EmKeiGVeP  310 (625)
T KOG4422|consen  258 KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKA---------------------------ALQILGEMKEIGVEP  310 (625)
T ss_pred             HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHH---------------------------HHHHHHHHHHhCCCc
Confidence            88999999999999999999999999999998877754                           577889999999999


Q ss_pred             CHHHHHHHHHHHhcccchHHH-HHHHHHHHHh----CccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--
Q 048281          335 DLVTFSTVLPACSHLAALMHG-RQIHGYIVVN----GLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK--  407 (660)
Q Consensus       335 ~~~t~~~ll~~~~~~~~~~~a-~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--  407 (660)
                      ...+|..+|..+++.++..+. ..+...+...    .+.+.    .+.|...+...+..+.+..+.+-|.++-.-...  
T Consensus       311 sLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~----~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~  386 (625)
T KOG4422|consen  311 SLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPI----TPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGD  386 (625)
T ss_pred             chhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCC----CCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC
Confidence            999999999999998887553 3333333222    22221    223466777788888899999999887665441  


Q ss_pred             ------C---CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC
Q 048281          408 ------K---DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVV  478 (660)
Q Consensus       408 ------~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  478 (660)
                            +   ...-|..+....|+....+.-+.+|+.|+-.-+-|+..+...++++....|.++-.-+++..++. +|..
T Consensus       387 N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~-~ght  465 (625)
T KOG4422|consen  387 NWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKE-YGHT  465 (625)
T ss_pred             chhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHH-hhhh
Confidence                  1   22356677788888899999999999999888899999999999999999999999999999887 5655


Q ss_pred             CChHHHHHHHHHHh
Q 048281          479 PTIEHYTCVIDMLG  492 (660)
Q Consensus       479 ~~~~~~~~l~~~~~  492 (660)
                      .+.....-+...++
T Consensus       466 ~r~~l~eeil~~L~  479 (625)
T KOG4422|consen  466 FRSDLREEILMLLA  479 (625)
T ss_pred             hhHHHHHHHHHHHh
Confidence            44444433333333

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

Probab=99.71  E-value=4e-12  Score=130.57  Aligned_cols=534  Identities=11%  Similarity=0.061  Sum_probs=361.4

Q ss_pred             HHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHcc--CCCCCCcccHHHHHHHHHcCCChhH
Q 048281           40 QLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNN--LSCEPNVFTYNAMISGFYSNDFAFK  117 (660)
Q Consensus        40 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~~li~~~~~~~~~~~  117 (660)
                      ......|+++.|.+++..+++.. +.+...|-.|...|-..|+.+++...+--  ...+.|...|-.+-.-..+.|++.+
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~q  225 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQ  225 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHH
Confidence            33445599999999999999986 45778999999999999999999988751  3455566889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHH----HHHHhHhcCChHHHHHHHc
Q 048281          118 GLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSA----LVNTYLKCQFMEEALKVFE  193 (660)
Q Consensus       118 a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~----li~~~~~~g~~~~A~~~~~  193 (660)
                      |.-+|.+.++... ++...+---...|-+.|+...|..-+.++.....+.|..-...    .++.+...++-+.|.+.++
T Consensus       226 A~~cy~rAI~~~p-~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le  304 (895)
T KOG2076|consen  226 ARYCYSRAIQANP-SNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALE  304 (895)
T ss_pred             HHHHHHHHHhcCC-cchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999998742 3444445556778899999999999999998765434333333    3455667777799998888


Q ss_pred             cCCC-----CCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCh----------------------hhHH----HHH
Q 048281          194 ELPL-----RDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSR----------------------FTVT----GVL  242 (660)
Q Consensus       194 ~~~~-----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~----------------------~t~~----~ll  242 (660)
                      ....     -+...++.++..|.+...++.|......+......+|.                      ..|.    -++
T Consensus       305 ~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~  384 (895)
T KOG2076|consen  305 GALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLM  384 (895)
T ss_pred             HHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHh
Confidence            7654     25567899999999999999999999988762222221                      1111    223


Q ss_pred             HHHHccCCchhHHHHHHHHHHhCC--CCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC----CChhhHHHHHHHHHHcCC
Q 048281          243 SALIMMGFFKNGRVVHGIVVKMGY--DSGVPVMNALIDMYGKGKCVGEALEIFEMMEE----KDIFSWNSIMTVHEQCGN  316 (660)
Q Consensus       243 ~~~~~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~  316 (660)
                      -++.+....+....+.....+..+  .-++..|.-+..+|...|.+..|+.+|..+..    .+...|-.+...|...|.
T Consensus       385 icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e  464 (895)
T KOG2076|consen  385 ICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGE  464 (895)
T ss_pred             hhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhh
Confidence            344455666666667777777663  44566889999999999999999999999875    366789999999999999


Q ss_pred             hHHHHHHHHHHhhcCCCCCH-HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCH
Q 048281          317 HDGTLRLFDRMLSAGFQPDL-VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSM  395 (660)
Q Consensus       317 ~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  395 (660)
                      +++|.+.|+..+..  .|+. ..-.++-..+-+.|+.++|.+.+..+..-+...-..+...++..+.-...+.|.+.|+.
T Consensus       465 ~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~  542 (895)
T KOG2076|consen  465 YEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKR  542 (895)
T ss_pred             HHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhH
Confidence            99999999999875  5554 34445556678899999999998887632222123333344466666667777777776


Q ss_pred             HHHHHHHhcCC----------------------------------------CC-------------------------CH
Q 048281          396 RDAQMVFTKMS----------------------------------------KK-------------------------DV  410 (660)
Q Consensus       396 ~~A~~~~~~~~----------------------------------------~~-------------------------~~  410 (660)
                      ++=..+-..|.                                        .+                         ++
T Consensus       543 E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsi  622 (895)
T KOG2076|consen  543 EEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSI  622 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcH
Confidence            65332211110                                        00                         00


Q ss_pred             h----HHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCCH-H-HH-HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh
Q 048281          411 A----SWNIMILGYGMDGQGKEALDMFSCMCEAKL--KPDE-V-TF-VGVLSACSHSGFLSQGREFLPLMESRYGVVPTI  481 (660)
Q Consensus       411 ~----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~-~-~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  481 (660)
                      .    .+.-++.++++.+++++|+.+...+....+  .++. . .+ ...+.++...+++..|...++.+...++...++
T Consensus       623 ddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~  702 (895)
T KOG2076|consen  623 DDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDV  702 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhh
Confidence            1    134466788899999999999988886532  2222 1 22 334556778899999999999988753333322


Q ss_pred             ---HHHHHHHHHHhhc-----------------------------------CCHHHHHHHHHhCCC-CCCHHHHHHHH-H
Q 048281          482 ---EHYTCVIDMLGRA-----------------------------------GQLNEAYELALAMPN-EANPVVWRTLL-A  521 (660)
Q Consensus       482 ---~~~~~l~~~~~~~-----------------------------------g~~~~A~~~~~~~~~-~~~~~~~~~l~-~  521 (660)
                         ..|+...+...+.                                   +.+..|+..+-+.-. .|+.+..+.++ .
T Consensus       703 ~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lgl  782 (895)
T KOG2076|consen  703 YQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGL  782 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHH
Confidence               3344333322222                                   334444443322211 23322222111 1


Q ss_pred             HHH----------HcCChHHHHHHHHHHHhcCCC--CcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          522 ASR----------LHGNTDLAEIAAQRVFQLEPG--HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       522 ~~~----------~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ++.          ++-..-.++..+.+..++...  .-+++.+++++|-..|-..-|..+++++.+-.
T Consensus       783 afih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~  850 (895)
T KOG2076|consen  783 AFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVS  850 (895)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCC
Confidence            111          111233445555555444222  34678889999999999999999999987743

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

Probab=99.69  E-value=5.2e-12  Score=124.73  Aligned_cols=369  Identities=9%  Similarity=0.008  Sum_probs=289.2

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHH
Q 048281          201 VLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMY  280 (660)
Q Consensus       201 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  280 (660)
                      .+|+.-...|.+.+.++-|..+|...++. .+-+...|......--..|..+.-..+++.+...- +-....|.....-+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHH
Confidence            35666666677777777777777777653 22233445555555556677777777777776653 23344566667777


Q ss_pred             HcCCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHH
Q 048281          281 GKGKCVGEALEIFEMMEE--K-DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQ  357 (660)
Q Consensus       281 ~~~~~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  357 (660)
                      -..|++..|+.++.+.-+  | +...|-+-+..-..+.+++.|..+|.+....  .|+...|..-+..---.++.++|.+
T Consensus       595 w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~r  672 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALR  672 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHH
Confidence            788999999998887765  2 4567888888888999999999999988764  5666666655555556788899999


Q ss_pred             HHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-CHhHHHHHHHHHHhcCChHHHHHHHH
Q 048281          358 IHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK--K-DVASWNIMILGYGMDGQGKEALDMFS  434 (660)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~  434 (660)
                      +++..++.-...         ...|..+.+.+-+.++++.|.+.|..-.+  | .+..|-.+...--+.|+..+|..+|+
T Consensus       673 llEe~lk~fp~f---------~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ild  743 (913)
T KOG0495|consen  673 LLEEALKSFPDF---------HKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILD  743 (913)
T ss_pred             HHHHHHHhCCch---------HHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHH
Confidence            999888876655         67899999999999999999999987653  3 56688888888888889999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHH
Q 048281          435 CMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPV  514 (660)
Q Consensus       435 ~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  514 (660)
                      +..-.+ +-|...|...|..-.+.|+.+.|..++.++.+  ..+.+...|..-|.+..+-++-..+.+.+++..  .|+.
T Consensus       744 rarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dph  818 (913)
T KOG0495|consen  744 RARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPH  818 (913)
T ss_pred             HHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHHHHHHHhcc--CCch
Confidence            988764 45677888999999999999999999999988  577777888888988888888777777777765  4677


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCcEEEEEE
Q 048281          515 VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIEL  589 (660)
Q Consensus       515 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  589 (660)
                      +..++...+....++++|..-|.++++.+|++..+|..+-..+.+.|.-++-.+++.+....  .|..|..|..+
T Consensus       819 Vllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~--EP~hG~~W~av  891 (913)
T KOG0495|consen  819 VLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA--EPTHGELWQAV  891 (913)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCCCcHHHHH
Confidence            77788888889999999999999999999999999999999999999999999999887663  44556556543

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

Probab=99.65  E-value=9.6e-11  Score=115.98  Aligned_cols=463  Identities=11%  Similarity=0.051  Sum_probs=364.2

Q ss_pred             HHHHhHcCCChhHHHHHHcc--CCCCCCcccHHHHHHHHHcCCChhHHHHHHHH----HHHCCCCCCcccHHHHHHHHhh
Q 048281           73 LINMYSKCCQMKYALFVFNN--LSCEPNVFTYNAMISGFYSNDFAFKGLDFFNH----MRQLGVLPDKYTFPCLIKCCCD  146 (660)
Q Consensus        73 ll~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~----m~~~~~~p~~~t~~~ll~~~~~  146 (660)
                      |.-+|++...++.|..++++  ...+.+...|-+--..=-.+|+.+...++..+    +...|+..|...|-.=...|-+
T Consensus       412 LwlAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~  491 (913)
T KOG0495|consen  412 LWLALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACED  491 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhh
Confidence            34456666777888888874  23445666676655555667887777776655    4557888898899888889999


Q ss_pred             hCCHHHHHHHHHHHHHhCCCCC--hhHHHHHHHHhHhcCChHHHHHHHccCCC---CCchhHHHHHHHHHhCCChhHHHH
Q 048281          147 VMAVLEVKKIHGLVFKLGLDLD--VYIGSALVNTYLKCQFMEEALKVFEELPL---RDVVLWNAMVNGYAQIGEFHKALE  221 (660)
Q Consensus       147 ~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~  221 (660)
                      .|..-.+..+....+..|++-.  ..+|..-...|.+.+.++-|..+|....+   .+...|......--..|..+....
T Consensus       492 agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~A  571 (913)
T KOG0495|consen  492 AGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEA  571 (913)
T ss_pred             cCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHH
Confidence            9999999999999988887543  46888888899999999999999887664   366778887777777899999999


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC--C
Q 048281          222 VFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE--K  299 (660)
Q Consensus       222 ~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~  299 (660)
                      +|++.... ++-....+....+..-..|+...|..++..+.+... .+..+|-.-+..-....+++.|..+|.+...  +
T Consensus       572 llqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~p-nseeiwlaavKle~en~e~eraR~llakar~~sg  649 (913)
T KOG0495|consen  572 LLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANP-NSEEIWLAAVKLEFENDELERARDLLAKARSISG  649 (913)
T ss_pred             HHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHhccCC
Confidence            99999875 333444455555566677999999999999988763 3677898999999999999999999998765  5


Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHH-HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcc
Q 048281          300 DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLV-TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDD  378 (660)
Q Consensus       300 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  378 (660)
                      +...|.--+..---.++.++|++++++..+.  -|+-. .|..+-+.+.+.++.+.|...|..-.+.-+..         
T Consensus       650 TeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~---------  718 (913)
T KOG0495|consen  650 TERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNS---------  718 (913)
T ss_pred             cchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCC---------
Confidence            6667776666666779999999999998875  56654 56666677888888888888876544443322         


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      +..|-.|...--+.|.+-.|..+|++..   ..+...|-..|+.-.+.|+.+.|..++.+.++. ++.+...|..-|...
T Consensus       719 ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le  797 (913)
T KOG0495|consen  719 IPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLE  797 (913)
T ss_pred             chHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhc
Confidence            7789999999999999999999999876   347789999999999999999999999998876 455667788777777


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHHcCChHHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN-PVVWRTLLAASRLHGNTDLAE  533 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~  533 (660)
                      .+.++-......++.      ...|..+.-++..++....++++|.+.|.+... .|| -.+|.-+...+..+|.-+.-.
T Consensus       798 ~~~~rkTks~DALkk------ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~k  871 (913)
T KOG0495|consen  798 PRPQRKTKSIDALKK------CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQK  871 (913)
T ss_pred             cCcccchHHHHHHHh------ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHH
Confidence            777665554444443      445777888999999999999999999998654 344 468888999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHH
Q 048281          534 IAAQRVFQLEPGHCGNYVLMSN  555 (660)
Q Consensus       534 ~~~~~~~~~~p~~~~~~~~l~~  555 (660)
                      +++.+...-+|.+...|.....
T Consensus       872 ev~~~c~~~EP~hG~~W~avSK  893 (913)
T KOG0495|consen  872 EVLKKCETAEPTHGELWQAVSK  893 (913)
T ss_pred             HHHHHHhccCCCCCcHHHHHhh
Confidence            9999999999998777766554

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

Probab=99.61  E-value=1.1e-10  Score=120.11  Aligned_cols=349  Identities=11%  Similarity=0.006  Sum_probs=250.1

Q ss_pred             HcCCChhHHHHHHccCC--CCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHH
Q 048281           78 SKCCQMKYALFVFNNLS--CEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKK  155 (660)
Q Consensus        78 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~  155 (660)
                      .-.|++++|.+++.+.+  .+.+...|.+|...|-+.|+.+++...+-..-..... |...|..+.......|.+++|.-
T Consensus       150 farg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  150 FARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             HHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHhcccHHHHHH
Confidence            33499999999999633  4567788999999999999999999887665544322 66789999999999999999999


Q ss_pred             HHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCc----hhH----HHHHHHHHhCCChhHHHHHHHHHH
Q 048281          156 IHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDV----VLW----NAMVNGYAQIGEFHKALEVFRRMS  227 (660)
Q Consensus       156 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~~~----~~li~~~~~~~~~~~A~~~~~~m~  227 (660)
                      .|.+.++..+ ++....-.-...|-+.|+...|...|.++.+.+.    .-.    -..++.+...++-+.|++.+....
T Consensus       229 cy~rAI~~~p-~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  229 CYSRAIQANP-SNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHHHhcCC-cchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999853 4555555667888999999999998888765332    222    234566777777799999888876


Q ss_pred             HC-CCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHh---------------------------CCCCCchH-HHHHHH
Q 048281          228 KE-GIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKM---------------------------GYDSGVPV-MNALID  278 (660)
Q Consensus       228 ~~-~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------------------g~~~~~~~-~~~li~  278 (660)
                      .. +-..+...++.+...+.....++.+..........                           ++.++..+ ...+.-
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL  387 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICL  387 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhh
Confidence            62 23345556777777777777777776665555441                           22333334 222212


Q ss_pred             HHHcCCCHHHHHHHHHhcCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHH
Q 048281          279 MYGKGKCVGEALEIFEMMEE----KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMH  354 (660)
Q Consensus       279 ~~~~~~~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~  354 (660)
                      .-.+.+...+++..|-....    .++..|.-+..+|.+.|++.+|+.+|..+...-.--+...|..+...+...|..+.
T Consensus       388 ~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~  467 (895)
T KOG2076|consen  388 VHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEE  467 (895)
T ss_pred             hcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHH
Confidence            22233344444443333222    24456888999999999999999999999987555567788889999999999999


Q ss_pred             HHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCH------------hHHHHHHHHHHh
Q 048281          355 GRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDV------------ASWNIMILGYGM  422 (660)
Q Consensus       355 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~------------~~~~~li~~~~~  422 (660)
                      |.+.++.++...+..         ..+.-.|...|.+.|+.++|.+++..+..||.            ...-.....+.+
T Consensus       468 A~e~y~kvl~~~p~~---------~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~  538 (895)
T KOG2076|consen  468 AIEFYEKVLILAPDN---------LDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQ  538 (895)
T ss_pred             HHHHHHHHHhcCCCc---------hhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHH
Confidence            999999999887655         56677888999999999999999999875541            111223344566


Q ss_pred             cCChHHHHHHHHHHH
Q 048281          423 DGQGKEALDMFSCMC  437 (660)
Q Consensus       423 ~g~~~~A~~~~~~m~  437 (660)
                      .|+.++=+.+-..|+
T Consensus       539 ~gk~E~fi~t~~~Lv  553 (895)
T KOG2076|consen  539 VGKREEFINTASTLV  553 (895)
T ss_pred             hhhHHHHHHHHHHHH
Confidence            666665444444443

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

Probab=99.59  E-value=4.2e-15  Score=144.16  Aligned_cols=256  Identities=14%  Similarity=0.097  Sum_probs=112.4

Q ss_pred             HHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHH-HHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHH
Q 048281          308 MTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVL-PACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALM  386 (660)
Q Consensus       308 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li  386 (660)
                      ...+.+.|++++|++++++......+|+...|..++ ..+...++.+.|...++.+...+...         +..+..++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~---------~~~~~~l~   85 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKAN---------PQDYERLI   85 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc---------cccccccc
Confidence            334445555555555554333222123333333322 23334555666666666655544332         44555566


Q ss_pred             HHHHhcCCHHHHHHHHhcCC--CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCCHHH
Q 048281          387 DMYTKCGSMRDAQMVFTKMS--KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAK-LKPDEVTFVGVLSACSHSGFLSQ  463 (660)
Q Consensus       387 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~g~~~~  463 (660)
                      .. ...+++++|.+++....  .++...+..++..+.+.++++++..+++++.... .+++...|..+...+.+.|+.++
T Consensus        86 ~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~  164 (280)
T PF13429_consen   86 QL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDK  164 (280)
T ss_dssp             ---------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHH
T ss_pred             cc-cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            65 57788888888777653  3456677778888899999999999999987543 34566777788888999999999


Q ss_pred             HHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          464 GREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       464 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      |.+.++++.+.  .+.+......++..+...|+.+++.++++....  +.++..|..+..+|...|+.++|...++++.+
T Consensus       165 A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~  242 (280)
T PF13429_consen  165 ALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALK  242 (280)
T ss_dssp             HHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccc
Confidence            99999999873  334577888999999999999997777766533  45677899999999999999999999999999


Q ss_pred             cCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          542 LEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       542 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ..|+|+.....++.++...|+.++|.++++++.+
T Consensus       243 ~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  243 LNPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HSTT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccccccc
Confidence            9999999999999999999999999999887643

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.59  E-value=6.6e-12  Score=120.01  Aligned_cols=412  Identities=14%  Similarity=0.078  Sum_probs=246.4

Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHCCCCCC-cccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCC-hhHHHHHHHHhHh
Q 048281          104 AMISGFYSNDFAFKGLDFFNHMRQLGVLPD-KYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLD-VYIGSALVNTYLK  181 (660)
Q Consensus       104 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~~~~  181 (660)
                      ....-|.++|++++|++.|.+.++.  .|| +..|.....+|...|+++++.+--...++.  .|+ +-.+..-.+++-.
T Consensus       120 ~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E~  195 (606)
T KOG0547|consen  120 TKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHEQ  195 (606)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHHh
Confidence            3445677888999999999998874  677 677888888888889998888877766663  444 3355555667777


Q ss_pred             cCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHH--------HH-C--CCCCChhhHHHHHHHHHccCC
Q 048281          182 CQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRM--------SK-E--GIWMSRFTVTGVLSALIMMGF  250 (660)
Q Consensus       182 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m--------~~-~--~~~p~~~t~~~ll~~~~~~~~  250 (660)
                      .|++++|+.=         ++-.++..++....-..-+.+++++.        .+ .  .+-|+.....+....+...- 
T Consensus       196 lg~~~eal~D---------~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~-  265 (606)
T KOG0547|consen  196 LGKFDEALFD---------VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADP-  265 (606)
T ss_pred             hccHHHHHHh---------hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccc-
Confidence            7888777632         23334444444433333333443332        11 1  12233333333222221100 


Q ss_pred             chhHHHHHHHHHHhCCCCCchHHHHHHHH----HHcC-CCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHH
Q 048281          251 FKNGRVVHGIVVKMGYDSGVPVMNALIDM----YGKG-KCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFD  325 (660)
Q Consensus       251 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~----~~~~-~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  325 (660)
                                 ......+.......+..+    +... ..+.+|...+.+-..      .......  .+..+.-+   +
T Consensus       266 -----------~~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~------~~~~~~~--~n~~d~~l---e  323 (606)
T KOG0547|consen  266 -----------KPLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECL------GSESSLS--VNEIDAEL---E  323 (606)
T ss_pred             -----------cccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhh------hhhhhcc--ccccchhH---H
Confidence                       000000000001111110    0000 011122111111000      0000000  00000000   0


Q ss_pred             HHhhcCCCCCHHHHHHHHHH--HhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHh
Q 048281          326 RMLSAGFQPDLVTFSTVLPA--CSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFT  403 (660)
Q Consensus       326 ~m~~~g~~p~~~t~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  403 (660)
                      .|          .-..++.+  +.-.|+.-.+..-++.++.....+         ...|--+..+|....+.++-+..|+
T Consensus       324 ~~----------A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~---------~~lyI~~a~~y~d~~~~~~~~~~F~  384 (606)
T KOG0547|consen  324 YM----------AEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAF---------NSLYIKRAAAYADENQSEKMWKDFN  384 (606)
T ss_pred             HH----------HHHHHHhhhhhhhcCCchhhhhhHHHHHhcCccc---------chHHHHHHHHHhhhhccHHHHHHHH
Confidence            00          00111111  223466667777777777666555         3346666677788888888888887


Q ss_pred             cCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC
Q 048281          404 KMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVP  479 (660)
Q Consensus       404 ~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  479 (660)
                      ...   ..|..+|..-...+.-.+++++|..=|++.+..  .| +...|..+-.+..+.+.++++...|++.++  .++.
T Consensus       385 ~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~  460 (606)
T KOG0547|consen  385 KAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPN  460 (606)
T ss_pred             HHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCC
Confidence            665   335566766666667778899999999998874  45 345666666677788899999999999988  5777


Q ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC---------HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch
Q 048281          480 TIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN---------PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN  549 (660)
Q Consensus       480 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  549 (660)
                      .+.+|+.....+.-++++++|.+.|+.... +|.         +.+-.+++ ...-.+++..|+.+++++++++|....+
T Consensus       461 ~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~Dpkce~A  539 (606)
T KOG0547|consen  461 CPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELDPKCEQA  539 (606)
T ss_pred             CchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccCchHHHH
Confidence            778899999999999999999999987543 333         12222222 2334589999999999999999999999


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          550 YVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       550 ~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      |..|+.+-..+|+.++|+++|++...
T Consensus       540 ~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  540 YETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999999999999999997643

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

Probab=99.56  E-value=2.2e-11  Score=115.10  Aligned_cols=451  Identities=11%  Similarity=0.073  Sum_probs=285.5

Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHH-HHHHHhhhCCHHHHHHHHHHHHHhCCCCChh----HHHHHHHHh
Q 048281          105 MISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPC-LIKCCCDVMAVLEVKKIHGLVFKLGLDLDVY----IGSALVNTY  179 (660)
Q Consensus       105 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~-ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~----~~~~li~~~  179 (660)
                      |.+-|..+....+|+..|+-+.+....||...... +-..+.+.+.+..|.++++..+..-+..+..    +.+.+.-.+
T Consensus       207 laqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtf  286 (840)
T KOG2003|consen  207 LAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTF  286 (840)
T ss_pred             HHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeE
Confidence            33455556677889999999888888888765432 3355678889999999999888774443333    445555667


Q ss_pred             HhcCChHHHHHHHccCCC--CCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhH--------HHHHHHHHccC
Q 048281          180 LKCQFMEEALKVFEELPL--RDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTV--------TGVLSALIMMG  249 (660)
Q Consensus       180 ~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~--------~~ll~~~~~~~  249 (660)
                      .+.|.++.|...|+...+  ||..+--.|+-.+..-|+.++..+.|.+|+.-...||..-|        ..++.-..+..
T Consensus       287 iq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd  366 (840)
T KOG2003|consen  287 IQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKND  366 (840)
T ss_pred             EecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhH
Confidence            889999999999988763  55554333444555568889999999999875444444322        11221111111


Q ss_pred             CchhHHHHHHHHHHhCCCCCc----hHHHHHHHHHHcCC---CHHHHHHHHHhcCCCCh--hhHHHHHHHHHHcCChHHH
Q 048281          250 FFKNGRVVHGIVVKMGYDSGV----PVMNALIDMYGKGK---CVGEALEIFEMMEEKDI--FSWNSIMTVHEQCGNHDGT  320 (660)
Q Consensus       250 ~~~~a~~~~~~~~~~g~~~~~----~~~~~li~~~~~~~---~~~~A~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a  320 (660)
                             .+..|.+.. +.+.    .+...+|.-...-.   -.+-+.+.++.-.....  ..--.-..-+.++|+++.|
T Consensus       367 -------~lk~~ek~~-ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~a  438 (840)
T KOG2003|consen  367 -------HLKNMEKEN-KADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGA  438 (840)
T ss_pred             -------HHHHHHHhh-hhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHH
Confidence                   111121111 0000    01011110000000   00111111111000000  0000113457889999999


Q ss_pred             HHHHHHHhhcCCCCCHHHHH--HHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHH
Q 048281          321 LRLFDRMLSAGFQPDLVTFS--TVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDA  398 (660)
Q Consensus       321 ~~~~~~m~~~g~~p~~~t~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  398 (660)
                      +++++-+.+..-+.-...-+  ..+.-+-.-.++..|.++-+..+...--.         +...+.-.+.-...|++++|
T Consensus       439 ieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn---------~~a~~nkgn~~f~ngd~dka  509 (840)
T KOG2003|consen  439 IEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYN---------AAALTNKGNIAFANGDLDKA  509 (840)
T ss_pred             HHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccC---------HHHhhcCCceeeecCcHHHH
Confidence            99999887653222222222  22222222346666766666554332211         23333333444567999999


Q ss_pred             HHHHhcCCCCCHhHHHHH---HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc
Q 048281          399 QMVFTKMSKKDVASWNIM---ILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRY  475 (660)
Q Consensus       399 ~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  475 (660)
                      .+.|.+....|...-.+|   .-.+-..|+.++|+..|-++..- +..+...+..+...|....+..+|++++-+...  
T Consensus       510 ~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--  586 (840)
T KOG2003|consen  510 AEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--  586 (840)
T ss_pred             HHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--
Confidence            999999887776544443   33567889999999999887653 344666777788889999999999999998865  


Q ss_pred             CCCCChHHHHHHHHHHhhcCCHHHHHHHHHh-CCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          476 GVVPTIEHYTCVIDMLGRAGQLNEAYELALA-MPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       476 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      -++.|+.+...|.+.|-+.|+-.+|.+..-. ..- +-+..+..-|...|....-+++|+..|+++--++|+....-..+
T Consensus       587 lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmi  666 (840)
T KOG2003|consen  587 LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMI  666 (840)
T ss_pred             cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHH
Confidence            6777889999999999999999999887543 222 45666777777778877888999999999988899765444566


Q ss_pred             HHHHHhCCChHHHHHHHHHHHh
Q 048281          554 SNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       554 ~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      +.++.+.|++..|..+++..-+
T Consensus       667 asc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  667 ASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHHhcccHHHHHHHHHHHHH
Confidence            6778889999999999998854

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

Probab=99.55  E-value=1e-10  Score=119.75  Aligned_cols=521  Identities=10%  Similarity=0.007  Sum_probs=293.8

Q ss_pred             CCCCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHH
Q 048281           26 FNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAM  105 (660)
Q Consensus        26 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l  105 (660)
                      .++-|..-||.+++..|+..|+.+.|- +|..|.-...+.+..+++.++....+.|+.+.+.        .|...+|..|
T Consensus        19 ~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk--------ep~aDtyt~L   89 (1088)
T KOG4318|consen   19 SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK--------EPLADTYTNL   89 (1088)
T ss_pred             hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC--------CCchhHHHHH
Confidence            455666677777777777777777766 7777777666667777777777777766665333        5777889999


Q ss_pred             HHHHHcCCChhHHHHHHHH-HHH-------CCCCCCcccHHH--------------HHHHHhhhCCHHHHHHHHHHHHHh
Q 048281          106 ISGFYSNDFAFKGLDFFNH-MRQ-------LGVLPDKYTFPC--------------LIKCCCDVMAVLEVKKIHGLVFKL  163 (660)
Q Consensus       106 i~~~~~~~~~~~a~~~~~~-m~~-------~~~~p~~~t~~~--------------ll~~~~~~~~~~~a~~~~~~~~~~  163 (660)
                      +.+|.+.|+... ++..++ |..       .|+.--..-|-.              ++......|-++.+.+++..+...
T Consensus        90 l~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            999999988754 222222 221       122111111111              111112223333333333222111


Q ss_pred             CCCCChhHHHHHHHHhHh-cCChHHHHHHHccCCC-CCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHH
Q 048281          164 GLDLDVYIGSALVNTYLK-CQFMEEALKVFEELPL-RDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGV  241 (660)
Q Consensus       164 g~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~l  241 (660)
                      ...- ....  .+.-+.. ...+++-....+.... ++..+|.+++..-...|+.+.|..++.+|++.|++.+.+-|-.+
T Consensus       169 a~~~-p~~v--fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpL  245 (1088)
T KOG4318|consen  169 AWNA-PFQV--FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPL  245 (1088)
T ss_pred             cccc-hHHH--HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhh
Confidence            1000 0000  1222211 2234444444444443 78899999999999999999999999999999999998877777


Q ss_pred             HHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCC-----
Q 048281          242 LSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGN-----  316 (660)
Q Consensus       242 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~-----  316 (660)
                      +-+   .++...+..+..-|...|+.|+..|+.-.+-.+...|....+....+.-.--....+..+.++.....+     
T Consensus       246 l~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl  322 (1088)
T KOG4318|consen  246 LLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNL  322 (1088)
T ss_pred             hhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHH
Confidence            766   788888999999999999999999998877777765542222111100000011223333333111111     


Q ss_pred             hHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHH
Q 048281          317 HDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMR  396 (660)
Q Consensus       317 ~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  396 (660)
                      ..-....+++..-.|+......|...++. ...|.-+...++-..+..-....++     .++..+..++.-        
T Consensus       323 ~~~v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~-----~~V~a~~~~lrq--------  388 (1088)
T KOG4318|consen  323 RKSVIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSG-----QNVDAFGALLRQ--------  388 (1088)
T ss_pred             HHHHHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCc-----chHHHHHHHHHH--------
Confidence            11222333333334444444444433332 2255556666665555332222210     013334443333        


Q ss_pred             HHHHHHhcCCCCCHh-HHHHHHHHHHh---cC------------ChHHHHHHHHHHHHc----CCC-------CCHHHHH
Q 048281          397 DAQMVFTKMSKKDVA-SWNIMILGYGM---DG------------QGKEALDMFSCMCEA----KLK-------PDEVTFV  449 (660)
Q Consensus       397 ~A~~~~~~~~~~~~~-~~~~li~~~~~---~g------------~~~~A~~~~~~m~~~----g~~-------p~~~~~~  449 (660)
                          .|.+...+... .++ ...+...   ..            +...+++-+......    ...       |-...-+
T Consensus       389 ----yFrr~e~~~~~~i~~-~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~  463 (1088)
T KOG4318|consen  389 ----YFRRIERHICSRIYY-AGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIAN  463 (1088)
T ss_pred             ----HHHHHHhhHHHHHHH-HHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHH
Confidence                34333332211 111 1111111   11            111122211111110    011       1122345


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCC-----CCHHHHHHHHHHHH
Q 048281          450 GVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNE-----ANPVVWRTLLAASR  524 (660)
Q Consensus       450 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~l~~~~~  524 (660)
                      .++..|++.-+..++...-+..... -+.   ..|..|++.+....+.+.|..+.++...+     -|...+..+.....
T Consensus       464 ql~l~l~se~n~lK~l~~~ekye~~-lf~---g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~  539 (1088)
T KOG4318|consen  464 QLHLTLNSEYNKLKILCDEEKYEDL-LFA---GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQ  539 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-Hhh---hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHH
Confidence            5666777766667776555544431 222   67899999999999999999999988642     34455677888888


Q ss_pred             HcCChHHHHHHHHHHHhc---CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCcEEE
Q 048281          525 LHGNTDLAEIAAQRVFQL---EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSW  586 (660)
Q Consensus       525 ~~g~~~~A~~~~~~~~~~---~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  586 (660)
                      +.+....+..+++++.+.   .|....+...+.+..+..|.-+...++++-+...|+.- .|.-|
T Consensus       540 r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e-tgPl~  603 (1088)
T KOG4318|consen  540 RLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE-TGPLW  603 (1088)
T ss_pred             HhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh-cccce
Confidence            889999999998888774   33334556677777788999999999999998888866 34433

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.55  E-value=2.9e-11  Score=115.02  Aligned_cols=194  Identities=10%  Similarity=0.052  Sum_probs=139.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      +.+...+.+-|.-.++.++|...|++..+   .....|+.|..-|...++...|++-++.+++-. +.|-..|-.|.++|
T Consensus       330 ~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaY  408 (559)
T KOG1155|consen  330 PETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAY  408 (559)
T ss_pred             ccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHH
Confidence            44566667777777777888888877653   344678888888888888888888888887743 44667788888888


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCC--CCHHHHHHHHHHHHHcCChHHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNE--ANPVVWRTLLAASRLHGNTDLAE  533 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~  533 (660)
                      .-.+.+.-|+-+|+++.+  --+.|...|.+|.++|.+.++.++|.+-|.+...-  .+...+..|...|.+.++.++|.
T Consensus       409 eim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa  486 (559)
T KOG1155|consen  409 EIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAA  486 (559)
T ss_pred             HHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHH
Confidence            888888888888888765  34446678888888888888888888888776542  33467778888888888888888


Q ss_pred             HHHHHHHhc-------CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          534 IAAQRVFQL-------EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       534 ~~~~~~~~~-------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      +.|++.++.       .|....+...|+.-+.+.+++++|..+......
T Consensus       487 ~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  487 QYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             HHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence            888877762       232333445577777788888888777666544

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.54  E-value=9e-10  Score=105.20  Aligned_cols=492  Identities=11%  Similarity=0.043  Sum_probs=335.8

Q ss_pred             CChhHHHHHHHHhHcCCChhHHHHHHccC--CCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcc-cHHHHH
Q 048281           65 DSPLSITSLINMYSKCCQMKYALFVFNNL--SCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKY-TFPCLI  141 (660)
Q Consensus        65 ~~~~~~~~ll~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~ll  141 (660)
                      .+...|....+.=-.++++..|+.+|++.  ....+...|-..+..=.++.....|..++++....  -|-+. .|---+
T Consensus        71 ~~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~  148 (677)
T KOG1915|consen   71 LNMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYI  148 (677)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHH
Confidence            35566666666667778888888888852  34567777877888888888888888888887764  33222 233333


Q ss_pred             HHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC--CCCchhHHHHHHHHHhCCChhHH
Q 048281          142 KCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP--LRDVVLWNAMVNGYAQIGEFHKA  219 (660)
Q Consensus       142 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A  219 (660)
                      ..=-..|++..|.++|+...+  ..|+...|.+.|+.=.+....+.|..++++..  .|++.+|--..+-=.++|+...|
T Consensus       149 ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~a  226 (677)
T KOG1915|consen  149 YMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALA  226 (677)
T ss_pred             HHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHH
Confidence            334456888888888888776  57888888888888888888888988888764  67888888888888888888888


Q ss_pred             HHHHHHHHHCCCCCChh----hHHHHHHHHHccCCchhHHHHHHHHHHhCCCCC-chHHHHHHHHHHcCCCHH---HHHH
Q 048281          220 LEVFRRMSKEGIWMSRF----TVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSG-VPVMNALIDMYGKGKCVG---EALE  291 (660)
Q Consensus       220 ~~~~~~m~~~~~~p~~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~~~~~~~~~---~A~~  291 (660)
                      .++|....+.  -.|..    .+.+....=.+...++.|.-++...++.-.... ...|..+...=-+.|+..   +++-
T Consensus       227 R~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv  304 (677)
T KOG1915|consen  227 RSVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIV  304 (677)
T ss_pred             HHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHh
Confidence            8888887653  12222    333333333455678888888888877642221 334555544444455543   3332


Q ss_pred             H-----HHhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCH-------HHHHHHHHHH---hcccchH
Q 048281          292 I-----FEMMEEK---DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL-------VTFSTVLPAC---SHLAALM  353 (660)
Q Consensus       292 ~-----~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~t~~~ll~~~---~~~~~~~  353 (660)
                      -     ++.+...   |-.+|--.++.--..|+.+...++|++.... ++|-.       ..|.-+=-+|   ....+++
T Consensus       305 ~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~e  383 (677)
T KOG1915|consen  305 GKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVE  383 (677)
T ss_pred             hhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            2     2333333   4456666777777789999999999998865 55532       1222222222   3467889


Q ss_pred             HHHHHHHHHHHhCccCCCCCCCCcchhHHHHH----HHHHHhcCCHHHHHHHHhcCC--CCCHhHHHHHHHHHHhcCChH
Q 048281          354 HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNAL----MDMYTKCGSMRDAQMVFTKMS--KKDVASWNIMILGYGMDGQGK  427 (660)
Q Consensus       354 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l----i~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~  427 (660)
                      .+.++++..++. ++..        ..++.-+    ...-.++.++..|.+++....  .|..-++...|..-.+.++++
T Consensus       384 rtr~vyq~~l~l-IPHk--------kFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efD  454 (677)
T KOG1915|consen  384 RTRQVYQACLDL-IPHK--------KFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFD  454 (677)
T ss_pred             HHHHHHHHHHhh-cCcc--------cchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHH
Confidence            999999988883 2232        3444433    444457889999999998766  567778888888888999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 048281          428 EALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAM  507 (660)
Q Consensus       428 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  507 (660)
                      .+..++++.++-+ +-|..+|......-...|+.+.|..+|.-++...........|.+.|+.=...|.++.|..+++++
T Consensus       455 RcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerl  533 (677)
T KOG1915|consen  455 RCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERL  533 (677)
T ss_pred             HHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHH
Confidence            9999999999964 446678888877778889999999999999875444455577888888888999999999999997


Q ss_pred             CC-CCCHHHHHHHHHHHH-----HcC-----------ChHHHHHHHHHHHhc--CCCCcchHHHHHH----HHHhCCChH
Q 048281          508 PN-EANPVVWRTLLAASR-----LHG-----------NTDLAEIAAQRVFQL--EPGHCGNYVLMSN----IYVAGGKYE  564 (660)
Q Consensus       508 ~~-~~~~~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~~--~p~~~~~~~~l~~----~~~~~g~~~  564 (660)
                      .. .+...+|.++...-.     +.+           +...|..+|+++...  +.+..+--..|..    .-...|...
T Consensus       534 L~rt~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~  613 (677)
T KOG1915|consen  534 LDRTQHVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEG  613 (677)
T ss_pred             HHhcccchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchh
Confidence            65 456668887765433     233           456788888887663  1111222222222    223345555


Q ss_pred             HHHHHHHHH
Q 048281          565 EVLDIRHTM  573 (660)
Q Consensus       565 ~a~~~~~~~  573 (660)
                      +...+-.+|
T Consensus       614 d~~~V~s~m  622 (677)
T KOG1915|consen  614 DVERVQSKM  622 (677)
T ss_pred             hHHHHHHhc
Confidence            555555554

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.54  E-value=1.5e-12  Score=129.64  Aligned_cols=162  Identities=12%  Similarity=0.088  Sum_probs=93.9

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-hHHHHH
Q 048281          409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-IEHYTC  486 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~  486 (660)
                      .+.+|-++.++|.-+++++.|++.|++.++.  .| ...+|+.+..-+.....+|.|...|+.++.   +.|. -..|..
T Consensus       420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~---~~~rhYnAwYG  494 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG---VDPRHYNAWYG  494 (638)
T ss_pred             CcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc---CCchhhHHHHh
Confidence            4556666666666666666666666666652  34 445555555555555566666666665532   2221 122333


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChH
Q 048281          487 VIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYE  564 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  564 (660)
                      |.-.|.+.++++.|+-.|+++..  +.+.++...++..+.+.|+.|+|++++++++.++|.++-.-...+.++...++++
T Consensus       495 lG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~  574 (638)
T KOG1126|consen  495 LGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYV  574 (638)
T ss_pred             hhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchH
Confidence            44556666666666666666543  3344555555666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHHh
Q 048281          565 EVLDIRHTMRQ  575 (660)
Q Consensus       565 ~a~~~~~~~~~  575 (660)
                      +|.+.++++++
T Consensus       575 eal~~LEeLk~  585 (638)
T KOG1126|consen  575 EALQELEELKE  585 (638)
T ss_pred             HHHHHHHHHHH
Confidence            66666666655

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.53  E-value=1.6e-10  Score=110.10  Aligned_cols=258  Identities=12%  Similarity=0.057  Sum_probs=203.7

Q ss_pred             HHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHH
Q 048281          307 IMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALM  386 (660)
Q Consensus       307 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li  386 (660)
                      +..++....+.+++++-.......|+.-+...-+....+.-...|+++|+.+|+.+.++.+-.      ..|..+|+.++
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYR------l~dmdlySN~L  306 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYR------LDDMDLYSNVL  306 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCc------chhHHHHhHHH
Confidence            344555666788888888888888876666655555556677889999999999999885432      12367777765


Q ss_pred             HHHHhcCCHH-HHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHH
Q 048281          387 DMYTKCGSMR-DAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD-EVTFVGVLSACSHSGFLSQG  464 (660)
Q Consensus       387 ~~~~~~g~~~-~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a  464 (660)
                      -.--.+.++. -|..+++ +.+-.+.|...+.+-|.-.++.++|...|++.++.  .|. ...|+.+..-|....+...|
T Consensus       307 Yv~~~~skLs~LA~~v~~-idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AA  383 (559)
T KOG1155|consen  307 YVKNDKSKLSYLAQNVSN-IDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAA  383 (559)
T ss_pred             HHHhhhHHHHHHHHHHHH-hccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHH
Confidence            4433322222 2333332 22334566777788888899999999999999985  444 35677777789999999999


Q ss_pred             HHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          465 REFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       465 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      ++-++.+++  -.+.|-..|-.|.++|.-.+...-|+-.|++...  +.|+..|.+|+.+|.+.++.++|++.|.+++..
T Consensus       384 i~sYRrAvd--i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~  461 (559)
T KOG1155|consen  384 IESYRRAVD--INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILL  461 (559)
T ss_pred             HHHHHHHHh--cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhc
Confidence            999999986  4556779999999999999999999999999765  678899999999999999999999999999998


Q ss_pred             CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          543 EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       543 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ...+...+..|+++|-+.++.++|.+.+.+..+
T Consensus       462 ~dte~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  462 GDTEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             cccchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            666778999999999999999999999998765

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.52  E-value=6e-11  Score=120.51  Aligned_cols=285  Identities=12%  Similarity=-0.048  Sum_probs=164.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHH--HHHHHHHHcCCCHHHHH
Q 048281          213 IGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVM--NALIDMYGKGKCVGEAL  290 (660)
Q Consensus       213 ~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~--~~li~~~~~~~~~~~A~  290 (660)
                      .|+++.|.+.+....+..-.| ...|.....+..+.|+.+.+...+..+.+.  .|+....  ......+...|+++.|.
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            466666665555443321111 112222233335556666666666555543  2333222  23355667777777777


Q ss_pred             HHHHhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCc
Q 048281          291 EIFEMMEEK---DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGL  367 (660)
Q Consensus       291 ~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  367 (660)
                      ..++++.+.   ++.....+...|.+.|++++|.+++..+.+.+..++. ....+-                        
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~------------------------  228 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLE------------------------  228 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHH------------------------
Confidence            777776542   4556677777777778888888888877776544222 111110                        


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048281          368 AKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD  444 (660)
Q Consensus       368 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  444 (660)
                                 ...|..++.......+.+...++++.+.   ..++.....+...+...|+.++|..++++..+.  .||
T Consensus       229 -----------~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~  295 (398)
T PRK10747        229 -----------QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYD  295 (398)
T ss_pred             -----------HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCC
Confidence                       0112222222223334455555555554   235666777777777888888888888777763  444


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHH
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAAS  523 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~  523 (660)
                      ....  ++.+....++.+++.+..+...+  ..+-|...+.++...+.+.|++++|.+.|+.... .|+...+..+..++
T Consensus       296 ~~l~--~l~~~l~~~~~~~al~~~e~~lk--~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~  371 (398)
T PRK10747        296 ERLV--LLIPRLKTNNPEQLEKVLRQQIK--QHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADAL  371 (398)
T ss_pred             HHHH--HHHhhccCCChHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            4221  23333445777777777777765  3444555666777777777777777777776544 46666666777777


Q ss_pred             HHcCChHHHHHHHHHHHhc
Q 048281          524 RLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~  542 (660)
                      .+.|+.++|.+++++.+.+
T Consensus       372 ~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        372 DRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             HHcCCHHHHHHHHHHHHhh
Confidence            7777777777777776654

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=1.1e-10  Score=114.16  Aligned_cols=491  Identities=11%  Similarity=-0.007  Sum_probs=289.0

Q ss_pred             CCCCCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHcc-CCCCCCcccHH
Q 048281           25 TFNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNN-LSCEPNVFTYN  103 (660)
Q Consensus        25 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~  103 (660)
                      +...-.+.+-+..+++-+....+++.|.-+-+++...+..|+  .---+.+++.-.|+++.|..+... .+...|..+..
T Consensus         9 ~~~d~~s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~--d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cry   86 (611)
T KOG1173|consen    9 TLADELSLEKYRRLVRDALMQHRYKTALFWADKVAGLTNDPA--DIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRY   86 (611)
T ss_pred             cccccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccCChH--HHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHH
Confidence            455566778888899988888888888888888877664443  444466778888888888888763 35667888888


Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcC
Q 048281          104 AMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQ  183 (660)
Q Consensus       104 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  183 (660)
                      .....+.+...+++|..++..-..   .-+...|-.-=.  +..-..+.+.    ++.  ++......+-.-...|....
T Consensus        87 L~~~~l~~lk~~~~al~vl~~~~~---~~~~f~yy~~~~--~~~l~~n~~~----~~~--~~~~essic~lRgk~y~al~  155 (611)
T KOG1173|consen   87 LAAKCLVKLKEWDQALLVLGRGHV---ETNPFSYYEKDA--ANTLELNSAG----EDL--MINLESSICYLRGKVYVALD  155 (611)
T ss_pred             HHHHHHHHHHHHHHHHHHhcccch---hhcchhhcchhh--hceeccCccc----ccc--cccchhceeeeeeehhhhhc
Confidence            888888888899999888873311   001111100000  0000001110    000  00000111111123344445


Q ss_pred             ChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCC----CCChhhHHHHHHHHH-ccCCchhHHHHH
Q 048281          184 FMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGI----WMSRFTVTGVLSALI-MMGFFKNGRVVH  258 (660)
Q Consensus       184 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~----~p~~~t~~~ll~~~~-~~~~~~~a~~~~  258 (660)
                      ..++|...|.+....|+..+.++...-..  ..-.+.+.+..+.....    ..+......+..... +..+.+ ....-
T Consensus       156 n~~~ar~~Y~~Al~~D~~c~Ea~~~lvs~--~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~-~~~r~  232 (611)
T KOG1173|consen  156 NREEARDKYKEALLADAKCFEAFEKLVSA--HMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEE-SLTRN  232 (611)
T ss_pred             cHHHHHHHHHHHHhcchhhHHHHHHHHHH--HhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhcccc-ccccC
Confidence            56666666655554444444433221111  11112122222211100    001111111111000 000000 00000


Q ss_pred             HHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHH
Q 048281          259 GIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVT  338 (660)
Q Consensus       259 ~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  338 (660)
                      ....-.+...                               ++.....-..-+-..+++.+..++.+...+.. ++....
T Consensus       233 ~~~sl~~l~~-------------------------------~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~  280 (611)
T KOG1173|consen  233 EDESLIGLAE-------------------------------NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPC  280 (611)
T ss_pred             chhhhhhhhh-------------------------------cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcch
Confidence            0000001112                               22223333344445556666666666655431 223333


Q ss_pred             HHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---CHhHHHH
Q 048281          339 FSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK---DVASWNI  415 (660)
Q Consensus       339 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~  415 (660)
                      +..=|..+...|+-..-..+-..+++.-+..         +.+|-++..-|.-.|+..+|++.|.+...-   -...|-.
T Consensus       281 ~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~---------a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~  351 (611)
T KOG1173|consen  281 LPLHIACLYELGKSNKLFLLSHKLVDLYPSK---------ALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLA  351 (611)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHhCCCC---------CcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHH
Confidence            3333344555555555555555555554444         677888888888889999999999876533   3468999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC
Q 048281          416 MILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG  495 (660)
Q Consensus       416 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  495 (660)
                      +...|+-.|..++|+..+..+-+. ++-....+..+..-|.+.++.+.|.++|.++..  -.+.|+.+++-+.-.....+
T Consensus       352 fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~  428 (611)
T KOG1173|consen  352 FGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYE  428 (611)
T ss_pred             HhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHh
Confidence            999999999999999998887764 122222333344568888999999999999864  23445667777777777888


Q ss_pred             CHHHHHHHHHhCCC--------CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHH
Q 048281          496 QLNEAYELALAMPN--------EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       496 ~~~~A~~~~~~~~~--------~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  566 (660)
                      .+.+|..+|+....        .+ -..+++.|+.+|++.+.+++|+..+++++.+.|.++.+|..++-+|...|+++.|
T Consensus       429 ~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~A  508 (611)
T KOG1173|consen  429 EYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKA  508 (611)
T ss_pred             hhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHH
Confidence            99999998876542        11 3457889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 048281          567 LDIRHTMRQ  575 (660)
Q Consensus       567 ~~~~~~~~~  575 (660)
                      ...|.+..-
T Consensus       509 id~fhKaL~  517 (611)
T KOG1173|consen  509 IDHFHKALA  517 (611)
T ss_pred             HHHHHHHHh
Confidence            999988754

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.51  E-value=1.9e-11  Score=124.08  Aligned_cols=275  Identities=9%  Similarity=0.012  Sum_probs=201.4

Q ss_pred             CCCHHHHHHHHHhcCCC--Chh-hHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHH--HHHHHHhcccchHHHHH
Q 048281          283 GKCVGEALEIFEMMEEK--DIF-SWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFS--TVLPACSHLAALMHGRQ  357 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~~--~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~--~ll~~~~~~~~~~~a~~  357 (660)
                      .|+++.|++.+....+.  ++. .|-.......+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|..
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            57777777777765442  222 2333344447788888888888888764  45543332  22456677888888888


Q ss_pred             HHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---H--------hHHHHHHHHHHhcCCh
Q 048281          358 IHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKD---V--------ASWNIMILGYGMDGQG  426 (660)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~--------~~~~~li~~~~~~g~~  426 (660)
                      .++.+.+..+..         +.+...+...|.+.|++++|.+++..+.+..   .        .+|..++.......+.
T Consensus       175 ~l~~~~~~~P~~---------~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~  245 (398)
T PRK10747        175 GVDKLLEVAPRH---------PEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGS  245 (398)
T ss_pred             HHHHHHhcCCCC---------HHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence            888887777555         7788888889999999999998888876421   1        1333344444444555


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHh
Q 048281          427 KEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALA  506 (660)
Q Consensus       427 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  506 (660)
                      +...++++.+.+. .+.++.....+..++...|+.++|..++++..+   ..|+....  ++.+....++.+++.+..++
T Consensus       246 ~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~--~l~~~l~~~~~~~al~~~e~  319 (398)
T PRK10747        246 EGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLV--LLIPRLKTNNPEQLEKVLRQ  319 (398)
T ss_pred             HHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHH--HHHhhccCCChHHHHHHHHH
Confidence            6666677766443 355777888899999999999999999999876   34454322  23333456999999999987


Q ss_pred             CCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          507 MPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       507 ~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ...  +.|+..+.++...|...+++++|...|+++++..|++ ..+..++.++.+.|+.++|.+++++-..
T Consensus       320 ~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        320 QIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            654  3456678899999999999999999999999999976 5678999999999999999999997644

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.50  E-value=2e-09  Score=102.91  Aligned_cols=460  Identities=9%  Similarity=0.035  Sum_probs=335.0

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHH
Q 048281           98 NVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVN  177 (660)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  177 (660)
                      +...|-...+-=..++++..|..+|++....... +...|---+..=.+.+.+..|..+++..+..=+..|. .|-..+.
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r-~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY~y  149 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVDYR-NITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-LWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccc-cchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-HHHHHHH
Confidence            3444544444445677888999999999886533 6666777777778889999999999999886443333 3444555


Q ss_pred             HhHhcCChHHHHHHHccCC--CCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHH
Q 048281          178 TYLKCQFMEEALKVFEELP--LRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGR  255 (660)
Q Consensus       178 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~  255 (660)
                      +=-..|++..|.++|++-.  +|+..+|++.|.-=.+...++.|..++++..-  +.|+..+|.--.+.=-+.|+...+.
T Consensus       150 mEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHH
Confidence            5567799999999999865  68999999999999999999999999999976  6699999999888889999999999


Q ss_pred             HHHHHHHHh-CC-CCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC----C-ChhhHHHHHHHHHHcCChHHHHHH-----
Q 048281          256 VVHGIVVKM-GY-DSGVPVMNALIDMYGKGKCVGEALEIFEMMEE----K-DIFSWNSIMTVHEQCGNHDGTLRL-----  323 (660)
Q Consensus       256 ~~~~~~~~~-g~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~----~-~~~~~~~li~~~~~~g~~~~a~~~-----  323 (660)
                      .++..+++. |- ..+...+.+....=.++..++.|.-+|+-..+    . ....|..+...=-+-|+.....+.     
T Consensus       228 ~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  228 SVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            999987765 21 12233455555555667788888888765543    2 123344443333344554433322     


Q ss_pred             ---HHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHH--------HHhc
Q 048281          324 ---FDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDM--------YTKC  392 (660)
Q Consensus       324 ---~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~--------~~~~  392 (660)
                         |+.+...+ +-|-.++--.++.....|+.+...++++.++..-++..       ....|...|-.        -...
T Consensus       308 k~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~-------ekr~W~RYIYLWinYalyeEle~  379 (677)
T KOG1915|consen  308 KFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPAS-------EKRYWRRYIYLWINYALYEELEA  379 (677)
T ss_pred             hhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchh-------HHHHHHHHHHHHHHHHHHHHHHh
Confidence               33444432 34556777777777788999999999999987654432       12233322222        1246


Q ss_pred             CCHHHHHHHHhcCC---CCCHhHHH----HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHH
Q 048281          393 GSMRDAQMVFTKMS---KKDVASWN----IMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGR  465 (660)
Q Consensus       393 g~~~~A~~~~~~~~---~~~~~~~~----~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  465 (660)
                      .+++.+.++|+...   .....|+.    ....--.++.+...|.+++...+  |..|-..+|...|..-.+.+.++...
T Consensus       380 ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcR  457 (677)
T KOG1915|consen  380 EDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCR  457 (677)
T ss_pred             hhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHH
Confidence            78889999997654   23334443    33444557789999999998876  56899999999999999999999999


Q ss_pred             HHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          466 EFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      .+++..++  -.+-+..+|......=...|+.+.|..+|+-...+|.    ...|.+.|..-...|.++.|..+|+++++
T Consensus       458 kLYEkfle--~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~  535 (677)
T KOG1915|consen  458 KLYEKFLE--FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLD  535 (677)
T ss_pred             HHHHHHHh--cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHH
Confidence            99999987  2344567888888888899999999999998776553    45788888888889999999999999999


Q ss_pred             cCCCCcchHHHHHHHHH-----hCC-----------ChHHHHHHHHHHH
Q 048281          542 LEPGHCGNYVLMSNIYV-----AGG-----------KYEEVLDIRHTMR  574 (660)
Q Consensus       542 ~~p~~~~~~~~l~~~~~-----~~g-----------~~~~a~~~~~~~~  574 (660)
                      ..+.. .+|...+.--.     ..|           ....|.++|+...
T Consensus       536 rt~h~-kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn  583 (677)
T KOG1915|consen  536 RTQHV-KVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERAN  583 (677)
T ss_pred             hcccc-hHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHH
Confidence            87654 36666665443     334           5667888887763

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.49  E-value=5e-12  Score=125.92  Aligned_cols=276  Identities=12%  Similarity=0.036  Sum_probs=216.2

Q ss_pred             CHHHHHHHHHhcCCC--Ch-hhHHHHHHHHHHcCChHHHHHHHHHHhhcC--CCCCHHHHHHHHHHHhcccchHHHHHHH
Q 048281          285 CVGEALEIFEMMEEK--DI-FSWNSIMTVHEQCGNHDGTLRLFDRMLSAG--FQPDLVTFSTVLPACSHLAALMHGRQIH  359 (660)
Q Consensus       285 ~~~~A~~~~~~~~~~--~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~t~~~ll~~~~~~~~~~~a~~~~  359 (660)
                      +..+|...|..+++.  |+ .....+..+|...+++++|.++|+...+..  ..-+...|++++..+-+.    -+...+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHH
Confidence            467888888886652  33 445667889999999999999999998752  112556788777654321    111122


Q ss_pred             -HHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---CHhHHHHHHHHHHhcCChHHHHHHHHH
Q 048281          360 -GYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK---DVASWNIMILGYGMDGQGKEALDMFSC  435 (660)
Q Consensus       360 -~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~  435 (660)
                       +.+++.....         +.+|.++.+.|.-+++.+.|++.|++..+-   ...+|+.+..-+.....+|.|...|+.
T Consensus       410 aq~Li~~~~~s---------PesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~  480 (638)
T KOG1126|consen  410 AQDLIDTDPNS---------PESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRK  480 (638)
T ss_pred             HHHHHhhCCCC---------cHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHh
Confidence             2222332222         889999999999999999999999998854   456888888888899999999999998


Q ss_pred             HHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CC
Q 048281          436 MCEAKLKPDE-VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EA  511 (660)
Q Consensus       436 m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~  511 (660)
                      .+.  +.|.. ..|..+...|.++++++.|.-.|+.+.+   +.| +......+...+.+.|+.++|+++++++..  +.
T Consensus       481 Al~--~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k  555 (638)
T KOG1126|consen  481 ALG--VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK  555 (638)
T ss_pred             hhc--CCchhhHHHHhhhhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC
Confidence            875  23332 3455677789999999999999999975   444 556778888999999999999999999643  55


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          512 NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      |+..--.-+..+...+++++|+..++++.++-|++...+..++.+|.+.|+.+.|+.-|.-+.+...
T Consensus       556 n~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  556 NPLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             CchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            6666666777888899999999999999999999999999999999999999999998888776543

>TIGR00540 hemY_coli hemY protein

Probab=99.49  E-value=1.2e-10  Score=119.13  Aligned_cols=290  Identities=10%  Similarity=-0.018  Sum_probs=161.7

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCChh-hHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHH
Q 048281          212 QIGEFHKALEVFRRMSKEGIWMSRF-TVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEAL  290 (660)
Q Consensus       212 ~~~~~~~A~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~  290 (660)
                      ..|+++.|.+.+.+..+.  .|++. .+-....+..+.|+.+.+.+.+....+....+...+.......+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            457777777777665543  23332 233334555566777777777666655432222223334466667777777777


Q ss_pred             HHHHhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCc
Q 048281          291 EIFEMMEE--K-DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGL  367 (660)
Q Consensus       291 ~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  367 (660)
                      ..++.+.+  | +...+..+...+.+.|++++|.+++..+.+.++.+.. .+..+-.                       
T Consensus       174 ~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~-~~~~l~~-----------------------  229 (409)
T TIGR00540       174 HGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDE-EFADLEQ-----------------------  229 (409)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHH-HHHHHHH-----------------------
Confidence            77777654  2 4456667777777777777777777777776533222 1211100                       


Q ss_pred             cCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048281          368 AKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD  444 (660)
Q Consensus       368 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  444 (660)
                                  ..+..++..-......+...+.+...+.   .+...+..++..+...|++++|.+++++..+.  .||
T Consensus       230 ------------~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd  295 (409)
T TIGR00540       230 ------------KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGD  295 (409)
T ss_pred             ------------HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCC
Confidence                        0011111111111223344444444442   36777778888888888888888888888875  344


Q ss_pred             HHHH--HHH-HHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHh--C-CCCCCHHHHHH
Q 048281          445 EVTF--VGV-LSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALA--M-PNEANPVVWRT  518 (660)
Q Consensus       445 ~~~~--~~l-l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--~-~~~~~~~~~~~  518 (660)
                      ....  ..+ .......++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.  . ...|+...+..
T Consensus       296 ~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~  375 (409)
T TIGR00540       296 DRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAM  375 (409)
T ss_pred             cccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHH
Confidence            4321  111 1122334566666666666655222222214555666666666666666666662  2 22466666666


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHh
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      +...+.+.|+.++|.+++++.+.
T Consensus       376 La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       376 AADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666666544

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.

>TIGR00540 hemY_coli hemY protein

Probab=99.44  E-value=1.7e-10  Score=117.94  Aligned_cols=279  Identities=9%  Similarity=0.015  Sum_probs=173.1

Q ss_pred             CCCHHHHHHHHHhcCCC--C-hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHH--HHHHHHHHHhcccchHHHHH
Q 048281          283 GKCVGEALEIFEMMEEK--D-IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLV--TFSTVLPACSHLAALMHGRQ  357 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~~--~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--t~~~ll~~~~~~~~~~~a~~  357 (660)
                      .|+++.|.+.+....+.  + ...+-.......+.|+++.|.+.+.+..+.  .|+..  ........+...|+++.|..
T Consensus        97 ~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            45555555555554331  1 122333344455556666666666665543  23321  22223444555666666666


Q ss_pred             HHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---CHhHHH----HHHHHHHhcCChHHHH
Q 048281          358 IHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK---DVASWN----IMILGYGMDGQGKEAL  430 (660)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~----~li~~~~~~g~~~~A~  430 (660)
                      .++.+.+..+..         +.++..+...|.+.|+++.|.+.+..+.+.   +...+.    ....++...+..+++.
T Consensus       175 ~l~~l~~~~P~~---------~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~  245 (409)
T TIGR00540       175 GVDKLLEMAPRH---------KEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGI  245 (409)
T ss_pred             HHHHHHHhCCCC---------HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence            666666655433         556666677777777777777776666532   222221    1111223333334444


Q ss_pred             HHHHHHHHcCC---CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH--HhhcCCHHHHHHHHH
Q 048281          431 DMFSCMCEAKL---KPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM--LGRAGQLNEAYELAL  505 (660)
Q Consensus       431 ~~~~~m~~~g~---~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  505 (660)
                      +.+..+.+...   +.+...+..+...+...|+.++|.+.+++..+.  .+.+......++..  ....++.+.+.+.++
T Consensus       246 ~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e  323 (409)
T TIGR00540       246 DGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIE  323 (409)
T ss_pred             HHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHH
Confidence            55555555421   237788888889999999999999999999873  22222110012222  234577888888887


Q ss_pred             hCCC--CCCH--HHHHHHHHHHHHcCChHHHHHHHH--HHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          506 AMPN--EANP--VVWRTLLAASRLHGNTDLAEIAAQ--RVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       506 ~~~~--~~~~--~~~~~l~~~~~~~g~~~~A~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      +...  +.|+  ....++...|.+.|++++|.+.|+  ...+..|++ ..+..++.++.+.|+.++|.+++++...
T Consensus       324 ~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~-~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       324 KQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDA-NDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7543  3345  677899999999999999999999  577778865 5577999999999999999999998643

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=99.43  E-value=4.6e-10  Score=115.07  Aligned_cols=461  Identities=9%  Similarity=-0.012  Sum_probs=231.7

Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCC----CCCcccHHHHHHHHHcCCChhHHHHHHHHHHHC
Q 048281           53 EIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSC----EPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQL  128 (660)
Q Consensus        53 ~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  128 (660)
                      .++..+...|+.|+..+|.++|..||..|+++.|- +|. .+.    +-+...++.++.+..++++.+.+.         
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~-fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFP-FMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chh-hhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            56788899999999999999999999999999998 776 442    235567999999999999888765         


Q ss_pred             CCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHH-------hCCCCChh--------------HHHHHHHHhHhcCChHH
Q 048281          129 GVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFK-------LGLDLDVY--------------IGSALVNTYLKCQFMEE  187 (660)
Q Consensus       129 ~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~-------~g~~~~~~--------------~~~~li~~~~~~g~~~~  187 (660)
                        .|...||..|+.+|...||+..-..+-+.+..       .|.-....              -....+....-.|-++.
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaq  157 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQ  157 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHH
Confidence              68899999999999999997652222221221       11100000              00111222222233333


Q ss_pred             HHHHHccCCCC--CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhC
Q 048281          188 ALKVFEELPLR--DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMG  265 (660)
Q Consensus       188 A~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  265 (660)
                      +.+++..++..  +. +...+++-+...  .....+++...+...-.|++.+|..++.+....|+.+.|..++..|.+.|
T Consensus       158 llkll~~~Pvsa~~~-p~~vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~g  234 (1088)
T KOG4318|consen  158 LLKLLAKVPVSAWNA-PFQVFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKG  234 (1088)
T ss_pred             HHHHHhhCCcccccc-hHHHHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcC
Confidence            44443333321  00 000011111111  11111222111111013555555555555555555555555555555555


Q ss_pred             CCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 048281          266 YDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPA  345 (660)
Q Consensus       266 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~  345 (660)
                      ++.+..-+-.|+-+                                  .++...+..+++-|.+.|+.|+..|+..-+..
T Consensus       235 fpir~HyFwpLl~g----------------------------------~~~~q~~e~vlrgmqe~gv~p~seT~adyvip  280 (1088)
T KOG4318|consen  235 FPIRAHYFWPLLLG----------------------------------INAAQVFEFVLRGMQEKGVQPGSETQADYVIP  280 (1088)
T ss_pred             CCcccccchhhhhc----------------------------------CccchHHHHHHHHHHHhcCCCCcchhHHHHHh
Confidence            55544443333322                                  34444444445555555555555554444433


Q ss_pred             HhcccchHH------------------------HH------------HHHHHHHHhCccCCCCCCCCcchhHHHHHHHHH
Q 048281          346 CSHLAALMH------------------------GR------------QIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMY  389 (660)
Q Consensus       346 ~~~~~~~~~------------------------a~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~  389 (660)
                      +...|....                        +.            ..+....-.|++..        ..+|...+ -.
T Consensus       281 ~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~--------~aiws~c~-~l  351 (1088)
T KOG4318|consen  281 QLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDIL--------EAIWSMCE-KL  351 (1088)
T ss_pred             hhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccc--------hHHHHHHH-HH
Confidence            333211111                        00            01111111233222        22222222 12


Q ss_pred             HhcCCHHHHHHHHhcCCCC-------CHhHHHHHHHHHHhcCChHHHHHHHH--HHHHcCCCCCHHHHHHHHHHHhccCC
Q 048281          390 TKCGSMRDAQMVFTKMSKK-------DVASWNIMILGYGMDGQGKEALDMFS--CMCEAKLKPDEVTFVGVLSACSHSGF  460 (660)
Q Consensus       390 ~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~A~~~~~--~m~~~g~~p~~~~~~~ll~~~~~~g~  460 (660)
                      ..+|+-++.+.+-..+..|       ++..|..++.-|.+.-+..-...++.  +.+..  ..+....--+.....+. .
T Consensus       352 ~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~~~~i~~~~qgls~--~l~se~tp~vsell~~l-r  428 (1088)
T KOG4318|consen  352 RHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHICSRIYYAGQGLSL--NLNSEDTPRVSELLENL-R  428 (1088)
T ss_pred             HHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--hhchhhhHHHHHHHHHh-C
Confidence            2256666666666555432       34455555554443322111111111  11111  00000000011111100 1


Q ss_pred             HHHHHHHHHHhHHh---cCCCC-------ChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChH
Q 048281          461 LSQGREFLPLMESR---YGVVP-------TIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTD  530 (660)
Q Consensus       461 ~~~a~~~~~~~~~~---~~~~~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  530 (660)
                      ...+.+-+......   ..+.|       -...-+.++..+.+.-+..+++...++.....-...|..|+.-+..++..+
T Consensus       429 kns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~ekye~~lf~g~ya~Li~l~~~hdkle  508 (1088)
T KOG4318|consen  429 KNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEEKYEDLLFAGLYALLIKLMDLHDKLE  508 (1088)
T ss_pred             cchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhHHHHHHHH
Confidence            11111111111100   01111       123445566666776666777655554433223467899999999999999


Q ss_pred             HHHHHHHHHHhcCCC---CcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          531 LAEIAAQRVFQLEPG---HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       531 ~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .|.....+....+..   +-.-+..+.+++.+.+...++..+++.+.+
T Consensus       509 ~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks  556 (1088)
T KOG4318|consen  509 YALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKS  556 (1088)
T ss_pred             HHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhH
Confidence            999999887654221   224577899999999999999999999876

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

Probab=99.43  E-value=1.3e-12  Score=126.74  Aligned_cols=188  Identities=15%  Similarity=0.107  Sum_probs=55.3

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcC-CCCCHHHHHHHHHHHhcc
Q 048281          273 MNALIDMYGKGKCVGEALEIFEMMEE--KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAG-FQPDLVTFSTVLPACSHL  349 (660)
Q Consensus       273 ~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~  349 (660)
                      +..++.. ...+++++|.++++..-+  ++...+..++..+.+.++++++.++++.+.... .+++...|......+.+.
T Consensus        81 ~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~  159 (280)
T PF13429_consen   81 YERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQL  159 (280)
T ss_dssp             --------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHC
T ss_pred             ccccccc-cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHc
Confidence            3334433 344555555555444322  233444445555555555555555555544321 122333333444444444


Q ss_pred             cchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCCh
Q 048281          350 AALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQG  426 (660)
Q Consensus       350 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  426 (660)
                      |+.+.|...++.+++..+..         ..+.+.++..+...|+.+++.+++....   ..|...|..+..+|...|++
T Consensus       160 G~~~~A~~~~~~al~~~P~~---------~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~  230 (280)
T PF13429_consen  160 GDPDKALRDYRKALELDPDD---------PDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRY  230 (280)
T ss_dssp             CHHHHHHHHHHHHHHH-TT----------HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-H
T ss_pred             CCHHHHHHHHHHHHHcCCCC---------HHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccc
Confidence            44444444444444443332         3334444444444444444333333222   12333444444444444444


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 048281          427 KEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLM  471 (660)
Q Consensus       427 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  471 (660)
                      ++|+.+|++..+.. +.|......+..++...|+.++|.++..++
T Consensus       231 ~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  231 EEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHHHHHHS-TT-HHHHHHHHHHHT---------------
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccc
Confidence            44444444444421 223333444444444444444444444433

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.42  E-value=1.4e-09  Score=102.30  Aligned_cols=287  Identities=13%  Similarity=0.020  Sum_probs=194.5

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHH
Q 048281          213 IGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEI  292 (660)
Q Consensus       213 ~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~  292 (660)
                      .|+|.+|.++..+-.+.+-.| ...|..-..+.-+.|+.+.+..++.++-+..-.++..+.-+........|+++.|..-
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            477777777777655544322 2345555566667777777777777766664455666666677777777777777776


Q ss_pred             HHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccC
Q 048281          293 FEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAK  369 (660)
Q Consensus       293 ~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  369 (660)
                      ..++.+   .++.........|.+.|++.....++..|.+.|+--|+..-..=                           
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le---------------------------  228 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLE---------------------------  228 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHH---------------------------
Confidence            665543   46677778888888888888888888888888765554221100                           


Q ss_pred             CCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 048281          370 NGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEV  446 (660)
Q Consensus       370 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  446 (660)
                               ..+|+.+++-....+..+.-...|+..+   +.++..-.+++.-+.+.|+.++|.++..+..+.+..|+-.
T Consensus       229 ---------~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~  299 (400)
T COG3071         229 ---------QQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC  299 (400)
T ss_pred             ---------HHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH
Confidence                     3344445544444444444455566555   3356666677778888888888988888888887766622


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAASRL  525 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~  525 (660)
                          .+-.+.+.++...-++..+...+.++..|  ..+.+|...|.+.+.|.+|.+.|+.... .|+...|+-+..++.+
T Consensus       300 ----~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~  373 (400)
T COG3071         300 ----RLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQ  373 (400)
T ss_pred             ----HHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHH
Confidence                22356677777777777777766444444  6777888888888888888888876433 6778888888888888


Q ss_pred             cCChHHHHHHHHHHHhc
Q 048281          526 HGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       526 ~g~~~~A~~~~~~~~~~  542 (660)
                      .|+.++|.++.++.+-+
T Consensus       374 ~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         374 LGEPEEAEQVRREALLL  390 (400)
T ss_pred             cCChHHHHHHHHHHHHH
Confidence            88888888888877654

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.38  E-value=1.3e-07  Score=94.13  Aligned_cols=302  Identities=14%  Similarity=0.111  Sum_probs=178.9

Q ss_pred             CCchhHHHHHHHHHHhCC-----CCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCCh-------hhHHHHHHHHHHcCC
Q 048281          249 GFFKNGRVVHGIVVKMGY-----DSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDI-------FSWNSIMTVHEQCGN  316 (660)
Q Consensus       249 ~~~~~a~~~~~~~~~~g~-----~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-------~~~~~li~~~~~~g~  316 (660)
                      |+..+-...+.++++.--     ..-...|..+...|-..|+++.|..+|++..+-+-       .+|..-...=.++.+
T Consensus       361 ~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~  440 (835)
T KOG2047|consen  361 GNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHEN  440 (835)
T ss_pred             CChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhh
Confidence            445555556666655411     11233678889999999999999999999876322       345555566667788


Q ss_pred             hHHHHHHHHHHhhcCCC----------C-------CHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcch
Q 048281          317 HDGTLRLFDRMLSAGFQ----------P-------DLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDV  379 (660)
Q Consensus       317 ~~~a~~~~~~m~~~g~~----------p-------~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  379 (660)
                      ++.|++++++.....-.          |       +...|+..+..-...|-++....+++.+++..+..         +
T Consensus       441 ~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaT---------P  511 (835)
T KOG2047|consen  441 FEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIAT---------P  511 (835)
T ss_pred             HHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCC---------H
Confidence            89999988876532111          1       11233344444455677888889999998887765         4


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCC----CCCH-hHHHHHHHHHHhc---CChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMS----KKDV-ASWNIMILGYGMD---GQGKEALDMFSCMCEAKLKPDEVTFVGV  451 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~-~~~~~li~~~~~~---g~~~~A~~~~~~m~~~g~~p~~~~~~~l  451 (660)
                      .+.-.....+-...-++++.+++++-.    -|++ ..|+..+.-+.+.   ...+.|..+|++.++ |.+|...-+..|
T Consensus       512 qii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyL  590 (835)
T KOG2047|consen  512 QIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYL  590 (835)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHH
Confidence            443344444555677889999998765    3444 4787776665542   368999999999999 677766544444


Q ss_pred             HHH--HhccCCHHHHHHHHHHhHHhcCCCCCh--HHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHH---HHHHHHHHH
Q 048281          452 LSA--CSHSGFLSQGREFLPLMESRYGVVPTI--EHYTCVIDMLGRAGQLNEAYELALAMPN-EANPV---VWRTLLAAS  523 (660)
Q Consensus       452 l~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~---~~~~l~~~~  523 (660)
                      +-+  --.-|....|+.+++.+..  ++++..  ..|+..|.--+..=-+.....+|++..+ =|+..   ...-....-
T Consensus       591 lYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlE  668 (835)
T KOG2047|consen  591 LYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLE  668 (835)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHh
Confidence            433  2345788889999998765  555543  4555555422211111112222222211 12222   122223334


Q ss_pred             HHcCChHHHHHHHHHHHhc-CCC-CcchHHHHHHHHHhCCC
Q 048281          524 RLHGNTDLAEIAAQRVFQL-EPG-HCGNYVLMSNIYVAGGK  562 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~-~p~-~~~~~~~l~~~~~~~g~  562 (660)
                      .+.|..+.|..++...-++ +|. ++..|...=.--.+.|+
T Consensus       669 tklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  669 TKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             hhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCC
Confidence            5667777777777776665 443 23334444444445565

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.37  E-value=5.9e-09  Score=96.04  Aligned_cols=176  Identities=13%  Similarity=0.112  Sum_probs=119.9

Q ss_pred             HHHHHHHHhcCCC-----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 048281          395 MRDAQMVFTKMSK-----KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLP  469 (660)
Q Consensus       395 ~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  469 (660)
                      +.-|...|+-.-.     .++.--.++..++.-..++++++..+..+..--..-|...| .+..+.+..|.+.+|.++|-
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~  417 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFI  417 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHh
Confidence            3445555554331     12334455666666667888888888888776444444444 46789999999999999998


Q ss_pred             HhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHH-HHHHHHcCChHHHHHHHHHHHhcCCCCcc
Q 048281          470 LMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTL-LAASRLHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       470 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                      .+... .++.+..-...|.++|.++++.+-|++++-++..+.+..+...+ ..-|.+.+.+--|-+.|..+..++|. |+
T Consensus       418 ~is~~-~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~-pE  495 (557)
T KOG3785|consen  418 RISGP-EIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT-PE  495 (557)
T ss_pred             hhcCh-hhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC-cc
Confidence            87542 33434444456788999999999999999988866566555544 46789999999999999998888884 44


Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCC
Q 048281          549 NYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNP  582 (660)
Q Consensus       549 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  582 (660)
                      .|         .|+...-..+|+.+.....+|.|
T Consensus       496 nW---------eGKRGACaG~f~~l~~~~~~~~p  520 (557)
T KOG3785|consen  496 NW---------EGKRGACAGLFRQLANHKTDPIP  520 (557)
T ss_pred             cc---------CCccchHHHHHHHHHcCCCCCCc
Confidence            44         34445555666666554444433

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.37  E-value=1.3e-09  Score=99.25  Aligned_cols=267  Identities=12%  Similarity=0.075  Sum_probs=157.3

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCC-C--chHHHHHHHHHHcCCCHHHH
Q 048281          213 IGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDS-G--VPVMNALIDMYGKGKCVGEA  289 (660)
Q Consensus       213 ~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~-~--~~~~~~li~~~~~~~~~~~A  289 (660)
                      +.+.++|.++|-+|.+.. +-+..+..++-+.+.+.|..+.|.++++.+.++.--+ +  ....-.|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            567788888888886631 1222344566677777788888888877776652111 1  12334566777788888888


Q ss_pred             HHHHHhcCCCC---hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhC
Q 048281          290 LEIFEMMEEKD---IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNG  366 (660)
Q Consensus       290 ~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~  366 (660)
                      +.+|..+.+.+   ..+...|+..|-...+|++|+++-+++.+.|-.+..+-.                           
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eI---------------------------  179 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEI---------------------------  179 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHH---------------------------
Confidence            88888776633   235566777787888888888877777766544332211                           


Q ss_pred             ccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048281          367 LAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK---DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP  443 (660)
Q Consensus       367 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  443 (660)
                                  ...|.-|...+....+++.|..++.+..+.   .+..--.+.+.+...|+++.|.+.++...+.+..-
T Consensus       180 ------------AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~y  247 (389)
T COG2956         180 ------------AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEY  247 (389)
T ss_pred             ------------HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHH
Confidence                        444555555555566666666666655422   23333445566677777777777777777664333


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHH-HHhCCCCCCHHHHHHHHHH
Q 048281          444 DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYEL-ALAMPNEANPVVWRTLLAA  522 (660)
Q Consensus       444 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~  522 (660)
                      -+.+...|..+|.+.|+.+++..++..+.+.   .+....-..+.+.-....-.+.|... .+.+..+|+...+..++..
T Consensus       248 l~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~  324 (389)
T COG2956         248 LSEVLEMLYECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDY  324 (389)
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHh
Confidence            3445566666777777777777777766552   22333333333333333333333333 3334445555555544443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.37  E-value=4.9e-08  Score=99.45  Aligned_cols=400  Identities=14%  Similarity=0.066  Sum_probs=266.3

Q ss_pred             CCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCC---CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChh-hHH
Q 048281          164 GLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLR---DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRF-TVT  239 (660)
Q Consensus       164 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~-t~~  239 (660)
                      .+.-|..+|..|.-+..++|+++.+-+.|++...-   ....|+.+-..|...|.-..|+.+++.-......|+.. .+.
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            35567888888888999999999999999987643   55679999999999999999999998876654345444 343


Q ss_pred             HHHHHHH-ccCCchhHHHHHHHHHHh--CC--CCCchHHHHHHHHHHcCC-----------CHHHHHHHHHhcCCC---C
Q 048281          240 GVLSALI-MMGFFKNGRVVHGIVVKM--GY--DSGVPVMNALIDMYGKGK-----------CVGEALEIFEMMEEK---D  300 (660)
Q Consensus       240 ~ll~~~~-~~~~~~~a~~~~~~~~~~--g~--~~~~~~~~~li~~~~~~~-----------~~~~A~~~~~~~~~~---~  300 (660)
                      ..-+.|. +.+..+++..+-..+++.  +.  ......|..+.-+|...-           ...++.+.+++..+.   |
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~d  477 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTD  477 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCC
Confidence            4444444 446777777777666662  21  223445555555554321           134566677776442   3


Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchh
Q 048281          301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVF  380 (660)
Q Consensus       301 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  380 (660)
                      +.+..-+.--|+..++.+.|.+..++..+.+-.-+...|..+.-.+...+++..|..+.+.....-...-         .
T Consensus       478 p~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~---------~  548 (799)
T KOG4162|consen  478 PLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNH---------V  548 (799)
T ss_pred             chHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhh---------h
Confidence            3333334455777889999999999999887677888888888888888999999998887754422210         0


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhc--------------------------CC----CC-C-HhHHHHHHHHHHhcCChHH
Q 048281          381 MNNALMDMYTKCGSMRDAQMVFTK--------------------------MS----KK-D-VASWNIMILGYGMDGQGKE  428 (660)
Q Consensus       381 ~~~~li~~~~~~g~~~~A~~~~~~--------------------------~~----~~-~-~~~~~~li~~~~~~g~~~~  428 (660)
                      ....-++.-...++.++|......                          +.    ++ + +.++..+..-...  +...
T Consensus       549 l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~--~~~~  626 (799)
T KOG4162|consen  549 LMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVAS--QLKS  626 (799)
T ss_pred             hchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHh--hhhh
Confidence            000111111223333333332221                          11    00 1 1122222111110  0000


Q ss_pred             HHHHHHHHHHcCCCC--CH------HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHH
Q 048281          429 ALDMFSCMCEAKLKP--DE------VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEA  500 (660)
Q Consensus       429 A~~~~~~m~~~g~~p--~~------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  500 (660)
                      +..-.. +...-+.|  +.      ..|......+...+..++|...+.++.+  ..+.....|......+...|++++|
T Consensus       627 ~~se~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA  703 (799)
T KOG4162|consen  627 AGSELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEA  703 (799)
T ss_pred             cccccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHH
Confidence            000000 11111222  21      1344455677888999999988888876  4556678888888999999999999


Q ss_pred             HHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHH--HHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          501 YELALAMPN--EANPVVWRTLLAASRLHGNTDLAEI--AAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       501 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+.|.....  +.++.+..++...+...|+...|..  ++..+++++|.+++.|..++.++.+.|+.++|.+.|+...+.
T Consensus       704 ~~af~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  704 KEAFLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            999987543  5567799999999999999888888  999999999999999999999999999999999999988664


Q ss_pred             C
Q 048281          577 N  577 (660)
Q Consensus       577 ~  577 (660)
                      .
T Consensus       784 e  784 (799)
T KOG4162|consen  784 E  784 (799)
T ss_pred             c
Confidence            3

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.36  E-value=1.8e-10  Score=108.93  Aligned_cols=196  Identities=14%  Similarity=0.021  Sum_probs=167.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ...+..+...|...|++++|.+.+++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            56788889999999999999999997652   356788889999999999999999999999864 34556777788889


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAE  533 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~  533 (660)
                      ...|++++|.+.++.+.+..........+..+...+...|++++|...+++...  +.+...+..+...+...|++++|.
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999987322233456778889999999999999999988654  345678889999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          534 IAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       534 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ..++++++..|.++..+..++.++...|+.++|..+.+.+..
T Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       190 AYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999999888888888999999999999999999888755

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=99.35  E-value=1.6e-09  Score=101.87  Aligned_cols=277  Identities=14%  Similarity=0.097  Sum_probs=205.8

Q ss_pred             CCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHH
Q 048281          283 GKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIH  359 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  359 (660)
                      .|++.+|++...+-.+   ..+..|-.-+.+-.+.|+.+.+-.++.+.-+.--.++.....+..+.....|+.+.|..-.
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            5777888877766443   2344555556667777888888888888877533445555556666677788888888888


Q ss_pred             HHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC-----------HhHHHHHHHHHHhcCChHH
Q 048281          360 GYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKD-----------VASWNIMILGYGMDGQGKE  428 (660)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----------~~~~~~li~~~~~~g~~~~  428 (660)
                      ..+.+.+..+         +.+......+|.+.|++.....++..+.+..           ..+|+.++.=....+..+.
T Consensus       177 ~~ll~~~pr~---------~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~g  247 (400)
T COG3071         177 DQLLEMTPRH---------PEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEG  247 (400)
T ss_pred             HHHHHhCcCC---------hHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchH
Confidence            8887777766         7788888888999999988888888887432           2367777776666666666


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 048281          429 ALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMP  508 (660)
Q Consensus       429 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  508 (660)
                      -...|+..... .+-++..-.+++.-+.+.|+.++|.++..+..++ +..|+   ...++. ..+-++.+.=++..++-.
T Consensus       248 L~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~---L~~~~~-~l~~~d~~~l~k~~e~~l  321 (400)
T COG3071         248 LKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPR---LCRLIP-RLRPGDPEPLIKAAEKWL  321 (400)
T ss_pred             HHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChh---HHHHHh-hcCCCCchHHHHHHHHHH
Confidence            66677766554 4667777788888999999999999999999985 77776   222222 234555444444443321


Q ss_pred             C--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          509 N--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       509 ~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .  +.++..+.+|..-|.+++.+.+|...|+.+++..|. ...|..++.++.+.|+.++|.+.+++...
T Consensus       322 ~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s-~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         322 KQHPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPS-ASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            1  345588999999999999999999999999999885 58899999999999999999999988753

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.32  E-value=1.8e-09  Score=109.18  Aligned_cols=239  Identities=18%  Similarity=0.202  Sum_probs=150.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHhcCC----------CChh-hHHHHHHHHHHcCChHHHHHHHHHHhhc---CCCCCHH
Q 048281          272 VMNALIDMYGKGKCVGEALEIFEMMEE----------KDIF-SWNSIMTVHEQCGNHDGTLRLFDRMLSA---GFQPDLV  337 (660)
Q Consensus       272 ~~~~li~~~~~~~~~~~A~~~~~~~~~----------~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~  337 (660)
                      +...|..+|...|+++.|+.+++...+          +.+. ..+.+...|...+++++|..+|+++...   ..-++..
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            333455555555555555555554322          1111 1234566677778888888887776632   1111111


Q ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHH
Q 048281          338 TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMI  417 (660)
Q Consensus       338 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  417 (660)
                      .+                                       ..+++.|..+|.+.|++++|...++              
T Consensus       281 ~v---------------------------------------a~~l~nLa~ly~~~GKf~EA~~~~e--------------  307 (508)
T KOG1840|consen  281 AV---------------------------------------AATLNNLAVLYYKQGKFAEAEEYCE--------------  307 (508)
T ss_pred             HH---------------------------------------HHHHHHHHHHHhccCChHHHHHHHH--------------
Confidence            11                                       4566667777888888887777654              


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcC--CCC----ChHHHHHHHHH
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKLKPDEV-TFVGVLSACSHSGFLSQGREFLPLMESRYG--VVP----TIEHYTCVIDM  490 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~  490 (660)
                                .|++++++.... ..|... -++.+...|+..+.+++|..+++...+.+.  ..+    -..+++.|...
T Consensus       308 ----------~Al~I~~~~~~~-~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l  376 (508)
T KOG1840|consen  308 ----------RALEIYEKLLGA-SHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAEL  376 (508)
T ss_pred             ----------HHHHHHHHhhcc-ChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Confidence                      344444441111 122222 233444456666777777766666554322  111    13578888888


Q ss_pred             HhhcCCHHHHHHHHHhCCC-------C--C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCCCc---chHHHH
Q 048281          491 LGRAGQLNEAYELALAMPN-------E--A-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQL----EPGHC---GNYVLM  553 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~-------~--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~p~~~---~~~~~l  553 (660)
                      |...|++++|.++++++..       +  + ....++.|...|.+.+++++|.++|.+....    .|+++   .+|..|
T Consensus       377 ~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL  456 (508)
T KOG1840|consen  377 YLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNL  456 (508)
T ss_pred             HHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHH
Confidence            9999999999888887542       1  1 2346778888999999999999999887653    55554   578899


Q ss_pred             HHHHHhCCChHHHHHHHHHHH
Q 048281          554 SNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       554 ~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      +.+|.+.|++++|.++.+.+.
T Consensus       457 ~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  457 AALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHcccHHHHHHHHHHHH
Confidence            999999999999999999874

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=5.2e-12  Score=85.46  Aligned_cols=50  Identities=38%  Similarity=0.747  Sum_probs=43.8

Q ss_pred             CCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhh
Q 048281           97 PNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCD  146 (660)
Q Consensus        97 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~  146 (660)
                      ||+.+||++|.+|++.|++++|+++|++|.+.|+.||..||+.+|++|++
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            78888888888888888888888888888888888888888888888874

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.27  E-value=4.4e-08  Score=94.45  Aligned_cols=219  Identities=11%  Similarity=-0.036  Sum_probs=171.6

Q ss_pred             HHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHH
Q 048281          310 VHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMY  389 (660)
Q Consensus       310 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~  389 (660)
                      .+.-.|+.-.|...|+..+.....++. .|..+...|.+..+.++..+.|....+.+...         +.+|..-.+++
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n---------~dvYyHRgQm~  404 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPEN---------PDVYYHRGQMR  404 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCCC---------CchhHhHHHHH
Confidence            345568888888888888876444333 26666677888888899999999888877665         67888888888


Q ss_pred             HhcCCHHHHHHHHhcCCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048281          390 TKCGSMRDAQMVFTKMSKK---DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGRE  466 (660)
Q Consensus       390 ~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  466 (660)
                      .-.+++++|..-|++...-   ++..|-.+..+.-+.+++++++..|++.++. ++.-+..|+.....+..+++++.|.+
T Consensus       405 flL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k  483 (606)
T KOG0547|consen  405 FLLQQYEEAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVK  483 (606)
T ss_pred             HHHHHHHHHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHH
Confidence            8899999999999987743   5567777777777888999999999999986 45566788989999999999999999


Q ss_pred             HHHHhHHhcCCCCC---------hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHH
Q 048281          467 FLPLMESRYGVVPT---------IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIA  535 (660)
Q Consensus       467 ~~~~~~~~~~~~~~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~  535 (660)
                      .|+..++   +.|+         +.+.-+++..-.+ +++..|..++++..+  +.....+.+|...-.+.|+.++|+++
T Consensus       484 ~YD~ai~---LE~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAiel  559 (606)
T KOG0547|consen  484 QYDKAIE---LEPREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIEL  559 (606)
T ss_pred             HHHHHHh---hccccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            9999875   2332         2233333333333 899999999998765  34567899999999999999999999


Q ss_pred             HHHHHhcC
Q 048281          536 AQRVFQLE  543 (660)
Q Consensus       536 ~~~~~~~~  543 (660)
                      |++...+-
T Consensus       560 FEksa~lA  567 (606)
T KOG0547|consen  560 FEKSAQLA  567 (606)
T ss_pred             HHHHHHHH
Confidence            99987764

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.25  E-value=7.6e-08  Score=90.80  Aligned_cols=303  Identities=9%  Similarity=-0.046  Sum_probs=210.9

Q ss_pred             CCCChhhHHHHHHHHHcc--CCchhHHHHHHHHHHhC-CCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChh---hH
Q 048281          231 IWMSRFTVTGVLSALIMM--GFFKNGRVVHGIVVKMG-YDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIF---SW  304 (660)
Q Consensus       231 ~~p~~~t~~~ll~~~~~~--~~~~~a~~~~~~~~~~g-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~---~~  304 (660)
                      +.|...+...-+.++++.  ++...+.+.+-.+.+.. ++.|+.....+..+|...|+.++|+..|++..--|+.   ..
T Consensus       190 ~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~M  269 (564)
T KOG1174|consen  190 VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAM  269 (564)
T ss_pred             cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhH
Confidence            334444555555555443  44444555555554443 5667888899999999999999999999987654443   33


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHH
Q 048281          305 NSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNA  384 (660)
Q Consensus       305 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  384 (660)
                      ......+.+.|++++...+...+.... .-+...|-.-....-...+++.|..+-+..++.+...         ...+-.
T Consensus       270 D~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~---------~~alil  339 (564)
T KOG1174|consen  270 DLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRN---------HEALIL  339 (564)
T ss_pred             HHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCccc---------chHHHh
Confidence            333455677888888888887776532 1122222222333345567777777777776665444         555555


Q ss_pred             HHHHHHhcCCHHHHHHHHhcCC--C-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHh-ccC
Q 048281          385 LMDMYTKCGSMRDAQMVFTKMS--K-KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVL-SACS-HSG  459 (660)
Q Consensus       385 li~~~~~~g~~~~A~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll-~~~~-~~g  459 (660)
                      -...+...|+.++|.-.|+...  . -+..+|.-|+.+|...|++.+|..+-+..... +..+..+...+. ..|. ...
T Consensus       340 KG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~  418 (564)
T KOG1174|consen  340 KGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPR  418 (564)
T ss_pred             ccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCch
Confidence            5667778899999988888765  3 37789999999999999999998887776654 344555555442 2333 333


Q ss_pred             CHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 048281          460 FLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRAGQLNEAYELALAMP-NEANPVVWRTLLAASRLHGNTDLAEIAAQ  537 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  537 (660)
                      --++|..+++...+   +.|+ ....+.+...+.+.|+.++++.++++.. ..+|.+..+.|...++..+.+.+|...|.
T Consensus       419 ~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~  495 (564)
T KOG1174|consen  419 MREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYY  495 (564)
T ss_pred             hHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            45778888887753   5555 3566778888889999999999998854 46888999999999999999999999999


Q ss_pred             HHHhcCCCCc
Q 048281          538 RVFQLEPGHC  547 (660)
Q Consensus       538 ~~~~~~p~~~  547 (660)
                      .++.++|++.
T Consensus       496 ~ALr~dP~~~  505 (564)
T KOG1174|consen  496 KALRQDPKSK  505 (564)
T ss_pred             HHHhcCccch
Confidence            9999999873

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.24  E-value=8.5e-07  Score=88.59  Aligned_cols=499  Identities=10%  Similarity=0.054  Sum_probs=307.7

Q ss_pred             hhHHHHHHHHhHcCCChhHHHHHHccC----CCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHH
Q 048281           67 PLSITSLINMYSKCCQMKYALFVFNNL----SCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIK  142 (660)
Q Consensus        67 ~~~~~~ll~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  142 (660)
                      +.+|-..+....++|++...+..|+..    ........|...+.-....+-++-++.+|++..+.    ++..-.--+.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            345566666677788888888888851    23346667999999999999999999999998874    3333666778


Q ss_pred             HHhhhCCHHHHHHHHHHHHHhC------CCCChhHHHHHHHHhHhc---CChHHHHHHHccCCCC----CchhHHHHHHH
Q 048281          143 CCCDVMAVLEVKKIHGLVFKLG------LDLDVYIGSALVNTYLKC---QFMEEALKVFEELPLR----DVVLWNAMVNG  209 (660)
Q Consensus       143 ~~~~~~~~~~a~~~~~~~~~~g------~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~----~~~~~~~li~~  209 (660)
                      .++..+++++|.+.+...+...      .+.+...|.-+-+..++.   +.--....+++.+..+    -...|++|...
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADY  257 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHH
Confidence            8889999999999888776431      234455666655555544   2233344555555543    23579999999


Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC----------------------chhHHHHHHHHHHhC--
Q 048281          210 YAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGF----------------------FKNGRVVHGIVVKMG--  265 (660)
Q Consensus       210 ~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~----------------------~~~a~~~~~~~~~~g--  265 (660)
                      |.+.|.++.|.++|++....-  .+..-|..+.++|++-..                      ++....-++.+....  
T Consensus       258 YIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~  335 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPL  335 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccch
Confidence            999999999999999987642  233344455554433211                      111222222222221  


Q ss_pred             ---------CCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC---C------ChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 048281          266 ---------YDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE---K------DIFSWNSIMTVHEQCGNHDGTLRLFDRM  327 (660)
Q Consensus       266 ---------~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~------~~~~~~~li~~~~~~g~~~~a~~~~~~m  327 (660)
                               -+.++..|..-+..  ..|+..+-...|.+..+   |      -...|..+.+.|-..|+.+.|..+|++.
T Consensus       336 ~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  336 LLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence                     01122222222222  23555566666655432   1      2246889999999999999999999998


Q ss_pred             hhcCCCCC---HHHHHHHHHHHhcccchHHHHHHHHHHHHhCcc-----CCCCCCC----CcchhHHHHHHHHHHhcCCH
Q 048281          328 LSAGFQPD---LVTFSTVLPACSHLAALMHGRQIHGYIVVNGLA-----KNGSCKD----IDDVFMNNALMDMYTKCGSM  395 (660)
Q Consensus       328 ~~~g~~p~---~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~----~~~~~~~~~li~~~~~~g~~  395 (660)
                      .+-..+--   ..+|..-...=.+..+++.|..+.+......-.     .++..+.    ..+..+|...++.--..|-+
T Consensus       414 ~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtf  493 (835)
T KOG2047|consen  414 TKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTF  493 (835)
T ss_pred             hcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccH
Confidence            76533221   112222222223455667777766655322111     0111111    11245666667777778888


Q ss_pred             HHHHHHHhcCCCCCHhHHHHHH---HHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhc---cCCHHHHHHHH
Q 048281          396 RDAQMVFTKMSKKDVASWNIMI---LGYGMDGQGKEALDMFSCMCEAKLKPDE-VTFVGVLSACSH---SGFLSQGREFL  468 (660)
Q Consensus       396 ~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~---~g~~~~a~~~~  468 (660)
                      +....+++++..-.+.|=..++   .-+-.+.-++++.++|++-+..--.|+. ..|+..+.-+.+   ...++.|..+|
T Consensus       494 estk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLF  573 (835)
T KOG2047|consen  494 ESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLF  573 (835)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence            8888899888743222211121   2233455678888888877665444554 356666654432   34799999999


Q ss_pred             HHhHHhcCCCCCh--HHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          469 PLMESRYGVVPTI--EHYTCVIDMLGRAGQLNEAYELALAMPNEAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       469 ~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      +++.+  +.+|..  ..|-.....=.+-|....|+.++++......    ...||..|.--...=-+..-..+|+++++.
T Consensus       574 EqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~  651 (835)
T KOG2047|consen  574 EQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIES  651 (835)
T ss_pred             HHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHh
Confidence            99998  776654  2333333444456888999999999765322    246776665433333345567889999998


Q ss_pred             CCCCc--chHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          543 EPGHC--GNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       543 ~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      -|++.  ......+..-.+.|..+-|+.++..-.+
T Consensus       652 Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq  686 (835)
T KOG2047|consen  652 LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQ  686 (835)
T ss_pred             CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhh
Confidence            77653  2344566777788999999999876544

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.24  E-value=6.4e-09  Score=94.90  Aligned_cols=287  Identities=14%  Similarity=0.109  Sum_probs=187.5

Q ss_pred             CCCHHHHHHHHHhcCCCChhhH---HHHHHHHHHcCChHHHHHHHHHHhhcCCCCCH---HHHHHHHHHHhcccchHHHH
Q 048281          283 GKCVGEALEIFEMMEEKDIFSW---NSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL---VTFSTVLPACSHLAALMHGR  356 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~---~t~~~ll~~~~~~~~~~~a~  356 (660)
                      +.+.|+|.+.|-+|.+.|+.++   -+|.+.|-+.|..|.|+++-+.+.++.--+..   ...-.+.+-|...|-++.|+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            3456667776666666544433   34566666667777777766666653111111   12223334455666677777


Q ss_pred             HHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCH--------hHHHHHHHHHHhcCChHH
Q 048281          357 QIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDV--------ASWNIMILGYGMDGQGKE  428 (660)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--------~~~~~li~~~~~~g~~~~  428 (660)
                      ++|..+.+.+.-.         ......|+..|-+..++++|+++-+++.+.+.        ..|.-+...+....+.+.
T Consensus       128 ~~f~~L~de~efa---------~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~  198 (389)
T COG2956         128 DIFNQLVDEGEFA---------EGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDR  198 (389)
T ss_pred             HHHHHHhcchhhh---------HHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHH
Confidence            7776666544322         44566777788888888888877765543222        234455566666788999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHH-HHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 048281          429 ALDMFSCMCEAKLKPDEVTFV-GVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAM  507 (660)
Q Consensus       429 A~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  507 (660)
                      |..++.+..+.  .|+.+--+ .+.......|+++.|.+.++.+.+. +..--..+...|..+|...|+.++...++.++
T Consensus       199 A~~~l~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~  275 (389)
T COG2956         199 ARELLKKALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRA  275 (389)
T ss_pred             HHHHHHHHHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            99999999886  44443333 3445788899999999999999884 55555678889999999999999999998875


Q ss_pred             CC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHH-HH--hCCChHHHHHHHHHHHhCCCccCC
Q 048281          508 PN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNI-YV--AGGKYEEVLDIRHTMRQQNVRKNP  582 (660)
Q Consensus       508 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~-~~--~~g~~~~a~~~~~~~~~~~~~~~~  582 (660)
                      .. .+.+..-..+...-....-.+.|...+.+-+..+|.--. +..+... ..  ..|++.+....++.|....++..|
T Consensus       276 ~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~g-f~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~  353 (389)
T COG2956         276 METNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRG-FHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKP  353 (389)
T ss_pred             HHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHH-HHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcC
Confidence            44 455555555555555555566777777777777886533 3344443 33  356788999999999766555444

>PF13041 PPR_2: PPR repeat family

Probab=99.23  E-value=2.9e-11  Score=81.77  Aligned_cols=50  Identities=32%  Similarity=0.519  Sum_probs=46.0

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 048281          408 KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSH  457 (660)
Q Consensus       408 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  457 (660)
                      ||+++||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
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            68899999999999999999999999999999999999999999999874

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.23  E-value=5e-07  Score=89.49  Aligned_cols=465  Identities=12%  Similarity=0.100  Sum_probs=259.3

Q ss_pred             hhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHH--HHHH-
Q 048281           33 ATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAM--ISGF-  109 (660)
Q Consensus        33 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l--i~~~-  109 (660)
                      ..+.+=+..+...+++++|.+....++..+ +-+...+.+=+-+..+.+.+++|+.+.+ ...  -..+++..  =.+| 
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ik-k~~--~~~~~~~~~fEKAYc   88 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIK-KNG--ALLVINSFFFEKAYC   88 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHH-hcc--hhhhcchhhHHHHHH
Confidence            345556677888899999999999999887 3345555666667788999999998887 222  11222222  3444 


Q ss_pred             -HcCCChhHHHHHHHHHHHCCCCCCc-ccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCC-ChhHHHHHHHHhHhcCChH
Q 048281          110 -YSNDFAFKGLDFFNHMRQLGVLPDK-YTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDL-DVYIGSALVNTYLKCQFME  186 (660)
Q Consensus       110 -~~~~~~~~a~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~  186 (660)
                       .+.+..++|+..++     |..++. .+...-...|.+.+++++|..+|+.+.+++.+- +...-..++.+-..    -
T Consensus        89 ~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l  159 (652)
T KOG2376|consen   89 EYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----L  159 (652)
T ss_pred             HHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----h
Confidence             46799999999988     344433 366667788999999999999999998876432 22222333322111    1


Q ss_pred             HHHHHHccCCCCCchhHHHH---HHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHH
Q 048281          187 EALKVFEELPLRDVVLWNAM---VNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVK  263 (660)
Q Consensus       187 ~A~~~~~~~~~~~~~~~~~l---i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  263 (660)
                      .+. +.+..+.....+|..+   ...+...|++.+|+++++...+.+.+           .+. .++.. -+.+-.++  
T Consensus       160 ~~~-~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e-----------~l~-~~d~~-eEeie~el--  223 (652)
T KOG2376|consen  160 QVQ-LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICRE-----------KLE-DEDTN-EEEIEEEL--  223 (652)
T ss_pred             hHH-HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH-----------hhc-ccccc-hhhHHHHH--
Confidence            111 3444443333344433   34567789999999999988432110           000 00000 00000000  


Q ss_pred             hCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCC---Ch----hhHHHHHHHHHHcCChH-HHHHHHHHHhhcCCCCC
Q 048281          264 MGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEK---DI----FSWNSIMTVHEQCGNHD-GTLRLFDRMLSAGFQPD  335 (660)
Q Consensus       264 ~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~---~~----~~~~~li~~~~~~g~~~-~a~~~~~~m~~~g~~p~  335 (660)
                            ..+-.-|..++-..|+.++|.+++..+.+.   |.    +.-|.++..-....-++ .++..++.....   ..
T Consensus       224 ------~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~---l~  294 (652)
T KOG2376|consen  224 ------NPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFK---LA  294 (652)
T ss_pred             ------HHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHH---hH
Confidence                  001122344455566666666666665442   21    11222222211111111 122222222110   00


Q ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC-HhHHH
Q 048281          336 LVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKD-VASWN  414 (660)
Q Consensus       336 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  414 (660)
                      ......+                 ..-.+..            ...-+.++.+|  .+..+.+.++-....... ...+.
T Consensus       295 ~~~l~~L-----------------s~~qk~~------------i~~N~~lL~l~--tnk~~q~r~~~a~lp~~~p~~~~~  343 (652)
T KOG2376|consen  295 EFLLSKL-----------------SKKQKQA------------IYRNNALLALF--TNKMDQVRELSASLPGMSPESLFP  343 (652)
T ss_pred             HHHHHHH-----------------HHHHHHH------------HHHHHHHHHHH--hhhHHHHHHHHHhCCccCchHHHH
Confidence            0000000                 0000000            12223444444  345556666666655322 23334


Q ss_pred             HHHHHHH--hcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHH--------HhHHhcCCCCChH
Q 048281          415 IMILGYG--MDGQGKEALDMFSCMCEAKLKPDE--VTFVGVLSACSHSGFLSQGREFLP--------LMESRYGVVPTIE  482 (660)
Q Consensus       415 ~li~~~~--~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~--------~~~~~~~~~~~~~  482 (660)
                      +++....  +...+..+.+++...-+.  .|..  ......+......|+++.|.+++.        .+.+ .+..|  .
T Consensus       344 ~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~-~~~~P--~  418 (652)
T KOG2376|consen  344 ILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILE-AKHLP--G  418 (652)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhh-hccCh--h
Confidence            4433322  222467777777777664  3443  344445566778899999999888        4443 24444  4


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC--------CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMP--------NEA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      +..+++..|.+.++-+.|..++.+..        ..+ -..+|.-+...-.++|+.++|...++++++.+|++......+
T Consensus       419 ~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~l  498 (652)
T KOG2376|consen  419 TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQL  498 (652)
T ss_pred             HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHH
Confidence            55677788888777655555554432        121 123445555556778999999999999999999999999999


Q ss_pred             HHHHHhCCChHHHHHHHHH
Q 048281          554 SNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       554 ~~~~~~~g~~~~a~~~~~~  572 (660)
                      +.+|+... .+.|..+-+.
T Consensus       499 V~a~~~~d-~eka~~l~k~  516 (652)
T KOG2376|consen  499 VTAYARLD-PEKAESLSKK  516 (652)
T ss_pred             HHHHHhcC-HHHHHHHhhc
Confidence            99988763 5666665444

>PRK12370 invasion protein regulator; Provisional

Probab=99.22  E-value=4.7e-09  Score=111.60  Aligned_cols=244  Identities=12%  Similarity=0.057  Sum_probs=178.4

Q ss_pred             ChHHHHHHHHHHhhcCCCCCHH-HHHHHHHHHh---------cccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHH
Q 048281          316 NHDGTLRLFDRMLSAGFQPDLV-TFSTVLPACS---------HLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNAL  385 (660)
Q Consensus       316 ~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  385 (660)
                      +.++|..+|++..+.  .|+.. .+..+..++.         ..++.+.|...++.+++.++..         ...+..+
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~---------~~a~~~l  344 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNN---------PQALGLL  344 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCC---------HHHHHHH
Confidence            456788888888765  55543 3333332222         2345788999999888876554         7788889


Q ss_pred             HHHHHhcCCHHHHHHHHhcCC--CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCH
Q 048281          386 MDMYTKCGSMRDAQMVFTKMS--KK-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEV-TFVGVLSACSHSGFL  461 (660)
Q Consensus       386 i~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~  461 (660)
                      ...+...|++++|...|++..  .| +...|..+...+...|++++|+..+++..+.  .|+.. .+..++..+...|++
T Consensus       345 g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~  422 (553)
T PRK12370        345 GLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGI  422 (553)
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCH
Confidence            999999999999999999876  33 5668888999999999999999999999986  45432 333344456668999


Q ss_pred             HHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHHcCChHHHHHHHHH
Q 048281          462 SQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN-PVVWRTLLAASRLHGNTDLAEIAAQR  538 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~  538 (660)
                      ++|...++++.+.  ..| +...+..+..+|...|+.++|...++++.. .|+ ...++.+...|...|  +.|...+++
T Consensus       423 eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~  498 (553)
T PRK12370        423 DDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIRE  498 (553)
T ss_pred             HHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHH
Confidence            9999999998763  234 455677888999999999999999998654 344 345566666777777  488888888


Q ss_pred             HHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          539 VFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       539 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      +++..-..+.....+..+|.-.|+-+.+..+ +++.+.+
T Consensus       499 ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        499 FLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             HHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            7775222222234477888888988888777 7776654

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.18  E-value=1.7e-07  Score=92.27  Aligned_cols=262  Identities=12%  Similarity=0.029  Sum_probs=160.3

Q ss_pred             CCCHHHHHHHHHhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHH
Q 048281          283 GKCVGEALEIFEMMEEK---DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIH  359 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  359 (660)
                      .+++.+..++++.+.+.   +...+..-|..+...|+..+-+.+=.+|.+. .+-...+|-.+.--|...|...+|++.+
T Consensus       257 ~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seARry~  335 (611)
T KOG1173|consen  257 GCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEARRYF  335 (611)
T ss_pred             cChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHHHHHH
Confidence            33444444444444332   2223333344444445544444444444443 1222334444444444455555555555


Q ss_pred             HHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048281          360 GYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCM  436 (660)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m  436 (660)
                      ......+...         ...|-...+.|+-.|.-+.|...+....+   .....+--+..-|.+.++...|.+.|.+.
T Consensus       336 SKat~lD~~f---------gpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A  406 (611)
T KOG1173|consen  336 SKATTLDPTF---------GPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQA  406 (611)
T ss_pred             HHHhhcCccc---------cHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHH
Confidence            5554443333         44566666666666666666665554321   11112223444567778888888888887


Q ss_pred             HHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc-CCC----CChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-
Q 048281          437 CEAKLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRY-GVV----PTIEHYTCVIDMLGRAGQLNEAYELALAMPN-  509 (660)
Q Consensus       437 ~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  509 (660)
                      ..  +.| |+..++-+.-.....+.+.+|..+|+...... .+.    .-..+++.|..+|-+++++++|+..+++... 
T Consensus       407 ~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l  484 (611)
T KOG1173|consen  407 LA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL  484 (611)
T ss_pred             Hh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            76  344 44555555555556778888888888776311 111    1335688899999999999999999998543 


Q ss_pred             -CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 048281          510 -EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNI  556 (660)
Q Consensus       510 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  556 (660)
                       +.+..++.+++-.|...|+.+.|...|.+++.+.|++..+-..|..+
T Consensus       485 ~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  485 SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLA  532 (611)
T ss_pred             CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence             67888999999999999999999999999999999985554444433

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.17  E-value=1.1e-08  Score=96.52  Aligned_cols=198  Identities=12%  Similarity=0.063  Sum_probs=111.5

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCC-HHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcch
Q 048281          301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPD-LVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDV  379 (660)
Q Consensus       301 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  379 (660)
                      ...+..+...+...|++++|...+++..+..  |+ ...+..+...+...|+++.|.+.++.......            
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~------------   96 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD--PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP------------   96 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC------------
Confidence            3456667777777777777777777766542  32 23333444444444455555444444443322            


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcc
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACSHS  458 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~  458 (660)
                                                  .+...+..+...+...|++++|...+++.......| ....+..+..++...
T Consensus        97 ----------------------------~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (234)
T TIGR02521        97 ----------------------------NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKA  148 (234)
T ss_pred             ----------------------------CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHc
Confidence                                        233444555555556666666666666665432112 223444455566666


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHH
Q 048281          459 GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAA  536 (660)
Q Consensus       459 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~  536 (660)
                      |++++|...+.+..+.  .+.+...+..+...+...|++++|...+++...  +.+...+..+...+...|+.++|....
T Consensus       149 g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  226 (234)
T TIGR02521       149 GDFDKAEKYLTRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYG  226 (234)
T ss_pred             CCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            6777777766666552  223345566666666677777777666665432  334455556666666677777777666


Q ss_pred             HHHHhc
Q 048281          537 QRVFQL  542 (660)
Q Consensus       537 ~~~~~~  542 (660)
                      +.+...
T Consensus       227 ~~~~~~  232 (234)
T TIGR02521       227 AQLQKL  232 (234)
T ss_pred             HHHHhh
Confidence            665544

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.16  E-value=9.6e-07  Score=81.81  Aligned_cols=445  Identities=11%  Similarity=0.009  Sum_probs=234.4

Q ss_pred             HHHhHcCCChhHHHHHHccCCCCC---CcccH-HHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCC
Q 048281           74 INMYSKCCQMKYALFVFNNLSCEP---NVFTY-NAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMA  149 (660)
Q Consensus        74 l~~~~~~g~~~~A~~~~~~~~~~~---~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~  149 (660)
                      +.-+....++..|+.+++ .....   ..... -.+.-.+.+.|++++|+..|..+.+. -.|+...+..|.-+..-.|.
T Consensus        29 Ledfls~rDytGAislLe-fk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~  106 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLE-FKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQ  106 (557)
T ss_pred             HHHHHhcccchhHHHHHH-HhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHH
Confidence            445555677777777766 22110   01111 22334556667777777777776653 34555555556555556677


Q ss_pred             HHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHC
Q 048281          150 VLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKE  229 (660)
Q Consensus       150 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  229 (660)
                      +.+|+++....     +.++..-..|++.-.+.++-++-..+-+.+.... .---+|.....-.-.+.+|++++.+....
T Consensus       107 Y~eA~~~~~ka-----~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  107 YIEAKSIAEKA-----PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHHHHHHHhhC-----CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            77776665433     1122333344455555566555554444433211 11222333333334556666666666543


Q ss_pred             CCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC--C-ChhhHHH
Q 048281          230 GIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE--K-DIFSWNS  306 (660)
Q Consensus       230 ~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~  306 (660)
                      +  |.-...+.-+                                  .-+|.+..-++-+.++++-..+  | ++.+-|.
T Consensus       181 n--~ey~alNVy~----------------------------------ALCyyKlDYydvsqevl~vYL~q~pdStiA~NL  224 (557)
T KOG3785|consen  181 N--PEYIALNVYM----------------------------------ALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNL  224 (557)
T ss_pred             C--hhhhhhHHHH----------------------------------HHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHH
Confidence            2  2222222222                                  2234444444444444433222  1 2223333


Q ss_pred             HHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHH-HHH-HHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHH
Q 048281          307 IMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFST-VLP-ACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNA  384 (660)
Q Consensus       307 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~-ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  384 (660)
                      ......+.=+-.-|.+-.+++.+.+-..  ..+.. +++ -+.-..+-+.|.+++--+.+.-            +.....
T Consensus       225 kacn~fRl~ngr~ae~E~k~ladN~~~~--~~f~~~l~rHNLVvFrngEgALqVLP~L~~~I------------PEARlN  290 (557)
T KOG3785|consen  225 KACNLFRLINGRTAEDEKKELADNIDQE--YPFIEYLCRHNLVVFRNGEGALQVLPSLMKHI------------PEARLN  290 (557)
T ss_pred             HHHHHhhhhccchhHHHHHHHHhccccc--chhHHHHHHcCeEEEeCCccHHHhchHHHhhC------------hHhhhh
Confidence            3333333222223333333333322110  11110 110 0111123345555554443332            334455


Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCC-------hHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHh
Q 048281          385 LMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQ-------GKEALDMFSCMCEAKLKPDEV-TFVGVLSACS  456 (660)
Q Consensus       385 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~-------~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~  456 (660)
                      |+--|.+.+++.+|..+..++...++.-|-.-...++..|+       ..-|.+.|+-.-+.+..-|.. --.++.+++.
T Consensus       291 L~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fF  370 (557)
T KOG3785|consen  291 LIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFF  370 (557)
T ss_pred             heeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHH
Confidence            77778999999999999988875554433322223333333       334555554443444333322 1223344445


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCC--CCHHHHHHH-HHHHHHcCChHHHH
Q 048281          457 HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNE--ANPVVWRTL-LAASRLHGNTDLAE  533 (660)
Q Consensus       457 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~l-~~~~~~~g~~~~A~  533 (660)
                      -..++++.+.+++.+.. + +..|....-.+..+++..|.+.+|+++|-++..+  .+..+|.++ .++|.+.|..+.|.
T Consensus       371 L~~qFddVl~YlnSi~s-Y-F~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW  448 (557)
T KOG3785|consen  371 LSFQFDDVLTYLNSIES-Y-FTNDDDFNLNLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAW  448 (557)
T ss_pred             HHHHHHHHHHHHHHHHH-H-hcCcchhhhHHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHH
Confidence            55678899999998876 3 3344444456789999999999999999887652  455666665 56778889999997


Q ss_pred             HHHHHHHhcCCCCc-chHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048281          534 IAAQRVFQLEPGHC-GNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRK  580 (660)
Q Consensus       534 ~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  580 (660)
                      .++-++-  .|.+. .....+++.|.+.+.+--|.+.|+.+......|
T Consensus       449 ~~~lk~~--t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  449 DMMLKTN--TPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             HHHHhcC--CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence            7764321  23222 234456778889999999999999998765443

>PRK12370 invasion protein regulator; Provisional

Probab=99.16  E-value=6.2e-09  Score=110.69  Aligned_cols=211  Identities=13%  Similarity=0.029  Sum_probs=164.6

Q ss_pred             cchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh---------cCCHHHHHHHHhcCCC---CCHhHHHHHH
Q 048281          350 AALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK---------CGSMRDAQMVFTKMSK---KDVASWNIMI  417 (660)
Q Consensus       350 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~---------~g~~~~A~~~~~~~~~---~~~~~~~~li  417 (660)
                      ++.+.|...++..++..+..         ...+..+..+|..         .+++++|...+++..+   .+...|..+.
T Consensus       275 ~~~~~A~~~~~~Al~ldP~~---------a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg  345 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPNS---------IAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLG  345 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCcc---------HHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            34578888888888776554         5666666665542         3457899999998763   3677888898


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh-HHHHHHHHHHhhcC
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKLKPD-EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI-EHYTCVIDMLGRAG  495 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g  495 (660)
                      ..+...|++++|...|+++.+.  .|+ ...+..+..++...|++++|...++.+.+   ..|+. ..+..++..+...|
T Consensus       346 ~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~~~g  420 (553)
T PRK12370        346 LINTIHSEYIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITYYHT  420 (553)
T ss_pred             HHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHhcc
Confidence            9999999999999999999986  454 55677788889999999999999999986   33432 33344455577789


Q ss_pred             CHHHHHHHHHhCCC--CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          496 QLNEAYELALAMPN--EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       496 ~~~~A~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      ++++|...+++...  +| ++..+..+..++...|+.++|...++++....|.+......++..|...|  ++|...++.
T Consensus       421 ~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~  498 (553)
T PRK12370        421 GIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIRE  498 (553)
T ss_pred             CHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHH
Confidence            99999999988643  24 45567788888999999999999999998888888777888888888888  588887887


Q ss_pred             HHhC
Q 048281          573 MRQQ  576 (660)
Q Consensus       573 ~~~~  576 (660)
                      +.+.
T Consensus       499 ll~~  502 (553)
T PRK12370        499 FLES  502 (553)
T ss_pred             HHHH
Confidence            7553

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.14  E-value=5.7e-09  Score=90.95  Aligned_cols=164  Identities=15%  Similarity=0.041  Sum_probs=139.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDML  491 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  491 (660)
                      +...|..+|.+.|+...|..-+++.++.. +.+..++..+...|.+.|..+.|.+.|+.+.+  --+-+..+.|.....+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHH
Confidence            44567778999999999999999999863 33456788888889999999999999999876  3344567888899999


Q ss_pred             hhcCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHH
Q 048281          492 GRAGQLNEAYELALAMPNEAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVL  567 (660)
Q Consensus       492 ~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  567 (660)
                      +..|++++|...|++....|.    ..+|..+..+..+.|+.+.|...+++.++++|+.+.....+++...+.|++.+|.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHH
Confidence            999999999999998765433    4588888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCC
Q 048281          568 DIRHTMRQQNV  578 (660)
Q Consensus       568 ~~~~~~~~~~~  578 (660)
                      .+++.....+.
T Consensus       194 ~~~~~~~~~~~  204 (250)
T COG3063         194 LYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHhccc
Confidence            99999877654

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.14  E-value=1.7e-09  Score=98.53  Aligned_cols=225  Identities=11%  Similarity=0.040  Sum_probs=152.8

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHH
Q 048281          305 NSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNA  384 (660)
Q Consensus       305 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  384 (660)
                      +.+.+.|.+.|.+.+|.+.|+.-.+.  .|-..||..+-+                                        
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLsk----------------------------------------  264 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSK----------------------------------------  264 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHH----------------------------------------
Confidence            45666666777777776666666554  333334444444                                        


Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH
Q 048281          385 LMDMYTKCGSMRDAQMVFTKMSK--K-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFL  461 (660)
Q Consensus       385 li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  461 (660)
                         .|.+..+...|+.+|.+-..  | |+....-+.+.+-..++.++|.++|+...+.. +.+......+...|.-.+++
T Consensus       265 ---vY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~P  340 (478)
T KOG1129|consen  265 ---VYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNP  340 (478)
T ss_pred             ---HHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCCh
Confidence               44444555555555544331  2 22233334555666677777777777776642 33444555555566666777


Q ss_pred             HHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC---CCC--HHHHHHHHHHHHHcCChHHHHHHH
Q 048281          462 SQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN---EAN--PVVWRTLLAASRLHGNTDLAEIAA  536 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~--~~~~~~l~~~~~~~g~~~~A~~~~  536 (660)
                      +-|+.+|+.+.+ .|+ -+...|+.+.-++.-.++++-++.-|++...   .|+  ..+|-.+.......||+..|.+.|
T Consensus       341 E~AlryYRRiLq-mG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcf  418 (478)
T KOG1129|consen  341 EMALRYYRRILQ-MGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCF  418 (478)
T ss_pred             HHHHHHHHHHHH-hcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHH
Confidence            777777777776 354 3556677777777777777777777665432   233  457888888888999999999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          537 QRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       537 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      +-++..+|++.+.+++|+.+-.+.|++++|+.+++......
T Consensus       419 rlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  419 RLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            99999999999999999999999999999999999887654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.13  E-value=2.3e-07  Score=85.55  Aligned_cols=344  Identities=14%  Similarity=0.105  Sum_probs=236.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHH---HHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHH-HHHHHhc
Q 048281          273 MNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSI---MTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFST-VLPACSH  348 (660)
Q Consensus       273 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~-ll~~~~~  348 (660)
                      .-.+...+...|++..|+.-|....+-|+..|.++   ...|...|+..-|+.-+.+.++.  +||-..-.. --..+.+
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK  118 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLK  118 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhh
Confidence            34456667778888899999988888777766655   45688888888888888888875  787543221 1234678


Q ss_pred             ccchHHHHHHHHHHHHhCccCCCCCC----C--CcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHH
Q 048281          349 LAALMHGRQIHGYIVVNGLAKNGSCK----D--IDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILG  419 (660)
Q Consensus       349 ~~~~~~a~~~~~~~~~~~~~~~~~~~----~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  419 (660)
                      .|.++.|..-|+.+++..........    -  ..........+..+.-.|+...|+.....+.+   -|...|..-..+
T Consensus       119 ~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc  198 (504)
T KOG0624|consen  119 QGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKC  198 (504)
T ss_pred             cccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHH
Confidence            89999999999988877653321100    0  00011222334455567888889888887763   377788888899


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHH----HHHH---H----
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEH----YTCV---I----  488 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----~~~l---~----  488 (660)
                      |...|.+..|+.=++...+.. .-+..++--+-..+...|+.+.++...++..   .+.||...    |..|   .    
T Consensus       199 ~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL---KldpdHK~Cf~~YKklkKv~K~le  274 (504)
T KOG0624|consen  199 YIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECL---KLDPDHKLCFPFYKKLKKVVKSLE  274 (504)
T ss_pred             HHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHH---ccCcchhhHHHHHHHHHHHHHHHH
Confidence            999999999999888877653 3344455555667778899999888888875   45666432    2111   1    


Q ss_pred             --HHHhhcCCHHHHHHHHHhC-CCCCCH-----HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC
Q 048281          489 --DMLGRAGQLNEAYELALAM-PNEANP-----VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       489 --~~~~~~g~~~~A~~~~~~~-~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  560 (660)
                        ....+.++|.++.+-.+.. ..+|..     ..+..+-.++...+++.+|++...++++.+|++..++.--+.+|.-.
T Consensus       275 s~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~d  354 (504)
T KOG0624|consen  275 SAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGD  354 (504)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhh
Confidence              1234566777777776663 334442     23444556778889999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhCCCccCCcEEEEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHcCcccCceeeccCCChhh
Q 048281          561 GKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASG  640 (660)
Q Consensus       561 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~~~~p~~~~~~~~~~~~~  640 (660)
                      ..|++|+.-+++..+.+-                       +|.   .+..-+.+..+-.+..|......++.+.-+++.
T Consensus       355 E~YD~AI~dye~A~e~n~-----------------------sn~---~~reGle~Akrlkkqs~kRDYYKILGVkRnAsK  408 (504)
T KOG0624|consen  355 EMYDDAIHDYEKALELNE-----------------------SNT---RAREGLERAKRLKKQSGKRDYYKILGVKRNASK  408 (504)
T ss_pred             HHHHHHHHHHHHHHhcCc-----------------------ccH---HHHHHHHHHHHHHHHhccchHHHHhhhcccccH
Confidence            999999999999887543                       222   223333333333445566666667777777777


Q ss_pred             hhHhhhHH
Q 048281          641 FEKHRLYL  648 (660)
Q Consensus       641 ~~~~~~~~  648 (660)
                      .|+-++|+
T Consensus       409 qEI~KAYR  416 (504)
T KOG0624|consen  409 QEITKAYR  416 (504)
T ss_pred             HHHHHHHH
Confidence            77777665

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.13  E-value=1.1e-08  Score=99.35  Aligned_cols=193  Identities=14%  Similarity=0.120  Sum_probs=144.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD-EVTFVGVLSA  454 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~  454 (660)
                      ...|..+...|.+.|+.++|...|++..   ..+...|+.+...+...|++++|...|++..+.  .|+ ..++..+..+
T Consensus        64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~  141 (296)
T PRK11189         64 AQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            5667888889999999999999999876   346789999999999999999999999999985  554 5677778888


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEI  534 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  534 (660)
                      +...|++++|.+.++...+.   .|+..........+...++.++|.+.+++.....+...|. ........|+...+ +
T Consensus       142 l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~-~~~~~~~lg~~~~~-~  216 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWG-WNIVEFYLGKISEE-T  216 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccH-HHHHHHHccCCCHH-H
Confidence            89999999999999999863   3433222222233456788999999997643322223333 23333446666554 2


Q ss_pred             HHHHHH-------hcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          535 AAQRVF-------QLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       535 ~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      .+..+.       ++.|..+.+|..++.++...|++++|...|++..+.++
T Consensus       217 ~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        217 LMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             HHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            444443       44566778999999999999999999999999987654

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.12  E-value=6.6e-06  Score=82.70  Aligned_cols=470  Identities=13%  Similarity=0.069  Sum_probs=221.1

Q ss_pred             hHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHcc--CCCCCCcccHHHHHHHHHc
Q 048281           34 TCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNN--LSCEPNVFTYNAMISGFYS  111 (660)
Q Consensus        34 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~~li~~~~~  111 (660)
                      -|...+. |...+.+..+....+.+++ +.+-.+.+.....-.+...|+-++|......  .....+.++|+.+.-.+..
T Consensus        10 lF~~~lk-~yE~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~   87 (700)
T KOG1156|consen   10 LFRRALK-CYETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRS   87 (700)
T ss_pred             HHHHHHH-HHHHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhh
Confidence            3444444 4456677777777777777 3333444544444455566888888877762  1234566778888877888


Q ss_pred             CCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHH
Q 048281          112 NDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKV  191 (660)
Q Consensus       112 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  191 (660)
                      ..++++|+++|......+.. |...|.-+.-.=++.|+++.......++.+.                            
T Consensus        88 dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql----------------------------  138 (700)
T KOG1156|consen   88 DKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQL----------------------------  138 (700)
T ss_pred             hhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh----------------------------
Confidence            88888888888887764321 3333333322222333333222222222111                            


Q ss_pred             HccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCChhhHHHHHH------HHHccCCchhHHHHHHHHHHh
Q 048281          192 FEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEG-IWMSRFTVTGVLS------ALIMMGFFKNGRVVHGIVVKM  264 (660)
Q Consensus       192 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~-~~p~~~t~~~ll~------~~~~~~~~~~a~~~~~~~~~~  264 (660)
                          .......|..+..++.-.|+...|..++++..+.. -.|+...|.....      .....|..+.|.+.+......
T Consensus       139 ----~~~~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  139 ----RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ  214 (700)
T ss_pred             ----hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH
Confidence                11234567777778888888888888888887654 2455555443322      233444544444443322211


Q ss_pred             CCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCC--ChhhHHH-HHHHHHHcCChHHHH-HHHHHHhhcCCCCCHHH-H
Q 048281          265 GYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEK--DIFSWNS-IMTVHEQCGNHDGTL-RLFDRMLSAGFQPDLVT-F  339 (660)
Q Consensus       265 g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~-li~~~~~~g~~~~a~-~~~~~m~~~g~~p~~~t-~  339 (660)
                       +......-..-...+.+.+++++|..++..+..+  |...|+- +..++.+-.+.-+++ .+|....+.  .|.... -
T Consensus       215 -i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~  291 (700)
T KOG1156|consen  215 -IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPR  291 (700)
T ss_pred             -HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--Ccccccch
Confidence             1111112223334455556666666666555442  2223322 222222222222222 333333322  111100 0


Q ss_pred             HHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHH
Q 048281          340 STVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILG  419 (660)
Q Consensus       340 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~  419 (660)
                      ..=++......-.+....++....+.|+           +.++..+...|-.....+    +++           .++..
T Consensus       292 Rlplsvl~~eel~~~vdkyL~~~l~Kg~-----------p~vf~dl~SLyk~p~k~~----~le-----------~Lvt~  345 (700)
T KOG1156|consen  292 RLPLSVLNGEELKEIVDKYLRPLLSKGV-----------PSVFKDLRSLYKDPEKVA----FLE-----------KLVTS  345 (700)
T ss_pred             hccHHHhCcchhHHHHHHHHHHHhhcCC-----------CchhhhhHHHHhchhHhH----HHH-----------HHHHH
Confidence            0001111111112222233333333333           223333333332221111    110           11111


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh-HHHHHHHHHHhhcCC
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEV--TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI-EHYTCVIDMLGRAGQ  496 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~  496 (660)
                      |...-.........+.-.  --+|...  |+-.+...+-..|+++.|..+++.++.   ..|+. ..|..=.+.+...|.
T Consensus       346 y~~~L~~~~~f~~~D~~~--~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId---HTPTliEly~~KaRI~kH~G~  420 (700)
T KOG1156|consen  346 YQHSLSGTGMFNFLDDGK--QEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID---HTPTLIELYLVKARIFKHAGL  420 (700)
T ss_pred             HHhhcccccCCCcccccc--cCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc---cCchHHHHHHHHHHHHHhcCC
Confidence            111000000000000000  0134433  333455566677777777777777653   34443 455555666777777


Q ss_pred             HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc-------chHH--HHHHHHHhCCChHH
Q 048281          497 LNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC-------GNYV--LMSNIYVAGGKYEE  565 (660)
Q Consensus       497 ~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-------~~~~--~l~~~~~~~g~~~~  565 (660)
                      +++|..++++...  .+|..+-.--.....+.++.++|.+++.+..+-.-+-.       -.|.  -=+.+|.++|++.+
T Consensus       421 l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~  500 (700)
T KOG1156|consen  421 LDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGL  500 (700)
T ss_pred             hHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHH
Confidence            7777777776543  34444433445555666777777777766655332110       1122  22455667777777


Q ss_pred             HHHHHHH
Q 048281          566 VLDIRHT  572 (660)
Q Consensus       566 a~~~~~~  572 (660)
                      |++=+..
T Consensus       501 ALKkfh~  507 (700)
T KOG1156|consen  501 ALKKFHE  507 (700)
T ss_pred             HHHHHhh
Confidence            7654443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.11  E-value=1.1e-05  Score=82.83  Aligned_cols=430  Identities=13%  Similarity=0.048  Sum_probs=265.4

Q ss_pred             HHcCCChhHHHH----HHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCC
Q 048281          109 FYSNDFAFKGLD----FFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQF  184 (660)
Q Consensus       109 ~~~~~~~~~a~~----~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  184 (660)
                      ++...+.+++.-    .+.++....+.-|...|..+.-+....|+++.+.+.|++....-+ .....|..+-..|..+|.
T Consensus       294 ~i~Re~~~d~ilslm~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~  372 (799)
T KOG4162|consen  294 LIPRENIEDAILSLMLLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGS  372 (799)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhcc
Confidence            334444555443    233344444566788899999999999999999999998876533 356778888889999999


Q ss_pred             hHHHHHHHccCCC----C-CchhHHHHHHHHHh-CCChhHHHHHHHHHHHC--CC--CCChhhHHHHHHHHHcc----C-
Q 048281          185 MEEALKVFEELPL----R-DVVLWNAMVNGYAQ-IGEFHKALEVFRRMSKE--GI--WMSRFTVTGVLSALIMM----G-  249 (660)
Q Consensus       185 ~~~A~~~~~~~~~----~-~~~~~~~li~~~~~-~~~~~~A~~~~~~m~~~--~~--~p~~~t~~~ll~~~~~~----~-  249 (660)
                      -..|..+++.-..    | |...+-..-..|.+ -+..++++.+-.+....  +.  ......|..+.-+|...    . 
T Consensus       373 ~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~  452 (799)
T KOG4162|consen  373 DSKAVNLLRESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANL  452 (799)
T ss_pred             chHHHHHHHhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCC
Confidence            9999999877643    3 23333333344444 36777777777766551  11  12233343333333221    1 


Q ss_pred             ------CchhHHHHHHHHHHhCC-CCCchHHHHHHHHHHcCCCHHHHHHHHHhcC----CCChhhHHHHHHHHHHcCChH
Q 048281          250 ------FFKNGRVVHGIVVKMGY-DSGVPVMNALIDMYGKGKCVGEALEIFEMME----EKDIFSWNSIMTVHEQCGNHD  318 (660)
Q Consensus       250 ------~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~  318 (660)
                            ...++.+.++...+.+. .|++..|  +.--|+-.++++.|.+..++..    ..+...|..+.-.+...+++.
T Consensus       453 ~seR~~~h~kslqale~av~~d~~dp~~if~--lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~  530 (799)
T KOG4162|consen  453 KSERDALHKKSLQALEEAVQFDPTDPLVIFY--LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLK  530 (799)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcCCCCchHHHH--HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhH
Confidence                  13345566666666552 3333333  3345666778888888877654    347789999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCH-HHHHHHHHHHhcccchHHHHHH-------HH----------HHH----HhCccCCCCCCCC
Q 048281          319 GTLRLFDRMLSAGFQPDL-VTFSTVLPACSHLAALMHGRQI-------HG----------YIV----VNGLAKNGSCKDI  376 (660)
Q Consensus       319 ~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~-------~~----------~~~----~~~~~~~~~~~~~  376 (660)
                      +|+.+.+...+.  .|+. .....-+..-...++.+.+...       |+          ...    +.|...... .+.
T Consensus       531 ~Al~vvd~al~E--~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~-q~~  607 (799)
T KOG4162|consen  531 EALDVVDAALEE--FGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALS-QPT  607 (799)
T ss_pred             HHHHHHHHHHHH--hhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcc-ccc
Confidence            999998876643  1221 0000001111112222222221       11          111    112211111 111


Q ss_pred             cchhHHHHHHHHHH---hcCCHHHHHHHHhcCCCCC------HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 048281          377 DDVFMNNALMDMYT---KCGSMRDAQMVFTKMSKKD------VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVT  447 (660)
Q Consensus       377 ~~~~~~~~li~~~~---~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  447 (660)
                      ....++..+.....   +.-..+.....+.....|+      ...|......+...++.++|...+.+....- +-....
T Consensus       608 ~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~  686 (799)
T KOG4162|consen  608 DAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASV  686 (799)
T ss_pred             ccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHH
Confidence            11233333222222   1111111112222222232      2356667778889999999998888887642 334456


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhcCCHHHHHH--HHHhCCC--CCCHHHHHHHHHH
Q 048281          448 FVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRAGQLNEAYE--LALAMPN--EANPVVWRTLLAA  522 (660)
Q Consensus       448 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~--~~~~~~~~~l~~~  522 (660)
                      |......+...|...+|.+.|.....   +.|+ +....++..++.+.|+..-|..  ++..+..  +.+...|..+...
T Consensus       687 ~~~~G~~~~~~~~~~EA~~af~~Al~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v  763 (799)
T KOG4162|consen  687 YYLRGLLLEVKGQLEEAKEAFLVALA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEV  763 (799)
T ss_pred             HHHhhHHHHHHHhhHHHHHHHHHHHh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHH
Confidence            66666677888999999999998864   5554 5788999999999998777777  7777654  5678899999999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCcc
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                      +.+.|+.+.|-..|..+.++++.+|.
T Consensus       764 ~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  764 FKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHccchHHHHHHHHHHHhhccCCCc
Confidence            99999999999999999999887763

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.09  E-value=2.4e-06  Score=89.56  Aligned_cols=473  Identities=14%  Similarity=0.135  Sum_probs=268.1

Q ss_pred             HHHHHHHhHcCCChhHHHHHHccCC-CCCCcc-----cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHH
Q 048281           70 ITSLINMYSKCCQMKYALFVFNNLS-CEPNVF-----TYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKC  143 (660)
Q Consensus        70 ~~~ll~~~~~~g~~~~A~~~~~~~~-~~~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~  143 (660)
                      +..+.+.|-+.|-...|++.|.+.. .++.++     .-..++ .|.-.-.++.+.++++.|...++.-|..+...+..-
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv-~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatk  687 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLV-NYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATK  687 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHH-HHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            6677888889999999998887311 111111     112233 344444678899999999988888887777777777


Q ss_pred             HhhhCCHHHHHHHHHHHHHh-----------CCCCChhHHHHHHHHhHhcCChHHHHHHHccCCC---------------
Q 048281          144 CCDVMAVLEVKKIHGLVFKL-----------GLDLDVYIGSALVNTYLKCQFMEEALKVFEELPL---------------  197 (660)
Q Consensus       144 ~~~~~~~~~a~~~~~~~~~~-----------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------------  197 (660)
                      |...-..+...++|+.....           ++.-|+.+.-..|.+.++.|++.+.+++.++-.-               
T Consensus       688 y~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL  767 (1666)
T KOG0985|consen  688 YHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKL  767 (1666)
T ss_pred             HHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccc
Confidence            77666667777777665432           3456777777889999999999999887765420               


Q ss_pred             ----C------------CchhH------HHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhH-------------HHHH
Q 048281          198 ----R------------DVVLW------NAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTV-------------TGVL  242 (660)
Q Consensus       198 ----~------------~~~~~------~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~-------------~~ll  242 (660)
                          |            |.+.|      ...|..|.+.-++...-.+...+..-.  -+....             ..+.
T Consensus       768 ~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~d--C~E~~ik~Li~~v~gq~~~deLv  845 (1666)
T KOG0985|consen  768 TDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVD--CSEDFIKNLILSVRGQFPVDELV  845 (1666)
T ss_pred             cccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCC--CcHHHHHHHHHHHhccCChHHHH
Confidence                0            11111      123445555444433333333332211  111111             1122


Q ss_pred             HHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHH----------HHHHhcCCCCh-----------
Q 048281          243 SALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEAL----------EIFEMMEEKDI-----------  301 (660)
Q Consensus       243 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~----------~~~~~~~~~~~-----------  301 (660)
                      .-+-+.+++..-...++..+..| ..+..++|+|...|..+++-.+-.          .+=+-..++|+           
T Consensus       846 ~EvEkRNRLklLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGq  924 (1666)
T KOG0985|consen  846 EEVEKRNRLKLLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQ  924 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccC
Confidence            22334444444444555555555 345666777766665543321110          00000000000           


Q ss_pred             ------------hhHHHHHHHHHHcCChH---HH--------HHHHHHHhhcCCC--CCHHHHHHHHHHHhcccchHHHH
Q 048281          302 ------------FSWNSIMTVHEQCGNHD---GT--------LRLFDRMLSAGFQ--PDLVTFSTVLPACSHLAALMHGR  356 (660)
Q Consensus       302 ------------~~~~~li~~~~~~g~~~---~a--------~~~~~~m~~~g~~--p~~~t~~~ll~~~~~~~~~~~a~  356 (660)
                                  ..|-...+-+.+..+.+   ++        .++.++..+.+++  .|....+..+.++...+-+.+-.
T Consensus       925 cD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLI 1004 (1666)
T KOG0985|consen  925 CDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELI 1004 (1666)
T ss_pred             CcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHH
Confidence                        00111111122222211   11        1222222222211  12222333334444444444444


Q ss_pred             HHHHHHHHhCccCCCCCCCCcchhHHHHH---------------------------HHHHHhcCCHHHHHHHHhcCCC--
Q 048281          357 QIHGYIVVNGLAKNGSCKDIDDVFMNNAL---------------------------MDMYTKCGSMRDAQMVFTKMSK--  407 (660)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l---------------------------i~~~~~~g~~~~A~~~~~~~~~--  407 (660)
                      ++++.++-.....+++      ....|.|                           .......+-+++|..+|++...  
T Consensus      1005 ELLEKIvL~~S~Fse~------~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~ 1078 (1666)
T KOG0985|consen 1005 ELLEKIVLDNSVFSEN------RNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNV 1078 (1666)
T ss_pred             HHHHHHhcCCcccccc------hhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccH
Confidence            4444443222111100      1111111                           1122223344555555554320  


Q ss_pred             -----------------------CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHH
Q 048281          408 -----------------------KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQG  464 (660)
Q Consensus       408 -----------------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  464 (660)
                                             .....|..+..+-.+.|...+|++-|-+.      -|+..|.-++..+.+.|.+++-
T Consensus      1079 ~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edL 1152 (1666)
T KOG0985|consen 1079 SAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDL 1152 (1666)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHH
Confidence                                   13457888999989999998888877542      3677899999999999999999


Q ss_pred             HHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 048281          465 REFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       465 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  544 (660)
                      ..++..++++ .-.|.+.  +.|+-+|++.+++.+-++++.    -|+.........-|...|.++.|.-+|..      
T Consensus      1153 v~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~------ 1219 (1666)
T KOG0985|consen 1153 VKYLLMARKK-VREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYSN------ 1219 (1666)
T ss_pred             HHHHHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHHH------
Confidence            9999988874 6666654  678999999999988777664    46777778888899999999999888764      


Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          545 GHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       545 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                        .+.|..|+..+...|.+..|...-++.
T Consensus      1220 --vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1220 --VSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             --hhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence              345888888888888888776655543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.09  E-value=7e-08  Score=93.83  Aligned_cols=226  Identities=12%  Similarity=-0.029  Sum_probs=144.5

Q ss_pred             ChHHHHHHHHHHhhcC-CCCCH--HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhc
Q 048281          316 NHDGTLRLFDRMLSAG-FQPDL--VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKC  392 (660)
Q Consensus       316 ~~~~a~~~~~~m~~~g-~~p~~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  392 (660)
                      ..+.++.-+.++.... ..|+.  ..|......+...|+.+.|...+...++..+..         ...|+.+...|...
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~---------~~a~~~lg~~~~~~  111 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDM---------ADAYNYLGIYLTQA  111 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC---------HHHHHHHHHHHHHC
Confidence            3344445555554321 12221  234444445566666666666666666654433         67888888889999


Q ss_pred             CCHHHHHHHHhcCCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 048281          393 GSMRDAQMVFTKMSK--K-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLP  469 (660)
Q Consensus       393 g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  469 (660)
                      |+++.|...|++..+  | +..+|..+..++...|++++|++.|++..+.  .|+..........+...++.++|...+.
T Consensus       112 g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~  189 (296)
T PRK11189        112 GNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLK  189 (296)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHH
Confidence            999999998888753  3 5678888888899999999999999999885  5554322222223445678999999997


Q ss_pred             HhHHhcCCCCChHHHHHHHHHHhhcCCH--HHHHHHHHhCCC------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          470 LMESRYGVVPTIEHYTCVIDMLGRAGQL--NEAYELALAMPN------EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       470 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      ....  ...|+... ..+...+  .|+.  +++.+.+.+...      +.....|..+...+...|++++|+..|+++++
T Consensus       190 ~~~~--~~~~~~~~-~~~~~~~--lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~  264 (296)
T PRK11189        190 QRYE--KLDKEQWG-WNIVEFY--LGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALA  264 (296)
T ss_pred             HHHh--hCCccccH-HHHHHHH--ccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7654  33444322 2333333  4444  333333332211      12345899999999999999999999999999


Q ss_pred             cCCC-CcchHHHHHHHH
Q 048281          542 LEPG-HCGNYVLMSNIY  557 (660)
Q Consensus       542 ~~p~-~~~~~~~l~~~~  557 (660)
                      .+|. ..+.-..++.+.
T Consensus       265 ~~~~~~~e~~~~~~e~~  281 (296)
T PRK11189        265 NNVYNFVEHRYALLELA  281 (296)
T ss_pred             hCCchHHHHHHHHHHHH
Confidence            9974 444444444443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.08  E-value=4.2e-09  Score=95.98  Aligned_cols=234  Identities=12%  Similarity=0.019  Sum_probs=179.4

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHhcCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHH-HHHhc
Q 048281          272 VMNALIDMYGKGKCVGEALEIFEMMEE--KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVL-PACSH  348 (660)
Q Consensus       272 ~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll-~~~~~  348 (660)
                      --+-+..+|.+.|.+.+|++.|+.-.+  +-+.+|-.|-+.|.+..++..|+.++.+-.+.  .|..+||..=+ +.+..
T Consensus       225 Wk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  225 WKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            346789999999999999999988754  67789999999999999999999999998875  67777764322 22333


Q ss_pred             ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCC
Q 048281          349 LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQ  425 (660)
Q Consensus       349 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  425 (660)
                                                                 .++.++|.++++...+   .++.+..++..+|.-.++
T Consensus       303 -------------------------------------------m~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~  339 (478)
T KOG1129|consen  303 -------------------------------------------MEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNN  339 (478)
T ss_pred             -------------------------------------------HHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCC
Confidence                                                       3445555555554432   245555666777888889


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC--hHHHHHHHHHHhhcCCHHHHHHH
Q 048281          426 GKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT--IEHYTCVIDMLGRAGQLNEAYEL  503 (660)
Q Consensus       426 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~  503 (660)
                      ++-|+.+|+++.+.|+ -++..|+.+.-+|.-.+.+|-++.-|..+... .-.|+  ..+|..+.......|++.-|.+-
T Consensus       340 PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rc  417 (478)
T KOG1129|consen  340 PEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRC  417 (478)
T ss_pred             hHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhh-ccCcchhhhhhhccceeEEeccchHHHHHH
Confidence            9999999999999885 46677888888888888999998888888763 44344  36788888888889999999998


Q ss_pred             HHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHH
Q 048281          504 ALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVL  552 (660)
Q Consensus       504 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  552 (660)
                      |+-...  ..+...++.|.-.-.+.|++++|..++..+....|+-.+...+
T Consensus       418 frlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m~E~~~N  468 (478)
T KOG1129|consen  418 FRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDMAEVTTN  468 (478)
T ss_pred             HHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCccccccccc
Confidence            887554  3455788888888888999999999999998888875544333

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.06  E-value=4.8e-06  Score=78.98  Aligned_cols=384  Identities=10%  Similarity=0.010  Sum_probs=243.8

Q ss_pred             ChhHHHHHHHHhHhcCChHHHHHHHccCCCCC-chhHHHHHHHHHhCC-C-hhHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 048281          168 DVYIGSALVNTYLKCQFMEEALKVFEELPLRD-VVLWNAMVNGYAQIG-E-FHKALEVFRRMSKEGIWMSRFTVTGVLSA  244 (660)
Q Consensus       168 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~li~~~~~~~-~-~~~A~~~~~~m~~~~~~p~~~t~~~ll~~  244 (660)
                      +...-...+.+|...++-+.|.....+.+..- ..--|.|+.-+.+.| + .+.++..-.-.++.-+     .+. .|.+
T Consensus        96 ~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp~-----aL~-~i~~  169 (564)
T KOG1174|consen   96 DAEQRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRECPM-----ALQ-VIEA  169 (564)
T ss_pred             cHHHHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhcch-----HHH-HHHH
Confidence            33444556777888889999999888887553 333344444333333 2 2222222222222110     000 0111


Q ss_pred             HHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcC--CCHHHHHHHHH--hcC---CCChhhHHHHHHHHHHcCCh
Q 048281          245 LIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKG--KCVGEALEIFE--MME---EKDIFSWNSIMTVHEQCGNH  317 (660)
Q Consensus       245 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~--~~~~~A~~~~~--~~~---~~~~~~~~~li~~~~~~g~~  317 (660)
                      ....+ +..+..--..|.....+|.......-+.+|+.+  ++-..|...+-  +..   ..|+.....+...+...|+.
T Consensus       170 ll~l~-v~g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn  248 (564)
T KOG1174|consen  170 LLELG-VNGNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDY  248 (564)
T ss_pred             HHHHh-hcchhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCc
Confidence            11100 011111111222333444444444445544433  33333333332  222   24777788999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCHH----HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcC
Q 048281          318 DGTLRLFDRMLSAGFQPDLV----TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCG  393 (660)
Q Consensus       318 ~~a~~~~~~m~~~g~~p~~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  393 (660)
                      ++|+..|++..-.  .|+..    .|..+   +.+.|+.+....+...+....-..         ...|..-.......+
T Consensus       249 ~~a~~~Fe~~~~~--dpy~i~~MD~Ya~L---L~~eg~~e~~~~L~~~Lf~~~~~t---------a~~wfV~~~~l~~~K  314 (564)
T KOG1174|consen  249 FQAEDIFSSTLCA--NPDNVEAMDLYAVL---LGQEGGCEQDSALMDYLFAKVKYT---------ASHWFVHAQLLYDEK  314 (564)
T ss_pred             hHHHHHHHHHhhC--ChhhhhhHHHHHHH---HHhccCHhhHHHHHHHHHhhhhcc---------hhhhhhhhhhhhhhh
Confidence            9999999987754  44433    23333   356677777777766665443111         223333344455677


Q ss_pred             CHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048281          394 SMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPL  470 (660)
Q Consensus       394 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  470 (660)
                      +++.|+.+-++..+   +++..|-.=...+...|++++|.-.|+..+... +-+-.+|..|+.+|...|.+.+|.-.-+.
T Consensus       315 ~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~  393 (564)
T KOG1174|consen  315 KFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANW  393 (564)
T ss_pred             hHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence            88888888887663   345555555677889999999999999988742 34678999999999999999999988888


Q ss_pred             hHHhcCCCCChHHHHHHH-HHHhh-cCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          471 MESRYGVVPTIEHYTCVI-DMLGR-AGQLNEAYELALAMPN-EAN-PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       471 ~~~~~~~~~~~~~~~~l~-~~~~~-~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      ..+  -++.+..+...+. ..+.- ..--|+|.+++++... +|+ ....+.+...|...|.++.++.++++.+...|+.
T Consensus       394 ~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~  471 (564)
T KOG1174|consen  394 TIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDV  471 (564)
T ss_pred             HHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhcccc
Confidence            776  4555666665553 33322 2234789999988554 455 4577888889999999999999999999988865


Q ss_pred             cchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          547 CGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       547 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                       ..+..|++++...+.+.+|...|....+.
T Consensus       472 -~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  472 -NLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             -HHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence             78899999999999999999999987763

>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=99.06  E-value=3.3e-06  Score=86.93  Aligned_cols=428  Identities=13%  Similarity=0.083  Sum_probs=208.0

Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcC--
Q 048281          106 ISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQ--  183 (660)
Q Consensus       106 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--  183 (660)
                      ...+...|++++|++.++.-... +......+......+.+.|+.++|..++..+++.++ .|..-|..|..+..-..  
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP-dn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP-DNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHhhhccc
Confidence            35567889999999999775443 443345566677888899999999999999998863 24445555555552222  


Q ss_pred             ---ChHHHHHHHccCCCC--CchhHHHHHHHHHhCCChh-HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHH
Q 048281          184 ---FMEEALKVFEELPLR--DVVLWNAMVNGYAQIGEFH-KALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVV  257 (660)
Q Consensus       184 ---~~~~A~~~~~~~~~~--~~~~~~~li~~~~~~~~~~-~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  257 (660)
                         ..+....+++++...  ...+...+.-.+.....+. .+...+..+...|+++   +|+.+-..|.......-...+
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHH
Confidence               355556666655432  1122222222222212222 3444555556666532   233333333333333323333


Q ss_pred             HHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC-CCh--hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCC
Q 048281          258 HGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE-KDI--FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQP  334 (660)
Q Consensus       258 ~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  334 (660)
                      +.......-               ..+.+....   ..-.+ |..  .++.-+...|...|++++|+.++++.++.  .|
T Consensus       166 ~~~~~~~l~---------------~~~~~~~~~---~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tP  225 (517)
T PF12569_consen  166 VEEYVNSLE---------------SNGSFSNGD---DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TP  225 (517)
T ss_pred             HHHHHHhhc---------------ccCCCCCcc---ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CC
Confidence            322221100               000000000   00001 111  12344455555666666666666666554  44


Q ss_pred             CH-HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCH---
Q 048281          335 DL-VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDV---  410 (660)
Q Consensus       335 ~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---  410 (660)
                      +. ..|..-.+.+-+.|++.+|...++.....+...         ..+-+-.+..+.++|++++|.+++....+++.   
T Consensus       226 t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~D---------RyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~  296 (517)
T PF12569_consen  226 TLVELYMTKARILKHAGDLKEAAEAMDEARELDLAD---------RYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPL  296 (517)
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhh---------HHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcc
Confidence            43 344444555666666666666666665554433         45555555566666666666666665554321   


Q ss_pred             -------hHH--HHHHHHHHhcCChHHHHHHHHHHHHc--CC-------------CCCHHHHHHHHHHHhccCC------
Q 048281          411 -------ASW--NIMILGYGMDGQGKEALDMFSCMCEA--KL-------------KPDEVTFVGVLSACSHSGF------  460 (660)
Q Consensus       411 -------~~~--~~li~~~~~~g~~~~A~~~~~~m~~~--g~-------------~p~~~~~~~ll~~~~~~g~------  460 (660)
                             ..|  .....+|.+.|++..|+..|....+.  .+             +.+..+|..++...-+...      
T Consensus       297 ~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~r  376 (517)
T PF12569_consen  297 SNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRR  376 (517)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHH
Confidence                   122  22345566666666666655544432  01             1122233333332211111      


Q ss_pred             -HHHHHHHHHHhHHhcCCCC-----------ChHHHHHHHHHH---hhcCCHHHHHHHHHh-----------C----CC-
Q 048281          461 -LSQGREFLPLMESRYGVVP-----------TIEHYTCVIDML---GRAGQLNEAYELALA-----------M----PN-  509 (660)
Q Consensus       461 -~~~a~~~~~~~~~~~~~~~-----------~~~~~~~l~~~~---~~~g~~~~A~~~~~~-----------~----~~-  509 (660)
                       ...|.+++-.+-.......           +..--..+..-.   .+...-+++...-.+           .    +. 
T Consensus       377 aa~~ai~iYl~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  456 (517)
T PF12569_consen  377 AAKGAIRIYLELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKK  456 (517)
T ss_pred             HHHHHHHHHHHHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCc
Confidence             1223333333322100000           000000111000   111111111111100           0    00 


Q ss_pred             -CCCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          510 -EANPVVWRTLLAASRLHG-NTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       510 -~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                       .+|+.     ..-+.+.. =.++|.+.++-+.+..|++..+|..--.+|.+.|++--|++.+.+
T Consensus       457 ~D~Dp~-----GekL~~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  457 KDDDPL-----GEKLLKTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             CCCCcc-----HHHHhcCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence             12221     11122223 367899999999999999999999999999999999999887764

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 [], [].

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.01  E-value=6.2e-06  Score=82.89  Aligned_cols=113  Identities=12%  Similarity=0.135  Sum_probs=85.3

Q ss_pred             CCChHH--HHHHHHHHhhcCCHHHHHHHHHhCCC-CCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          478 VPTIEH--YTCVIDMLGRAGQLNEAYELALAMPN-EANP-VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       478 ~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      +|....  +..++..|-+.|+++.|...++.... .|.. ..|..-.+.+...|+.++|-..++++.+++..|...-..-
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKc  445 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKC  445 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHH
Confidence            444443  45678888999999999999998765 3443 3566667889999999999999999999976664333356


Q ss_pred             HHHHHhCCChHHHHHHHHHHHhCCCcc-----CCcEEEEEEC
Q 048281          554 SNIYVAGGKYEEVLDIRHTMRQQNVRK-----NPGCSWIELK  590 (660)
Q Consensus       554 ~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~~~~  590 (660)
                      +.-..++++.++|.++..+..+.|...     +..|+|..+.
T Consensus       446 AKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E  487 (700)
T KOG1156|consen  446 AKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLE  487 (700)
T ss_pred             HHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHh
Confidence            666778999999999999997766421     2357777654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.00  E-value=3.3e-06  Score=85.51  Aligned_cols=262  Identities=13%  Similarity=0.140  Sum_probs=172.5

Q ss_pred             HHHHHcCCCHHHHHHHHHhcCCCChh--hHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHH
Q 048281          277 IDMYGKGKCVGEALEIFEMMEEKDIF--SWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMH  354 (660)
Q Consensus       277 i~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~  354 (660)
                      +.+......|.+|+.+++.+..+++.  -|..+...|...|+++.|.++|.+.-         .+.-.|..|.+.|.++.
T Consensus       739 ieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHH
Confidence            44455667788888888877766544  36667778888888888888876532         23455667778888887


Q ss_pred             HHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHH
Q 048281          355 GRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFS  434 (660)
Q Consensus       355 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  434 (660)
                      |.++-...  .|.+..        ...|-+-..-.-+.|++.+|+++|-.+..|+.     -|..|-++|..+..+++..
T Consensus       810 a~kla~e~--~~~e~t--------~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~  874 (1636)
T KOG3616|consen  810 AFKLAEEC--HGPEAT--------ISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVE  874 (1636)
T ss_pred             HHHHHHHh--cCchhH--------HHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHH
Confidence            77765443  234443        55666666667778888888888888877764     3667888888888887776


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCC----
Q 048281          435 CMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNE----  510 (660)
Q Consensus       435 ~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----  510 (660)
                      +-...   --..|-..+..-+...|+++.|..-|-+...          |.+-+++|-..+-|++|.++-+.-...    
T Consensus       875 k~h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d----------~kaavnmyk~s~lw~dayriaktegg~n~~k  941 (1636)
T KOG3616|consen  875 KHHGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD----------FKAAVNMYKASELWEDAYRIAKTEGGANAEK  941 (1636)
T ss_pred             HhChh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh----------HHHHHHHhhhhhhHHHHHHHHhccccccHHH
Confidence            54321   1234556667778888999999887766643          677788899999999998887653211    


Q ss_pred             CCHHHHHH------HHHHHHHcCChH-------------HHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHH
Q 048281          511 ANPVVWRT------LLAASRLHGNTD-------------LAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRH  571 (660)
Q Consensus       511 ~~~~~~~~------l~~~~~~~g~~~-------------~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  571 (660)
                      .-...|..      ....+-++|-.+             -|..+.+-..+  ..-++.+..++.-+-..|++++|.+-+-
T Consensus       942 ~v~flwaksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k--~k~~~vhlk~a~~ledegk~edaskhyv 1019 (1636)
T KOG3616|consen  942 HVAFLWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAK--DKMGEVHLKLAMFLEDEGKFEDASKHYV 1019 (1636)
T ss_pred             HHHHHHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhh--ccCccchhHHhhhhhhccchhhhhHhhH
Confidence            11122221      122233444443             34333333222  2345677888888999999999988877


Q ss_pred             HHHhCC
Q 048281          572 TMRQQN  577 (660)
Q Consensus       572 ~~~~~~  577 (660)
                      +..+.+
T Consensus      1020 eaikln 1025 (1636)
T KOG3616|consen 1020 EAIKLN 1025 (1636)
T ss_pred             HHhhcc
Confidence            776654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.99  E-value=1.2e-07  Score=96.17  Aligned_cols=237  Identities=14%  Similarity=0.108  Sum_probs=116.4

Q ss_pred             ccHHHHHHHHhhhCCHHHHHHHHHHHHHh-----C-CCCChh-HHHHHHHHhHhcCChHHHHHHHccCCC-------C--
Q 048281          135 YTFPCLIKCCCDVMAVLEVKKIHGLVFKL-----G-LDLDVY-IGSALVNTYLKCQFMEEALKVFEELPL-------R--  198 (660)
Q Consensus       135 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g-~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~-------~--  198 (660)
                      .+...+...|...|+++.|..++++.++.     | ..|... ..+.+...|...+++++|..+|+++..       +  
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            35555666777777777777777666554     1 012211 122244445555555555555544321       0  


Q ss_pred             --CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCC-CCCch-HHH
Q 048281          199 --DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGY-DSGVP-VMN  274 (660)
Q Consensus       199 --~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~-~~~  274 (660)
                        -..+++.|...|.+.|++++|...++...+-                            +..  ..|. .|.+. .++
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I----------------------------~~~--~~~~~~~~v~~~l~  329 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEI----------------------------YEK--LLGASHPEVAAQLS  329 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH----------------------------HHH--hhccChHHHHHHHH
Confidence              1223444444455555555544444443220                            000  0011 11111 234


Q ss_pred             HHHHHHHcCCCHHHHHHHHHhcC-------CC-C---hhhHHHHHHHHHHcCChHHHHHHHHHHhhc----C--CCCC-H
Q 048281          275 ALIDMYGKGKCVGEALEIFEMME-------EK-D---IFSWNSIMTVHEQCGNHDGTLRLFDRMLSA----G--FQPD-L  336 (660)
Q Consensus       275 ~li~~~~~~~~~~~A~~~~~~~~-------~~-~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g--~~p~-~  336 (660)
                      .+...++..+++++|..+++...       .+ +   .-+++.|...|...|++++|.+++++....    +  ..+. .
T Consensus       330 ~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~  409 (508)
T KOG1840|consen  330 ELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVG  409 (508)
T ss_pred             HHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhh
Confidence            44555555566666555554432       11 2   135777777777888888887777776542    1  1222 3


Q ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHh
Q 048281          337 VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFT  403 (660)
Q Consensus       337 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  403 (660)
                      ..++.+-..|.+.+....+.++|....... ..-|...+ ....+|..|...|.+.|+++.|.++.+
T Consensus       410 ~~l~~la~~~~~~k~~~~a~~l~~~~~~i~-~~~g~~~~-~~~~~~~nL~~~Y~~~g~~e~a~~~~~  474 (508)
T KOG1840|consen  410 KPLNQLAEAYEELKKYEEAEQLFEEAKDIM-KLCGPDHP-DVTYTYLNLAALYRAQGNYEAAEELEE  474 (508)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHHHHH-HHhCCCCC-chHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            456667777777777777777776554332 11110000 013445555555555555555555443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.97  E-value=9.4e-06  Score=80.74  Aligned_cols=408  Identities=12%  Similarity=0.103  Sum_probs=219.9

Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHH--HHHHhH--h
Q 048281          106 ISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSA--LVNTYL--K  181 (660)
Q Consensus       106 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--li~~~~--~  181 (660)
                      +.-+.+++++++|.....++...+ +-|...+..-+-+..+.+.++.|..+.+.   .+.   ..+++.  +=.+||  +
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~---~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGA---LLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cch---hhhcchhhHHHHHHHHH
Confidence            455667788888888888888754 33455677777778888888888755432   211   112222  234444  6


Q ss_pred             cCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChh-hHHHHHHHHHccCCchhHHHHHHH
Q 048281          182 CQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRF-TVTGVLSALIMMGFFKNGRVVHGI  260 (660)
Q Consensus       182 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~  260 (660)
                      .+..++|...++...+.+..+...-...+.+.|++++|+++|+.+.+.+...-.. .-..++.+-...        ....
T Consensus        92 lnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l--------~~~~  163 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAAL--------QVQL  163 (652)
T ss_pred             cccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhh--------hHHH
Confidence            7888888888885555555566666677888888888888888887765422111 111122111110        0001


Q ss_pred             HHHhCCCCCchHHHHH---HHHHHcCCCHHHHHHHHHhcC--------CCCh----------hhHHHHHHHHHHcCChHH
Q 048281          261 VVKMGYDSGVPVMNAL---IDMYGKGKCVGEALEIFEMME--------EKDI----------FSWNSIMTVHEQCGNHDG  319 (660)
Q Consensus       261 ~~~~g~~~~~~~~~~l---i~~~~~~~~~~~A~~~~~~~~--------~~~~----------~~~~~li~~~~~~g~~~~  319 (660)
                      +......| ..+|..+   .-.+...|++.+|+++++...        +.|.          ..---|.-.+...|+..+
T Consensus       164 ~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~e  242 (652)
T KOG2376|consen  164 LQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAE  242 (652)
T ss_pred             HHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHH
Confidence            12222222 2223222   234455677777777766651        1111          011223344555566666


Q ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHH-HH
Q 048281          320 TLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMR-DA  398 (660)
Q Consensus       320 a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~A  398 (660)
                      |..++...++.. .+|.......                                       -|.|+.+-....-++ .+
T Consensus       243 a~~iy~~~i~~~-~~D~~~~Av~---------------------------------------~NNLva~~~d~~~~d~~~  282 (652)
T KOG2376|consen  243 ASSIYVDIIKRN-PADEPSLAVA---------------------------------------VNNLVALSKDQNYFDGDL  282 (652)
T ss_pred             HHHHHHHHHHhc-CCCchHHHHH---------------------------------------hcchhhhccccccCchHH
Confidence            666666665543 3333222111                                       111111111000000 11


Q ss_pred             HHHHhcC------------C--CCCHhHHH-HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh--ccCCH
Q 048281          399 QMVFTKM------------S--KKDVASWN-IMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACS--HSGFL  461 (660)
Q Consensus       399 ~~~~~~~------------~--~~~~~~~~-~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~g~~  461 (660)
                      +..++..            .  +......| .++..|.  +..+.+.++.....  +..|. ..+..++..+.  +...+
T Consensus       283 l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~  357 (652)
T KOG2376|consen  283 LKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQVRELSASLP--GMSPE-SLFPILLQEATKVREKKH  357 (652)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhCC--ccCch-HHHHHHHHHHHHHHHHHH
Confidence            1111111            1  11112222 2333332  22233333332221  22333 34445554433  22357


Q ss_pred             HHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhcCCHHHHHHHHH--------hCCC-CCCHHHHHHHHHHHHHcCChHH
Q 048281          462 SQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRAGQLNEAYELAL--------AMPN-EANPVVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~--------~~~~-~~~~~~~~~l~~~~~~~g~~~~  531 (660)
                      .++.+++....+  +.+-. ..+.-.++......|+++.|.+++.        .+.. ...+.+..++..-+.+.++.+.
T Consensus       358 ~ka~e~L~~~~~--~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~  435 (652)
T KOG2376|consen  358 KKAIELLLQFAD--GHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDS  435 (652)
T ss_pred             hhhHHHHHHHhc--cCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCcc
Confidence            788888888765  33333 5666777888899999999999998        4443 3455677777888888888888


Q ss_pred             HHHHHHHHHhc----CCCC---cchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          532 AEIAAQRVFQL----EPGH---CGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       532 A~~~~~~~~~~----~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |..++..++.-    .+..   -..+..++..-.+.|+-++|..+++++.+.
T Consensus       436 a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~  487 (652)
T KOG2376|consen  436 ASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKF  487 (652)
T ss_pred             HHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh
Confidence            98888888762    3332   123333444445679999999999998774

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.93  E-value=6e-06  Score=81.30  Aligned_cols=89  Identities=15%  Similarity=0.119  Sum_probs=57.8

Q ss_pred             HHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHH
Q 048281          488 IDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEE  565 (660)
Q Consensus       488 ~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  565 (660)
                      ...+.+.|++..|++.|.++..  +.|...|.....+|.+.|++..|+.-.+..++++|+....|..-+.++....+|++
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydk  444 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDK  444 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHH
Confidence            4455666677777766666443  34556666666666777777777777777777776666666666666666666776


Q ss_pred             HHHHHHHHHhC
Q 048281          566 VLDIRHTMRQQ  576 (660)
Q Consensus       566 a~~~~~~~~~~  576 (660)
                      |.+.|++..+.
T Consensus       445 Aleay~eale~  455 (539)
T KOG0548|consen  445 ALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHHHhc
Confidence            66666665543

>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=98.93  E-value=1.1e-06  Score=90.39  Aligned_cols=283  Identities=13%  Similarity=0.075  Sum_probs=166.8

Q ss_pred             HHHHcCCCHHHHHHHHHhcCCC--Ch-hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHh----c--
Q 048281          278 DMYGKGKCVGEALEIFEMMEEK--DI-FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACS----H--  348 (660)
Q Consensus       278 ~~~~~~~~~~~A~~~~~~~~~~--~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~----~--  348 (660)
                      ..+...|++++|++.++.-...  |. .........+.+.|+.++|..+|..+.+.  .|+...|...+..+.    .  
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r--NPdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR--NPDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHhhhcccc
Confidence            3445567777777777664432  32 34455666677777777777777777766  355555554444443    1  


Q ss_pred             ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHH-HHHHHHhcCCCCCH-hHHHHHHHHHHhcCCh
Q 048281          349 LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMR-DAQMVFTKMSKKDV-ASWNIMILGYGMDGQG  426 (660)
Q Consensus       349 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~  426 (660)
                      ..+.+....+++.+...-+...        .  ...+.-.+.....+. .+...+..+..+++ .+++.+-..|......
T Consensus        90 ~~~~~~~~~~y~~l~~~yp~s~--------~--~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~  159 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKYPRSD--------A--PRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKA  159 (517)
T ss_pred             cccHHHHHHHHHHHHHhCcccc--------c--hhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHH
Confidence            1234555566665544432221        0  000111111111111 12222223333333 3455555555544444


Q ss_pred             HHHHHHHHHHHHc----C----------CCCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          427 KEALDMFSCMCEA----K----------LKPDE--VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       427 ~~A~~~~~~m~~~----g----------~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      .-...++......    +          -.|..  .++..+...|...|++++|+++.+.++.  .-+..+..|..-.+.
T Consensus       160 ~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~--htPt~~ely~~Kari  237 (517)
T PF12569_consen  160 AIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIE--HTPTLVELYMTKARI  237 (517)
T ss_pred             HHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCcHHHHHHHHHH
Confidence            4444444444322    1          12333  2445556678889999999999998886  233336788888899


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC--CC-------cchHHHHHHHHHh
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEP--GH-------CGNYVLMSNIYVA  559 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p--~~-------~~~~~~l~~~~~~  559 (660)
                      |-+.|++++|.+.++....  ..|..+-+-....+.+.|+.++|++++......+-  ..       .......+.+|.+
T Consensus       238 lKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r  317 (517)
T PF12569_consen  238 LKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLR  317 (517)
T ss_pred             HHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998887654  45666777778888899999999998888766542  11       0122456788889


Q ss_pred             CCChHHHHHHHHHHH
Q 048281          560 GGKYEEVLDIRHTMR  574 (660)
Q Consensus       560 ~g~~~~a~~~~~~~~  574 (660)
                      .|++..|++.+..+.
T Consensus       318 ~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  318 QGDYGLALKRFHAVL  332 (517)
T ss_pred             HhhHHHHHHHHHHHH
Confidence            999998888776653

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 [], [].

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.92  E-value=3.7e-08  Score=97.24  Aligned_cols=219  Identities=14%  Similarity=0.080  Sum_probs=175.4

Q ss_pred             HhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHh
Q 048281          346 CSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGM  422 (660)
Q Consensus       346 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  422 (660)
                      +.+.|++..|.-.|+..++..+..         ...|.-|.......++-..|+..+.+..+   .|....-.|.-.|..
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~h---------aeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytN  365 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQH---------AEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTN  365 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChHH---------HHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhh
Confidence            356788888888899988888777         88999999999999999999999888763   366778888888999


Q ss_pred             cCChHHHHHHHHHHHHcCCC-----C---CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc
Q 048281          423 DGQGKEALDMFSCMCEAKLK-----P---DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA  494 (660)
Q Consensus       423 ~g~~~~A~~~~~~m~~~g~~-----p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  494 (660)
                      .|.-.+|+..|+.-+....+     +   +...-..  ..+.....+....++|-++....+..+|..+...|.-.|--.
T Consensus       366 eg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls  443 (579)
T KOG1125|consen  366 EGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLS  443 (579)
T ss_pred             hhhHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcc
Confidence            99999999999887654210     0   1000000  122223334556666766666557668888999999999999


Q ss_pred             CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          495 GQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       495 g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      |.+++|.+-|+.+..  +.|...||-|...+....+.++|+..|++++++.|.-..+...|+..|...|.++||.+.|-.
T Consensus       444 ~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  444 GEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             hHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            999999999998654  456789999999999999999999999999999999999999999999999999999999887


Q ss_pred             HHh
Q 048281          573 MRQ  575 (660)
Q Consensus       573 ~~~  575 (660)
                      ...
T Consensus       524 AL~  526 (579)
T KOG1125|consen  524 ALS  526 (579)
T ss_pred             HHH
Confidence            644

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.91  E-value=1.4e-06  Score=78.96  Aligned_cols=410  Identities=13%  Similarity=0.065  Sum_probs=219.1

Q ss_pred             cHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCC--CCchhHHH-HHHHHHh
Q 048281          136 TFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPL--RDVVLWNA-MVNGYAQ  212 (660)
Q Consensus       136 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~-li~~~~~  212 (660)
                      -+..++..+.+..++..|++++..-.+... .+....+.|..+|-...++..|-..++++..  |...-|.. -...+.+
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYK   90 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHH
Confidence            344555555555666666666555444321 1344445555666666666666666665542  22222221 1234455


Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHHHHHH--HHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHH
Q 048281          213 IGEFHKALEVFRRMSKEGIWMSRFTVTGVLSA--LIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEAL  290 (660)
Q Consensus       213 ~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~--~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~  290 (660)
                      .+.+.+|+.+...|...   |+...-..-+.+  .-+.+++..+..+.++....   .+..+.+...-...+.|+++.|.
T Consensus        91 A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaAv  164 (459)
T KOG4340|consen   91 ACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAAV  164 (459)
T ss_pred             hcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccHHHHH
Confidence            66777777777666432   221111111222  22445666666665554322   23334444444556778888888


Q ss_pred             HHHHhcCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHH-HHHHHHHHhcccchHHHHHHHHHHHHh
Q 048281          291 EIFEMMEE----KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVT-FSTVLPACSHLAALMHGRQIHGYIVVN  365 (660)
Q Consensus       291 ~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~  365 (660)
                      +-|+...+    ....+||..+.. .+.|+++.|++...++.++|++..... ......+. ....+.....++...+  
T Consensus       165 qkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegi-DvrsvgNt~~lh~Sal--  240 (459)
T KOG4340|consen  165 QKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGI-DVRSVGNTLVLHQSAL--  240 (459)
T ss_pred             HHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccC-chhcccchHHHHHHHH--
Confidence            88887765    244566655544 456888888888888888875422110 00000000 0000000111111110  


Q ss_pred             CccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048281          366 GLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK-----DVASWNIMILGYGMDGQGKEALDMFSCMCEAK  440 (660)
Q Consensus       366 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  440 (660)
                                   +..+|.-...+.+.|+++.|.+.+-.|+.+     |++|...+.-.- -.+++.+..+-+.-+....
T Consensus       241 -------------~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n  306 (459)
T KOG4340|consen  241 -------------VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN  306 (459)
T ss_pred             -------------HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC
Confidence                         445566666778899999999999999843     667766553322 2355666666666666653


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC-CChHHHHHHHHHHh-hcCCHHHHHHHHHhCCCCCCHHHHHH
Q 048281          441 LKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVV-PTIEHYTCVIDMLG-RAGQLNEAYELALAMPNEANPVVWRT  518 (660)
Q Consensus       441 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~~~~~~~  518 (660)
                      . -...||..++-.||+..-++.|-.++.+-... -+. .+...|+ |++++. ..-..++|.+-++.+...-....-..
T Consensus       307 P-fP~ETFANlLllyCKNeyf~lAADvLAEn~~l-Tyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRkl  383 (459)
T KOG4340|consen  307 P-FPPETFANLLLLYCKNEYFDLAADVLAENAHL-TYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKL  383 (459)
T ss_pred             C-CChHHHHHHHHHHhhhHHHhHHHHHHhhCcch-hHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            2 34579999999999998888888887764321 111 2233333 333333 34456777666655432100111111


Q ss_pred             HHHHH-HHcCCh----HHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          519 LLAAS-RLHGNT----DLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       519 l~~~~-~~~g~~----~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+..- .++.+-    ..|++-+++.+++-   -++....+++|.+..++..+.++|+.-.+.
T Consensus       384 Ai~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~Svef  443 (459)
T KOG4340|consen  384 AIQVQEARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIFRKSVEF  443 (459)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHHHHHHhh
Confidence            11111 111121    22333344444431   134567788899999999999999876654

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.91  E-value=3.9e-07  Score=79.74  Aligned_cols=196  Identities=12%  Similarity=-0.013  Sum_probs=166.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSKK---DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ..+...|.-.|...|+...|..-+++..+.   +..+|..+...|.+.|..+.|.+.|++..... +-+....|....-+
T Consensus        35 a~arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FL  113 (250)
T COG3063          35 AKARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHH
Confidence            445667888999999999999999998743   45689999999999999999999999999853 33557788888888


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAE  533 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~  533 (660)
                      |..|.+++|.+.|+.+.....+.--..+|..+.-+-.+.|+.+.|...|++...  +..+.+...+.......|++-.|.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHH
Confidence            999999999999999998644444567999999999999999999999998654  445678888999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          534 IAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       534 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ..+++.....+...+..-..+++-.+.|+.+.+.++=..+.+
T Consensus       194 ~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         194 LYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            999999887777777787888888899999988887776654

>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=98.90  E-value=1.2e-07  Score=90.79  Aligned_cols=159  Identities=14%  Similarity=0.052  Sum_probs=115.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSH----  457 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----  457 (660)
                      ......++...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++..    
T Consensus       105 ~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g  179 (290)
T PF04733_consen  105 QLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATG  179 (290)
T ss_dssp             HHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhC
Confidence            333445667788888888888765  45666777888899999999999999999874  334 445555555433    


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCh-HHHHH
Q 048281          458 SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNT-DLAEI  534 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~-~~A~~  534 (660)
                      ...+.+|.-+|+++..  ...+++.+.+.+..+....|++++|.+++.+...  +.++.++..++.+....|+. +.+.+
T Consensus       180 ~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~  257 (290)
T PF04733_consen  180 GEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAER  257 (290)
T ss_dssp             TTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHH
T ss_pred             chhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHH
Confidence            2368899999999876  4567888888888899999999999999887543  34566777777777888877 66778


Q ss_pred             HHHHHHhcCCCCc
Q 048281          535 AAQRVFQLEPGHC  547 (660)
Q Consensus       535 ~~~~~~~~~p~~~  547 (660)
                      .+.++....|+++
T Consensus       258 ~l~qL~~~~p~h~  270 (290)
T PF04733_consen  258 YLSQLKQSNPNHP  270 (290)
T ss_dssp             HHHHCHHHTTTSH
T ss_pred             HHHHHHHhCCCCh
Confidence            8888887888765

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.90  E-value=1.4e-05  Score=81.15  Aligned_cols=47  Identities=11%  Similarity=0.046  Sum_probs=25.7

Q ss_pred             HcCCChhHHHHHHccCCCCCCc-ccHHHHHHHHHcCCChhHHHHHHHH
Q 048281           78 SKCCQMKYALFVFNNLSCEPNV-FTYNAMISGFYSNDFAFKGLDFFNH  124 (660)
Q Consensus        78 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~  124 (660)
                      ...|+++.|..+++..-..|+. ..|-.+-......|+.--|.++|..
T Consensus       455 id~~df~ra~afles~~~~~da~amw~~laelale~~nl~iaercfaa  502 (1636)
T KOG3616|consen  455 IDDGDFDRATAFLESLEMGPDAEAMWIRLAELALEAGNLFIAERCFAA  502 (1636)
T ss_pred             cccCchHHHHHHHHhhccCccHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            3457777777777632233443 3465555555555555555554443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.90  E-value=1.4e-05  Score=82.36  Aligned_cols=402  Identities=14%  Similarity=0.095  Sum_probs=238.3

Q ss_pred             CCChhHHHHHHH--HhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHC-C--------CCC
Q 048281           64 IDSPLSITSLIN--MYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQL-G--------VLP  132 (660)
Q Consensus        64 ~~~~~~~~~ll~--~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~--------~~p  132 (660)
                      .-|..+..++++  .|.--|+.+.|.+-.+ .+  .+-..|..|.+.+.+.++.+-|.-++-.|... |        -.|
T Consensus       723 ~Cd~~TRkaml~FSfyvtiG~MD~AfksI~-~I--kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~  799 (1416)
T KOG3617|consen  723 NCDESTRKAMLDFSFYVTIGSMDAAFKSIQ-FI--KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNG  799 (1416)
T ss_pred             ccCHHHHHhhhceeEEEEeccHHHHHHHHH-HH--hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCC
Confidence            346778888875  6778899999988776 33  24457999999999999998888887777542 1        123


Q ss_pred             CcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCC-CchhHHHHHHHHH
Q 048281          133 DKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLR-DVVLWNAMVNGYA  211 (660)
Q Consensus       133 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~  211 (660)
                      + .+=.-+.-.....|.+++|+.+|++..+.         ..|=..|-..|.+++|.++-+.-.+- =..+|......+-
T Consensus       800 ~-e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Le  869 (1416)
T KOG3617|consen  800 E-EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLE  869 (1416)
T ss_pred             c-chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHH
Confidence            2 33233334456789999999999998874         33446677789999999886543321 1235555566666


Q ss_pred             hCCChhHHHHHHHHH----------HHCCC---------CCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchH
Q 048281          212 QIGEFHKALEVFRRM----------SKEGI---------WMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPV  272 (660)
Q Consensus       212 ~~~~~~~A~~~~~~m----------~~~~~---------~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  272 (660)
                      ..++.+.|++.|++.          .....         .-|...|.-...-+-..|+.+.|..+|....+         
T Consensus       870 ar~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------  940 (1416)
T KOG3617|consen  870 ARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------  940 (1416)
T ss_pred             hhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------
Confidence            678888888887753          21111         12333333344444555666666666655443         


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccc--
Q 048281          273 MNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLA--  350 (660)
Q Consensus       273 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~--  350 (660)
                      |-+++...|-.|+.++|-++-++-  .|..+...+.+.|-..|++.+|...|.+..         +|...|+.|-..+  
T Consensus       941 ~fs~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq---------afsnAIRlcKEnd~~ 1009 (1416)
T KOG3617|consen  941 YFSMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ---------AFSNAIRLCKENDMK 1009 (1416)
T ss_pred             hhhheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH---------HHHHHHHHHHhcCHH
Confidence            344555566667777777766542  456677778888888888888888887764         2334443332221  


Q ss_pred             -------------chHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC----------
Q 048281          351 -------------ALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK----------  407 (660)
Q Consensus       351 -------------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------  407 (660)
                                   +.-.|..+|+..   |             .-....+..|-+.|.+.+|+++--+-.+          
T Consensus      1010 d~L~nlal~s~~~d~v~aArYyEe~---g-------------~~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~D 1073 (1416)
T KOG3617|consen 1010 DRLANLALMSGGSDLVSAARYYEEL---G-------------GYAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKD 1073 (1416)
T ss_pred             HHHHHHHhhcCchhHHHHHHHHHHc---c-------------hhhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHh
Confidence                         222222232221   1             1122344567777777777765332221          


Q ss_pred             ----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC---
Q 048281          408 ----KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT---  480 (660)
Q Consensus       408 ----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~---  480 (660)
                          .|+...+.-..-++.+.++++|..++-..++         |...+..|... ++.-..++-+.|.-...-.|+   
T Consensus      1074 Ld~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~---------~~~AlqlC~~~-nv~vtee~aE~mTp~Kd~~~~e~~ 1143 (1416)
T KOG3617|consen 1074 LDAGSDPKLLRRCADFFENNQQYEKAVNLLCLARE---------FSGALQLCKNR-NVRVTEEFAELMTPTKDDMPNEQE 1143 (1416)
T ss_pred             cCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHHHHhcC-CCchhHHHHHhcCcCcCCCccHHH
Confidence                2555566666667778888888887766554         23333334332 222223333333211112222   


Q ss_pred             -hHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChH
Q 048281          481 -IEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTD  530 (660)
Q Consensus       481 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  530 (660)
                       ..+...+.+.+.++|.+..|-+-|.+...+      ...++++.+.|+.+
T Consensus      1144 R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdK------l~AMraLLKSGdt~ 1188 (1416)
T KOG3617|consen 1144 RKQVLEQVAELCLQQGAYHAATKKFTQAGDK------LSAMRALLKSGDTQ 1188 (1416)
T ss_pred             HHHHHHHHHHHHHhccchHHHHHHHhhhhhH------HHHHHHHHhcCCcc
Confidence             245666777778888887777777665432      12244455555544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.88  E-value=4e-05  Score=80.77  Aligned_cols=433  Identities=12%  Similarity=0.116  Sum_probs=231.8

Q ss_pred             HHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCCh
Q 048281           36 IASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFA  115 (660)
Q Consensus        36 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~  115 (660)
                      ..|...+-+.++++.-...++..+..|. -++.++|+|...|...++-++  ..+. ..+    .-=+..+.-||...++
T Consensus       842 deLv~EvEkRNRLklLlp~LE~~i~eG~-~d~a~hnAlaKIyIDSNNnPE--~fLk-eN~----yYDs~vVGkYCEKRDP  913 (1666)
T KOG0985|consen  842 DELVEEVEKRNRLKLLLPWLESLIQEGS-QDPATHNALAKIYIDSNNNPE--RFLK-ENP----YYDSKVVGKYCEKRDP  913 (1666)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHhccC-cchHHHhhhhheeecCCCChH--Hhcc-cCC----cchhhHHhhhhcccCC
Confidence            4466667777888777778888888885 488999999999987765443  2222 111    1112223344444444


Q ss_pred             hHHHHHHHHHHHC----CCCCCcccHHHHHHHHhhhCCHHHH-----------HHHHHHHHHhCCC--CChhHHHHHHHH
Q 048281          116 FKGLDFFNHMRQL----GVLPDKYTFPCLIKCCCDVMAVLEV-----------KKIHGLVFKLGLD--LDVYIGSALVNT  178 (660)
Q Consensus       116 ~~a~~~~~~m~~~----~~~p~~~t~~~ll~~~~~~~~~~~a-----------~~~~~~~~~~g~~--~~~~~~~~li~~  178 (660)
                      ..|.-.|++=.-.    .+.-....|....+.+.+..+.+.-           +++.++.+..+++  .|+.--+.-+.+
T Consensus       914 ~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkA  993 (1666)
T KOG0985|consen  914 HLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKA  993 (1666)
T ss_pred             ceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHH
Confidence            3333222211000    0111122233333333333333221           2344444444432  344455556667


Q ss_pred             hHhcCChHHHHHHHccCC-CCCc-----hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch
Q 048281          179 YLKCQFMEEALKVFEELP-LRDV-----VLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFK  252 (660)
Q Consensus       179 ~~~~g~~~~A~~~~~~~~-~~~~-----~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~  252 (660)
                      +...+-..+-.++++++. ++++     ..-|.||-...+ -+..++.+..+++-.-.. |      .+...+...+-++
T Consensus       994 fMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyDa-~------~ia~iai~~~LyE 1065 (1666)
T KOG0985|consen  994 FMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYDA-P------DIAEIAIENQLYE 1065 (1666)
T ss_pred             HHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCCc-h------hHHHHHhhhhHHH
Confidence            767777777777777664 2222     222333333222 344455555555533211 1      1233445555566


Q ss_pred             hHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCC
Q 048281          253 NGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGF  332 (660)
Q Consensus       253 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  332 (660)
                      +|..+|+..     ..+....+.|+.   .-+.+|.|.++-++..+|  ..|..+..+-.+.|...+|++-|-+.     
T Consensus      1066 EAF~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~~~v~dAieSyika----- 1130 (1666)
T KOG0985|consen 1066 EAFAIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQGGLVKDAIESYIKA----- 1130 (1666)
T ss_pred             HHHHHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhcCchHHHHHHHHhc-----
Confidence            666666543     223333444443   235567777776666554  46788888888888888887776542     


Q ss_pred             CCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHh-
Q 048281          333 QPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVA-  411 (660)
Q Consensus       333 ~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-  411 (660)
                       -|...|..++..+.+.|.++.-.+.+....+..-++.          +-+.|+-+|++.+++.+-+++..   -||+. 
T Consensus      1131 -dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~----------id~eLi~AyAkt~rl~elE~fi~---gpN~A~ 1196 (1666)
T KOG0985|consen 1131 -DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY----------IDSELIFAYAKTNRLTELEEFIA---GPNVAN 1196 (1666)
T ss_pred             -CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc----------chHHHHHHHHHhchHHHHHHHhc---CCCchh
Confidence             3666788888888888888888877777666654443          45678888888888777666543   23333 


Q ss_pred             -------------------------HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048281          412 -------------------------SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGRE  466 (660)
Q Consensus       412 -------------------------~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  466 (660)
                                               .|..|...+...|++..|...-++.      .+..||..+-.+|...+.+.-|  
T Consensus      1197 i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlA-- 1268 (1666)
T KOG0985|consen 1197 IQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLA-- 1268 (1666)
T ss_pred             HHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHH--
Confidence                                     3444444444444444444333322      2334555555555554443332  


Q ss_pred             HHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHH
Q 048281          467 FLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRL  525 (660)
Q Consensus       467 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~  525 (660)
                         +|.. .++.....-..-|+.-|...|.+++-..+++....  +.....|+-|.-.|.+
T Consensus      1269 ---QiCG-L~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsk 1325 (1666)
T KOG0985|consen 1269 ---QICG-LNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSK 1325 (1666)
T ss_pred             ---HhcC-ceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHh
Confidence               1211 12233344455666666666666666666665332  3344445555544444

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.86  E-value=5.4e-06  Score=81.60  Aligned_cols=167  Identities=16%  Similarity=0.018  Sum_probs=114.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHH
Q 048281          385 LMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEV-TFVGVLSACSHSGFLSQ  463 (660)
Q Consensus       385 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~  463 (660)
                      +..+|.+.++.+.|...|.+...+...     -....+....++++.......-  +.|... -...-...+.+.|++..
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHH
Confidence            455677778888888888875421110     1122233444555555544443  233331 12222456778899999


Q ss_pred             HHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          464 GREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       464 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      |...|.+++++  .+-|...|....-+|.+.|.+..|+.=.+...+  ++....|.-=+.++....+++.|.+.|.+.++
T Consensus       377 Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  377 AVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999984  466778999999999999999999887766543  33344566666677778899999999999999


Q ss_pred             cCCCCcchHHHHHHHHHhC
Q 048281          542 LEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       542 ~~p~~~~~~~~l~~~~~~~  560 (660)
                      .+|.+.+....+.+++..+
T Consensus       455 ~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  455 LDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             cCchhHHHHHHHHHHHHHh
Confidence            9999877776666666543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.83  E-value=7.1e-05  Score=77.31  Aligned_cols=471  Identities=12%  Similarity=0.069  Sum_probs=245.1

Q ss_pred             hhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCC-CcccHHHHHHHHHcCCChhHHHH
Q 048281           42 CAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEP-NVFTYNAMISGFYSNDFAFKGLD  120 (660)
Q Consensus        42 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~  120 (660)
                      ...+|.+++|..+|.+-.+..         .|=..|...|.+++|.++-+ .-.+. =-.||.....-+-..++.+.|++
T Consensus       810 AieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE-~~DRiHLr~Tyy~yA~~Lear~Di~~Ale  879 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAE-TKDRIHLRNTYYNYAKYLEARRDIEAALE  879 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHh-hccceehhhhHHHHHHHHHhhccHHHHHH
Confidence            345677777777777766643         34456777888898888877 32221 12355555566666677777777


Q ss_pred             HHHHHH----------HCC---------CCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHh
Q 048281          121 FFNHMR----------QLG---------VLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLK  181 (660)
Q Consensus       121 ~~~~m~----------~~~---------~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  181 (660)
                      .|++..          ...         -.-|...|..--...-..|+.+.|..+|....+         |-+++...|-
T Consensus       880 yyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~  950 (1416)
T KOG3617|consen  880 YYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCI  950 (1416)
T ss_pred             HHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEee
Confidence            776531          110         012334444444455556666666666665443         3455666666


Q ss_pred             cCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC-----------
Q 048281          182 CQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGF-----------  250 (660)
Q Consensus       182 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~-----------  250 (660)
                      .|+.++|-++-++-.  |..+.-.|.+.|-..|++.+|+.+|.+..         +|...|+.|-..+-           
T Consensus       951 qGk~~kAa~iA~esg--d~AAcYhlaR~YEn~g~v~~Av~FfTrAq---------afsnAIRlcKEnd~~d~L~nlal~s 1019 (1416)
T KOG3617|consen  951 QGKTDKAARIAEESG--DKAACYHLARMYENDGDVVKAVKFFTRAQ---------AFSNAIRLCKENDMKDRLANLALMS 1019 (1416)
T ss_pred             ccCchHHHHHHHhcc--cHHHHHHHHHHhhhhHHHHHHHHHHHHHH---------HHHHHHHHHHhcCHHHHHHHHHhhc
Confidence            777777777655433  55667778888888888888888887764         24444444433221           


Q ss_pred             ----chhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC--------------CChhhHHHHHHHHH
Q 048281          251 ----FKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE--------------KDIFSWNSIMTVHE  312 (660)
Q Consensus       251 ----~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--------------~~~~~~~~li~~~~  312 (660)
                          .-.|-++|++   .|.     -..--+..|-+.|.+.+|+++-=+-.+              .|+...+.-...++
T Consensus      1020 ~~~d~v~aArYyEe---~g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~ 1091 (1416)
T KOG3617|consen 1020 GGSDLVSAARYYEE---LGG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFE 1091 (1416)
T ss_pred             CchhHHHHHHHHHH---cch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence                1112222221   111     111223455666666666554222111              24445555556666


Q ss_pred             HcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhc
Q 048281          313 QCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKC  392 (660)
Q Consensus       313 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  392 (660)
                      ...++++|..++-...+         |...+..|...|- .-..++-+.|   .+..++..+...-..+...+.+.+.++
T Consensus      1092 ~~~qyekAV~lL~~ar~---------~~~AlqlC~~~nv-~vtee~aE~m---Tp~Kd~~~~e~~R~~vLeqvae~c~qQ 1158 (1416)
T KOG3617|consen 1092 NNQQYEKAVNLLCLARE---------FSGALQLCKNRNV-RVTEEFAELM---TPTKDDMPNEQERKQVLEQVAELCLQQ 1158 (1416)
T ss_pred             hHHHHHHHHHHHHHHHH---------HHHHHHHHhcCCC-chhHHHHHhc---CcCcCCCccHHHHHHHHHHHHHHHHhc
Confidence            67777777766654432         3334444433321 1112221211   111111111111245667778888888


Q ss_pred             CCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHH-------------HHHHHHcCCCCCHHHHHHHHHHHhccC
Q 048281          393 GSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDM-------------FSCMCEAKLKPDEVTFVGVLSACSHSG  459 (660)
Q Consensus       393 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-------------~~~m~~~g~~p~~~~~~~ll~~~~~~g  459 (660)
                      |.+..|-+-|.+.-.+     -.-++++.+.|+.++..-.             -.-++...+..|+.+...++.-|.+..
T Consensus      1159 G~Yh~AtKKfTQAGdK-----l~AMraLLKSGdt~KI~FFAn~sRqkEiYImAANyLQtlDWq~~pq~mK~I~tFYTKgq 1233 (1416)
T KOG3617|consen 1159 GAYHAATKKFTQAGDK-----LSAMRALLKSGDTQKIRFFANTSRQKEIYIMAANYLQTLDWQDNPQTMKDIETFYTKGQ 1233 (1416)
T ss_pred             cchHHHHHHHhhhhhH-----HHHHHHHHhcCCcceEEEEeeccccceeeeehhhhhhhcccccChHHHhhhHhhhhcch
Confidence            8888887777654321     1234555556654432100             011222345556666666665555554


Q ss_pred             CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCH-HHHHHHH----------HHHHH-cC
Q 048281          460 FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANP-VVWRTLL----------AASRL-HG  527 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~l~----------~~~~~-~g  527 (660)
                      .++.--.+|.....     ..+..|..+-.   ..|-+++|.+-+.+...+.+. ..++.|-          ..... ..
T Consensus      1234 afd~LanFY~~cAq-----iEiee~q~ydK---a~gAl~eA~kCl~ka~~k~~~~t~l~~Lq~~~a~vk~~l~~~q~~~e 1305 (1416)
T KOG3617|consen 1234 AFDHLANFYKSCAQ-----IEIEELQTYDK---AMGALEEAAKCLLKAEQKNMSTTGLDALQEDLAKVKVQLRKLQIMKE 1305 (1416)
T ss_pred             hHHHHHHHHHHHHH-----hhHHHHhhhhH---HhHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            44444444443322     11112221111   123445555555554432222 1222222          21111 11


Q ss_pred             ChHHHHHHHHHHHhcCCCCc------chHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          528 NTDLAEIAAQRVFQLEPGHC------GNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       528 ~~~~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      |....+.-.+.+++ +|..+      ..|..|+..+....+|.+|.+.+..|.++-
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            34444444444444 34332      467788999999999999999999998763

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.81  E-value=1.8e-05  Score=83.29  Aligned_cols=529  Identities=9%  Similarity=-0.052  Sum_probs=255.7

Q ss_pred             chhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCC--CCccc--HHHHH
Q 048281           31 TLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCE--PNVFT--YNAMI  106 (660)
Q Consensus        31 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~--~~~~~--~~~li  106 (660)
                      -...|..|-..|...-+...|...|....+... .+...+....+.|++..+++.|..+.-.....  .-...  |-...
T Consensus       491 ~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDa-tdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG  569 (1238)
T KOG1127|consen  491 LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDA-TDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRG  569 (1238)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc-hhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcc
Confidence            355677777777777788888888888777652 35677778888888888888887764311110  01111  22222


Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChh-HHHHHHHHhHhcCCh
Q 048281          107 SGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVY-IGSALVNTYLKCQFM  185 (660)
Q Consensus       107 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~~~~~g~~  185 (660)
                      -.|.+.++...|+.-|+...+..+. |...|..+..+|.+.|.+..|.++|......  .|+.. .--...-+-+..|++
T Consensus       570 ~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkY  646 (1238)
T KOG1127|consen  570 PYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKY  646 (1238)
T ss_pred             ccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhH
Confidence            2334445555555555555443222 4445555555555555555555555544432  22211 111111122344555


Q ss_pred             HHHHHHHccCCCC----------CchhHHHHHHHHHhCCChhHHHHHHHHHH-------HCC------------------
Q 048281          186 EEALKVFEELPLR----------DVVLWNAMVNGYAQIGEFHKALEVFRRMS-------KEG------------------  230 (660)
Q Consensus       186 ~~A~~~~~~~~~~----------~~~~~~~li~~~~~~~~~~~A~~~~~~m~-------~~~------------------  230 (660)
                      .+|+..+..+...          -..++-.+...+...|-...|.+.+++-+       ...                  
T Consensus       647 keald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f  726 (1238)
T KOG1127|consen  647 KEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIF  726 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHH
Confidence            5555544433210          01111111111112222222222222111       111                  


Q ss_pred             --CCCC---hhhHHHHHHHHHccCCchhHH----HHHHHHHHhCCCCCchHHHHHHHHHHc----C----CCHHHHHHHH
Q 048281          231 --IWMS---RFTVTGVLSALIMMGFFKNGR----VVHGIVVKMGYDSGVPVMNALIDMYGK----G----KCVGEALEIF  293 (660)
Q Consensus       231 --~~p~---~~t~~~ll~~~~~~~~~~~a~----~~~~~~~~~g~~~~~~~~~~li~~~~~----~----~~~~~A~~~~  293 (660)
                        +.||   ......+..-.-..+....-.    ..-.......+..+...|..|+..|.+    +    .+...|+..+
T Consensus       727 ~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~  806 (1238)
T KOG1127|consen  727 SQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCC  806 (1238)
T ss_pred             HHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHH
Confidence              1122   222222222122222221000    000001111112223333333333322    1    1223566666


Q ss_pred             HhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCC
Q 048281          294 EMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKN  370 (660)
Q Consensus       294 ~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  370 (660)
                      ....+   .+...||.|.-. ...|++.-+.-.|-+-.... +-...+|..+--.+....+++.|...+.......+.. 
T Consensus       807 KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~n-  883 (1238)
T KOG1127|consen  807 KKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLN-  883 (1238)
T ss_pred             HHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcCchh-
Confidence            55433   466677776655 44456665555555444331 2234456655556667778888888777766554433 


Q ss_pred             CCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC--------CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHc---
Q 048281          371 GSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS--------KKDVASWNIMILGYGMDGQGKEALDMFSCMCEA---  439 (660)
Q Consensus       371 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---  439 (660)
                              ...|--........|+.-++..+|..-.        .++..-|-+-......+|+.++-+...+++...   
T Consensus       884 --------l~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~a  955 (1238)
T KOG1127|consen  884 --------LVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLA  955 (1238)
T ss_pred             --------hHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHH
Confidence                    3333333333345677777777776521        134444544444555666666555444443321   


Q ss_pred             ------CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHH----HHHHHHhhcCCHHHHHHHHHhCCC
Q 048281          440 ------KLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYT----CVIDMLGRAGQLNEAYELALAMPN  509 (660)
Q Consensus       440 ------g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~  509 (660)
                            |.+.+...|........+.+.+..|.+...+.+.-...+.+...|+    .+.+.+...|.++.|..-+.....
T Consensus       956 l~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~ 1035 (1238)
T KOG1127|consen  956 LSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWM 1035 (1238)
T ss_pred             HHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccch
Confidence                  2233445666666666666666666665555443222233444444    344556667777777666655444


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          510 EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC---GNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       510 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      +.+..+-.+-+.. .-.|+++++.+.|++++.+.-++.   .....++......+.-+.|...+-+...
T Consensus      1036 evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1036 EVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             hHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            4444444333333 335788888888888888643332   2334455555566777777776665544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.80  E-value=5e-05  Score=87.28  Aligned_cols=263  Identities=15%  Similarity=0.052  Sum_probs=134.6

Q ss_pred             HHHcCChHHHHHHHHHHhhcCCCCCH----HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHH
Q 048281          311 HEQCGNHDGTLRLFDRMLSAGFQPDL----VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALM  386 (660)
Q Consensus       311 ~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li  386 (660)
                      +...|++++|...+++..+.-...+.    .....+...+...|+++.|...+............   .......+..+.
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~---~~~~~~~~~~la  538 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDV---YHYALWSLLQQS  538 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcc---hHHHHHHHHHHH
Confidence            33455555555555554432111111    12222333344455666655555554432111100   000022334455


Q ss_pred             HHHHhcCCHHHHHHHHhcCCC-------C----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCC--HHHHHHH
Q 048281          387 DMYTKCGSMRDAQMVFTKMSK-------K----DVASWNIMILGYGMDGQGKEALDMFSCMCEAK--LKPD--EVTFVGV  451 (660)
Q Consensus       387 ~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~--~~~~~~l  451 (660)
                      ..+...|+++.|...+++...       +    ....+..+...+...|++++|...+++.....  ..+.  ...+..+
T Consensus       539 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  618 (903)
T PRK04841        539 EILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAML  618 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHH
Confidence            556666776666666554321       0    11223344455566677777777777665421  1121  2233334


Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCChHHH-----HHHHHHHhhcCCHHHHHHHHHhCCCC--CCH----HHHHHHH
Q 048281          452 LSACSHSGFLSQGREFLPLMESRYGVVPTIEHY-----TCVIDMLGRAGQLNEAYELALAMPNE--ANP----VVWRTLL  520 (660)
Q Consensus       452 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~----~~~~~l~  520 (660)
                      .......|+.+.|.+.+..+..-.........+     ...+..+...|+.+.|...+......  ...    ..+..+.
T Consensus       619 a~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a  698 (903)
T PRK04841        619 AKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIA  698 (903)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHH
Confidence            445667778888877777764411111111111     11123345577888888877664431  111    1134566


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCC------CCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          521 AASRLHGNTDLAEIAAQRVFQLEP------GHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       521 ~~~~~~g~~~~A~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .++...|+.++|...+++++....      ....++..++.++.+.|+.++|...+.+..+.
T Consensus       699 ~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        699 RAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            677778888888888888776411      12235666777788888888888888877654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.74  E-value=8.9e-05  Score=78.39  Aligned_cols=505  Identities=14%  Similarity=0.047  Sum_probs=246.6

Q ss_pred             HHHHhhccCChhHHHHHHHHHHHhCCCCC-hhHHHHHHHHhHcCCChhHHHHHHcc--CCCCCCcccHHHHHHHHHcCCC
Q 048281           38 SLQLCAHQTNLQKGQEIHSYMLRTGIIDS-PLSITSLINMYSKCCQMKYALFVFNN--LSCEPNVFTYNAMISGFYSNDF  114 (660)
Q Consensus        38 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~ll~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~~li~~~~~~~~  114 (660)
                      .+..|.+.. ..  ..++..+....+.++ ...|..|-..|+..-+...|.+.|+.  .....+...+......|++..+
T Consensus       465 ~a~~~~rK~-~~--~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~  541 (1238)
T KOG1127|consen  465 VALGCMRKN-SA--LALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEEST  541 (1238)
T ss_pred             HHHHHhhhh-HH--HHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhcccc
Confidence            344444443 22  333333333334343 35677777888877777888888874  2344556677778888888888


Q ss_pred             hhHHHHHHHHHHHCCC-CCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHc
Q 048281          115 AFKGLDFFNHMRQLGV-LPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFE  193 (660)
Q Consensus       115 ~~~a~~~~~~m~~~~~-~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  193 (660)
                      ++.|..+.-..-+... ..-...|..+--.+.+.++...+..-|+...+..+ -|...|..|..+|.++|++..|.++|.
T Consensus       542 we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~  620 (1238)
T KOG1127|consen  542 WEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFT  620 (1238)
T ss_pred             HHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhh
Confidence            8888777333222110 00111222233335566777777777777766432 256778888888888888888888887


Q ss_pred             cCCCCCchhHH-H--HHHHHHhCCChhHHHHHHHHHHHC------CCCCChhhHHHHHHHHHccCCchhHHHHHHHHHH-
Q 048281          194 ELPLRDVVLWN-A--MVNGYAQIGEFHKALEVFRRMSKE------GIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVK-  263 (660)
Q Consensus       194 ~~~~~~~~~~~-~--li~~~~~~~~~~~A~~~~~~m~~~------~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~-  263 (660)
                      +...-++..+- .  ....-+..|.+.+|+..+......      +..--..++.-+...+...|-...+..+++.-++ 
T Consensus       621 kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~  700 (1238)
T KOG1127|consen  621 KASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIES  700 (1238)
T ss_pred             hhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            66543332221 1  112334567777777777766432      1111112233333333333333333333332221 


Q ss_pred             ------hCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhh--HHHHHHH-HHHcCCh---H---HHHHHHHHHh
Q 048281          264 ------MGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFS--WNSIMTV-HEQCGNH---D---GTLRLFDRML  328 (660)
Q Consensus       264 ------~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~li~~-~~~~g~~---~---~a~~~~~~m~  328 (660)
                            .....+...|-.+          ..|..+|-... |+.+.  +...+.. .-..+..   +   -+.+.+-.-.
T Consensus       701 f~~~l~h~~~~~~~~Wi~a----------sdac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl  769 (1238)
T KOG1127|consen  701 FIVSLIHSLQSDRLQWIVA----------SDACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL  769 (1238)
T ss_pred             HHHHHHHhhhhhHHHHHHH----------hHHHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH
Confidence                  1111112222111          12333333333 33221  1111111 1111111   1   0111111111


Q ss_pred             hcCCCCCHHHHHHHHHHHhc----cc----chHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHH
Q 048281          329 SAGFQPDLVTFSTVLPACSH----LA----ALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQM  400 (660)
Q Consensus       329 ~~g~~p~~~t~~~ll~~~~~----~~----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  400 (660)
                      +  ...+..+|..+...+.+    .+    +...|...+...++..-..         ..+||+|.-. ...|.+.-|..
T Consensus       770 s--l~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann---------~~~WnaLGVl-sg~gnva~aQH  837 (1238)
T KOG1127|consen  770 S--LAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCANN---------EGLWNALGVL-SGIGNVACAQH  837 (1238)
T ss_pred             H--HhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhcc---------HHHHHHHHHh-hccchhhhhhh
Confidence            1  11122233333222211    11    1224444444444433222         5566666554 55566666666


Q ss_pred             HHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH---h
Q 048281          401 VFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES---R  474 (660)
Q Consensus       401 ~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~  474 (660)
                      .|-.-.   +....+|..+...+.++.+++-|...|...+... +.|...|..........|+.-+...+|..--.   .
T Consensus       838 CfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~  916 (1238)
T KOG1127|consen  838 CFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSK  916 (1238)
T ss_pred             hhhhhhhccccchhheeccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhcc
Confidence            665433   3456678777777788888888888888777642 23444554444444456666666666665111   1


Q ss_pred             cCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC------------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          475 YGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN------------EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       475 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      -|-.|+..-|.+....-...|+.++-+...+++..            +.+...|...+...-+.+.++.|.....+++.+
T Consensus       917 ~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~Rligl  996 (1238)
T KOG1127|consen  917 EGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGL  996 (1238)
T ss_pred             ccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            13344444444444444556665555544444321            233456666666666666666666666665442


Q ss_pred             ------CCCCcchHHHHHHHHHhCCChHHHHHHH
Q 048281          543 ------EPGHCGNYVLMSNIYVAGGKYEEVLDIR  570 (660)
Q Consensus       543 ------~p~~~~~~~~l~~~~~~~g~~~~a~~~~  570 (660)
                            ...+...--.+++++...|.++.|...+
T Consensus       997 Le~k~d~sqynvak~~~gRL~lslgefe~A~~a~ 1030 (1238)
T KOG1127|consen  997 LELKLDESQYNVAKPDAGRLELSLGEFESAKKAS 1030 (1238)
T ss_pred             HHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhh
Confidence                  1111123334566666666666555443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.73  E-value=6.2e-07  Score=91.09  Aligned_cols=186  Identities=17%  Similarity=0.185  Sum_probs=151.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS  458 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  458 (660)
                      ...-..+...+...|-...|..+|++.     ..|...|.+|+..|+..+|..+..+-.++  +||+..|..+.......
T Consensus       398 Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~  470 (777)
T KOG1128|consen  398 WQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDP  470 (777)
T ss_pred             chHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccCh
Confidence            566778889999999999999999975     67888999999999999999999998883  89999999998888888


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHH
Q 048281          459 GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAA  536 (660)
Q Consensus       459 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~  536 (660)
                      .-+++|.++.+....+        .-..+.....+.++++++.+.|+.-..  +-...+|-.+..+..+.++++.|.+.|
T Consensus       471 s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF  542 (777)
T KOG1128|consen  471 SLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAF  542 (777)
T ss_pred             HHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHH
Confidence            8888999888876542        222233334457888888888876332  345678888888888888889999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048281          537 QRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVR  579 (660)
Q Consensus       537 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  579 (660)
                      ...+.++|++.+.|++++.+|.+.|+..+|...+++..+.+..
T Consensus       543 ~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~  585 (777)
T KOG1128|consen  543 HRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ  585 (777)
T ss_pred             HHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC
Confidence            9888889988888999999999888888888888888776643

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.73  E-value=2.2e-05  Score=79.36  Aligned_cols=257  Identities=12%  Similarity=0.026  Sum_probs=147.1

Q ss_pred             HHHHHcCChHHHHHHHHHHhhcCCCCCHH-HHHHHHHHHhc----ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHH
Q 048281          309 TVHEQCGNHDGTLRLFDRMLSAGFQPDLV-TFSTVLPACSH----LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNN  383 (660)
Q Consensus       309 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  383 (660)
                      ..+...|++++|.+.+++..+.  .|+.. .+.. ...+..    .+....+.+.+..    ....     .+.......
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~----~~~~-----~~~~~~~~~  118 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDD--YPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL----WAPE-----NPDYWYLLG  118 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHH-hHHHHHhcccccCchhHHHHHhc----cCcC-----CCCcHHHHH
Confidence            3455667777777777777665  34332 2221 111222    2333333333322    1111     011134445


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHhc
Q 048281          384 ALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKL-KPDE--VTFVGVLSACSH  457 (660)
Q Consensus       384 ~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~~~~~ll~~~~~  457 (660)
                      .+...+...|++++|...+++..   ..+...+..+..+|...|++++|...+++...... .|+.  ..|..+...+..
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            56667788888888888888765   23456777788888888888888888888776421 1222  234456677888


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHH-H--HHHHHHhhcCCHHHHHH------HHHhC-CCCCCHHHHHHHHHHHHHcC
Q 048281          458 SGFLSQGREFLPLMESRYGVVPTIEHY-T--CVIDMLGRAGQLNEAYE------LALAM-PNEANPVVWRTLLAASRLHG  527 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~~~~A~~------~~~~~-~~~~~~~~~~~l~~~~~~~g  527 (660)
                      .|++++|..+++.+.......+..... +  .++.-+...|..+.+.+      ..... ..............++...|
T Consensus       199 ~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  278 (355)
T cd05804         199 RGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAG  278 (355)
T ss_pred             CCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCC
Confidence            888888888888875421111222111 1  22333333443222222      21111 11111222235666778888


Q ss_pred             ChHHHHHHHHHHHhcC-C---C-----CcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          528 NTDLAEIAAQRVFQLE-P---G-----HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       528 ~~~~A~~~~~~~~~~~-p---~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      +.+.|...++.+.... .   .     ........+.++...|++++|.+.+......+
T Consensus       279 ~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         279 DKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             CHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            9999999998876632 1   1     23445567777889999999999999886654

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=98.72  E-value=3.7e-06  Score=76.23  Aligned_cols=318  Identities=14%  Similarity=0.081  Sum_probs=168.8

Q ss_pred             CCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC--CChhhHHH-
Q 048281          230 GIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE--KDIFSWNS-  306 (660)
Q Consensus       230 ~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~-  306 (660)
                      |+....--+.+++..+.+..++..+.+++..-.+.. +.+....+.|..+|-+..++..|-..++++.+  |...-|.. 
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY   83 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLY   83 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHH
Confidence            343444456677777777777888877776655543 22455667777788888888888888887765  32222221 


Q ss_pred             HHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHH--HhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHH
Q 048281          307 IMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPA--CSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNA  384 (660)
Q Consensus       307 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  384 (660)
                      -...+-+.+.+.+|+++...|.+.   |+...-..-+.+  .-..+++..++.+.+.....   .+        ..+.+.
T Consensus        84 ~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~--------Ad~~in  149 (459)
T KOG4340|consen   84 QAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NE--------ADGQIN  149 (459)
T ss_pred             HHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---Cc--------cchhcc
Confidence            234555667778888887777643   222221111111  12233444444433332111   11        233333


Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCC----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC
Q 048281          385 LMDMYTKCGSMRDAQMVFTKMSK----KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGF  460 (660)
Q Consensus       385 li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  460 (660)
                      ......+.|+.+.|.+-|+...+    .....||.-+.. .+.|+++.|++...++++.|++-.+..=..+..--...+.
T Consensus       150 ~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrs  228 (459)
T KOG4340|consen  150 LGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRS  228 (459)
T ss_pred             chheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhc
Confidence            34444455555555555554432    123344433322 2345555555555555555543221100000000000000


Q ss_pred             HHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCCHHHHHHHHHHHHHcCChHHHHHHH
Q 048281          461 LSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN----EANPVVWRTLLAASRLHGNTDLAEIAA  536 (660)
Q Consensus       461 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~  536 (660)
                      +..-..+....+        +..+|.-...+.+.|+++.|.+.+-.|+.    +.|+++...+.-.- ..++.....+-+
T Consensus       229 vgNt~~lh~Sal--------~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KL  299 (459)
T KOG4340|consen  229 VGNTLVLHQSAL--------VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKL  299 (459)
T ss_pred             ccchHHHHHHHH--------HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHH
Confidence            000000000000        11233333445688999999999988875    36777776654332 235566666777


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          537 QRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       537 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      .-+++++|-.++++..+.-+|++..-++-|..++-+
T Consensus       300 qFLL~~nPfP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  300 QFLLQQNPFPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHhcCCCChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            777888888788999999999998888888777643

>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=98.71  E-value=3e-07  Score=87.93  Aligned_cols=149  Identities=12%  Similarity=0.060  Sum_probs=116.0

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHh----h
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLG----R  493 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~  493 (660)
                      ..+...|++++|++++.+-      .+.......+..+.+.++++.|.+.++.|.+   ...| .+...+..++.    -
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---IDED-SILTQLAEAWVNLATG  179 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCC-HHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCc-HHHHHHHHHHHHHHhC
Confidence            4566789999999998753      3556677788899999999999999999975   3334 33444444433    3


Q ss_pred             cCCHHHHHHHHHhCCCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCCh-HHHHHHH
Q 048281          494 AGQLNEAYELALAMPNE--ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKY-EEVLDIR  570 (660)
Q Consensus       494 ~g~~~~A~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~  570 (660)
                      .+++.+|..+|+++..+  +++.+.+.+..++...|++++|+.++.++++.+|+++.+...++.+....|+. +.+.+++
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            34799999999998663  67788899999999999999999999999999999999999999999999988 6677888


Q ss_pred             HHHHhC
Q 048281          571 HTMRQQ  576 (660)
Q Consensus       571 ~~~~~~  576 (660)
                      .+++..
T Consensus       260 ~qL~~~  265 (290)
T PF04733_consen  260 SQLKQS  265 (290)
T ss_dssp             HHCHHH
T ss_pred             HHHHHh
Confidence            887763

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.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.70  E-value=1.4e-06  Score=78.67  Aligned_cols=147  Identities=9%  Similarity=0.071  Sum_probs=113.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCH
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQL  497 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  497 (660)
                      ..|...|+++.+....+.+..    |.        ..+...++.+++...++...+  .-+.+...|..|...|...|++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCH
Confidence            457777777765444322221    11        012235667788888887776  4566788899999999999999


Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHH-HHcCC--hHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          498 NEAYELALAMPN--EANPVVWRTLLAAS-RLHGN--TDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       498 ~~A~~~~~~~~~--~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      ++|...|++...  +.+...+..+..++ ...|+  .++|.++++++++.+|+++.++..++..+.+.|++++|...+++
T Consensus        90 ~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         90 DNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999988654  45677888888864 67777  59999999999999999999999999999999999999999999


Q ss_pred             HHhCCC
Q 048281          573 MRQQNV  578 (660)
Q Consensus       573 ~~~~~~  578 (660)
                      +.+...
T Consensus       170 aL~l~~  175 (198)
T PRK10370        170 VLDLNS  175 (198)
T ss_pred             HHhhCC
Confidence            987543

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.67  E-value=6.6e-06  Score=89.47  Aligned_cols=198  Identities=13%  Similarity=0.148  Sum_probs=169.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCC--------CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSKK--------DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVG  450 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  450 (660)
                      ...|-..|......++.+.|++++++....        -...|.++++.-...|.-+...++|+++.+.  .-.-..|..
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~~ 1535 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHLK 1535 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHHH
Confidence            678888888999999999999999987632        2357888888888888888999999999984  222356788


Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCCHHHHHHHHHHHHHc
Q 048281          451 VLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN----EANPVVWRTLLAASRLH  526 (660)
Q Consensus       451 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~l~~~~~~~  526 (660)
                      |...|.+.+..++|.++++.|.++++  ....+|..+++.+.+..+-+.|.+++.+...    +.......-.+..-.++
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            88899999999999999999999655  6778999999999999999999999987543    23455666677777899


Q ss_pred             CChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048281          527 GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRK  580 (660)
Q Consensus       527 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  580 (660)
                      |+.+.+..+|+..+.-.|.....|..+++.-.+.|..+.++.+|+++...++.+
T Consensus      1614 GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             CCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            999999999999999999999999999999999999999999999999987743

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.67  E-value=2.2e-06  Score=80.92  Aligned_cols=59  Identities=12%  Similarity=-0.003  Sum_probs=51.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCC---cchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          518 TLLAASRLHGNTDLAEIAAQRVFQLEPGH---CGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       518 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+...+...|++++|+..++++++..|++   +..+..++.++...|++++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45667889999999999999999987765   468899999999999999999999988654

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).

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.65  E-value=0.00028  Score=65.72  Aligned_cols=312  Identities=13%  Similarity=0.097  Sum_probs=170.0

Q ss_pred             HHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHH---HHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 048281          171 IGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVN---GYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIM  247 (660)
Q Consensus       171 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~---~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~  247 (660)
                      -..-|.+.+...|++.+|+.-|....+-|+..|.++.+   .|...|+...|+.=|.+.++  .+||-..-.  +     
T Consensus        40 khlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~AR--i-----  110 (504)
T KOG0624|consen   40 KHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAAR--I-----  110 (504)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHH--H-----
Confidence            33445566666778888888887777777777766643   56666777777776666655  345532211  0     


Q ss_pred             cCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChh------------------hHHHHHH
Q 048281          248 MGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIF------------------SWNSIMT  309 (660)
Q Consensus       248 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~------------------~~~~li~  309 (660)
                                     ++            ...+.+.|.++.|..=|+.+.+.++.                  .....+.
T Consensus       111 ---------------QR------------g~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~  163 (504)
T KOG0624|consen  111 ---------------QR------------GVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLK  163 (504)
T ss_pred             ---------------Hh------------chhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHH
Confidence                           00            12334455555555555554432210                  0111222


Q ss_pred             HHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHH
Q 048281          310 VHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMY  389 (660)
Q Consensus       310 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~  389 (660)
                      .+...|+...|+.....+++.. +-|                                           ...+..-..+|
T Consensus       164 s~~~~GD~~~ai~~i~~llEi~-~Wd-------------------------------------------a~l~~~Rakc~  199 (504)
T KOG0624|consen  164 SASGSGDCQNAIEMITHLLEIQ-PWD-------------------------------------------ASLRQARAKCY  199 (504)
T ss_pred             HHhcCCchhhHHHHHHHHHhcC-cch-------------------------------------------hHHHHHHHHHH
Confidence            3333445555555544444421 122                                           33344444444


Q ss_pred             HhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH----HHH-------H--HH
Q 048281          390 TKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVT----FVG-------V--LS  453 (660)
Q Consensus       390 ~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~----~~~-------l--l~  453 (660)
                      ...|++..|+.-+....   ..+..+.--+-..+...|+.+.++...++-++  +.||...    |..       |  +.
T Consensus       200 i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e  277 (504)
T KOG0624|consen  200 IAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAE  277 (504)
T ss_pred             HhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHH
Confidence            44444444443333222   23333333444444445555555555554444  2344321    110       1  11


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCC-----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHHc
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVVPT-----IEHYTCVIDMLGRAGQLNEAYELALAMPN-EA-NPVVWRTLLAASRLH  526 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~  526 (660)
                      .....+++.++.+..+...+.   .|.     ...+..+-.+|...|++.+|++...++.. .| |+.++.--..+|.-.
T Consensus       278 ~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~d  354 (504)
T KOG0624|consen  278 QAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGD  354 (504)
T ss_pred             HHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhh
Confidence            233456666666666666542   233     23456667778888999999998887654 34 467888888899988


Q ss_pred             CChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          527 GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       527 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ..++.|+.-|+++.+.+|++..+-         .| .+.|.++.+...++.
T Consensus       355 E~YD~AI~dye~A~e~n~sn~~~r---------eG-le~Akrlkkqs~kRD  395 (504)
T KOG0624|consen  355 EMYDDAIHDYEKALELNESNTRAR---------EG-LERAKRLKKQSGKRD  395 (504)
T ss_pred             HHHHHHHHHHHHHHhcCcccHHHH---------HH-HHHHHHHHHHhccch
Confidence            999999999999999999875432         11 455555555554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.65  E-value=7.9e-07  Score=75.88  Aligned_cols=122  Identities=11%  Similarity=0.007  Sum_probs=77.5

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-
Q 048281          431 DMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-  509 (660)
Q Consensus       431 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  509 (660)
                      .+|++.++.  .|+.  +.....++...|++++|...|+.+..  --+.+...|..+..++.+.|++++|...|++... 
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            344444442  3443  33445566667777777777777664  2334556667777777777777777777766543 


Q ss_pred             -CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          510 -EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       510 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                       +.++..|..+..++...|+.++|+..|++++++.|+++..+...+.+..
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQI  137 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence             4456677777777777777777777777777777777766666555543

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.65  E-value=8.5e-05  Score=75.11  Aligned_cols=189  Identities=11%  Similarity=0.037  Sum_probs=101.4

Q ss_pred             HHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CCH--hHHHHH
Q 048281          344 PACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-----KDV--ASWNIM  416 (660)
Q Consensus       344 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~--~~~~~l  416 (660)
                      ..+...|+++.|...++......+..         ...+..+...|...|++++|...+++...     ++.  ..|..+
T Consensus       122 ~~~~~~G~~~~A~~~~~~al~~~p~~---------~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~l  192 (355)
T cd05804         122 FGLEEAGQYDRAEEAARRALELNPDD---------AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHL  192 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCCCC---------cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHH
Confidence            34455555555555555555544332         44556666677777777777777666542     111  234456


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCC-CCCHHHH-H--HHHHHHhccCCHHHHHHH--HHHhHHhcCCC--CChHHHHHHH
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKL-KPDEVTF-V--GVLSACSHSGFLSQGREF--LPLMESRYGVV--PTIEHYTCVI  488 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~-~--~ll~~~~~~g~~~~a~~~--~~~~~~~~~~~--~~~~~~~~l~  488 (660)
                      ...+...|++++|..++++...... .+..... +  .++.-+...|..+.+.+.  ....... ...  .........+
T Consensus       193 a~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~-~~~~~~~~~~~~~~a  271 (355)
T cd05804         193 ALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAW-HFPDHGLAFNDLHAA  271 (355)
T ss_pred             HHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHh-hcCcccchHHHHHHH
Confidence            6777778888888888887754321 1111111 1  222333334433333332  1111110 111  1112223456


Q ss_pred             HHHhhcCCHHHHHHHHHhCCC--CC---------CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          489 DMLGRAGQLNEAYELALAMPN--EA---------NPVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~--~~---------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      .++...|+.++|..+++.+..  ..         .........-++...|+.+.|...+..++.+
T Consensus       272 ~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         272 LALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            667788888888888876543  11         1122223334567889999999999888775

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.61  E-value=9.4e-07  Score=75.42  Aligned_cols=107  Identities=11%  Similarity=-0.105  Sum_probs=92.5

Q ss_pred             HHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 048281          466 EFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLE  543 (660)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  543 (660)
                      .+++...+   +.|+  .+..+...+...|++++|...|+....  +.+...|..+..++...|++++|+..|+++++++
T Consensus        14 ~~~~~al~---~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLS---VDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHH---cCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            34555543   3344  466678889999999999999998654  5678899999999999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          544 PGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       544 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      |+++..+..++.++...|++++|...++...+..
T Consensus        89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999997754

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.58  E-value=4.3e-06  Score=69.90  Aligned_cols=118  Identities=11%  Similarity=-0.012  Sum_probs=97.9

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ......+...+...|++++|.++|+-+..  +.+..-|-.|..+|...|++++|+..|.++..++|++|.++..++.++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            34566677778899999999999998543  5677889999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhCCCccCCcEEEEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHH
Q 048281          559 AGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLR  621 (660)
Q Consensus       559 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~  621 (660)
                      ..|+.+.|++.|+......                       ..+|+...+....+.....+.
T Consensus       115 ~lG~~~~A~~aF~~Ai~~~-----------------------~~~~~~~~l~~~A~~~L~~l~  154 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRIC-----------------------GEVSEHQILRQRAEKMLQQLS  154 (157)
T ss_pred             HcCCHHHHHHHHHHHHHHh-----------------------ccChhHHHHHHHHHHHHHHhh
Confidence            9999999999999987742                       145666666666655555443

>PLN02789 farnesyltranstransferase

Probab=98.53  E-value=3.2e-05  Score=75.20  Aligned_cols=213  Identities=8%  Similarity=0.017  Sum_probs=144.8

Q ss_pred             cchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcC-CHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCC
Q 048281          350 AALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCG-SMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQ  425 (660)
Q Consensus       350 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~  425 (660)
                      +..+.|......++...+..         ..+|+.-..++...| ++++++..++++.   .++..+|+.....+.+.|+
T Consensus        51 e~serAL~lt~~aI~lnP~~---------ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         51 ERSPRALDLTADVIRLNPGN---------YTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             CCCHHHHHHHHHHHHHCchh---------HHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCc
Confidence            34445555555555544433         455655555666666 5688888887765   3355677766655666665


Q ss_pred             h--HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc---CCH---
Q 048281          426 G--KEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA---GQL---  497 (660)
Q Consensus       426 ~--~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~---  497 (660)
                      .  ++++.+++++.+.. +-|..+|..-..++...|+++++++.++++++.  -.-+...|+....++.+.   |..   
T Consensus       122 ~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~  198 (320)
T PLN02789        122 DAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAM  198 (320)
T ss_pred             hhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--CCCchhHHHHHHHHHHhcccccccccc
Confidence            3  67788888888753 345677877777888888899999999999873  334555666655555444   222   


Q ss_pred             -HHHHHHHHhCC-C-CCCHHHHHHHHHHHHHc----CChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCC---------
Q 048281          498 -NEAYELALAMP-N-EANPVVWRTLLAASRLH----GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGG---------  561 (660)
Q Consensus       498 -~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---------  561 (660)
                       ++++....++. . +.+...|+.+...+...    ++..+|...+.++++.+|.++.++..|+++|++..         
T Consensus       199 ~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~  278 (320)
T PLN02789        199 RDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDT  278 (320)
T ss_pred             HHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhh
Confidence             45666664433 2 45778899988888773    44567989999988889999889999999998743         


Q ss_pred             ---------ChHHHHHHHHHHH
Q 048281          562 ---------KYEEVLDIRHTMR  574 (660)
Q Consensus       562 ---------~~~~a~~~~~~~~  574 (660)
                               ..++|.++++.+.
T Consensus       279 ~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        279 VDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hhccccccccHHHHHHHHHHHH
Confidence                     2366777777773

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.53  E-value=7.2e-06  Score=73.65  Aligned_cols=127  Identities=16%  Similarity=0.058  Sum_probs=95.6

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc
Q 048281          449 VGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLH  526 (660)
Q Consensus       449 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~  526 (660)
                      ..+-.++...|+-+....+......  ....+......++....+.|++.+|...+++...  ++|...|+.+..+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            4455566677777777777766543  3444555666677888888888888888887644  67778888888888888


Q ss_pred             CChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          527 GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       527 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      |+.+.|...|.+++++.|+++..+++++..|.-.|+++.|..++......+
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            888888888888888888888888888888888888888888887776544

>PF12854 PPR_1: PPR repeat

Probab=98.49  E-value=1.7e-07  Score=56.64  Aligned_cols=32  Identities=31%  Similarity=0.571  Sum_probs=18.7

Q ss_pred             CCCCChhHHHHHHHHhHhcCChHHHHHHHccC
Q 048281          164 GLDLDVYIGSALVNTYLKCQFMEEALKVFEEL  195 (660)
Q Consensus       164 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  195 (660)
                      |+.||..+|+.||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45555555555555555556666555555555

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.49  E-value=1.6e-05  Score=71.83  Aligned_cols=156  Identities=9%  Similarity=0.007  Sum_probs=121.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 048281          384 ALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQ  463 (660)
Q Consensus       384 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  463 (660)
                      .-+-.|...|+++.+....+.+..+.        ..+...++.++++..+++..+.. +.|...|..+...|...|++++
T Consensus        21 ~~~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~   91 (198)
T PRK10370         21 LCVGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDN   91 (198)
T ss_pred             HHHHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            34557889999888765554332221        01223567788888888888764 5677889999999999999999


Q ss_pred             HHHHHHHhHHhcCCCCChHHHHHHHHH-HhhcCC--HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 048281          464 GREFLPLMESRYGVVPTIEHYTCVIDM-LGRAGQ--LNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQR  538 (660)
Q Consensus       464 a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~--~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  538 (660)
                      |...|+.+.+  -.+.+...+..+..+ |.+.|+  .++|.+++++...  +.+...+..+...+...|++++|+..+++
T Consensus        92 A~~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         92 ALLAYRQALQ--LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999987  344567888888886 467787  5999999999765  45778999999999999999999999999


Q ss_pred             HHhcCCCCcchH
Q 048281          539 VFQLEPGHCGNY  550 (660)
Q Consensus       539 ~~~~~p~~~~~~  550 (660)
                      ++++.|.+..-+
T Consensus       170 aL~l~~~~~~r~  181 (198)
T PRK10370        170 VLDLNSPRVNRT  181 (198)
T ss_pred             HHhhCCCCccHH
Confidence            999988765433

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.47  E-value=8.7e-06  Score=83.05  Aligned_cols=218  Identities=10%  Similarity=-0.022  Sum_probs=169.8

Q ss_pred             CCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCCH
Q 048281          333 QPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS--KKDV  410 (660)
Q Consensus       333 ~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~  410 (660)
                      +|--..-..+...+...|-...|..++++                 ...|..++..|+..|+..+|..+..+-.  .|+.
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Er-----------------lemw~~vi~CY~~lg~~~kaeei~~q~lek~~d~  457 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFER-----------------LEMWDPVILCYLLLGQHGKAEEINRQELEKDPDP  457 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHh-----------------HHHHHHHHHHHHHhcccchHHHHHHHHhcCCCcc
Confidence            33333444455566677777888888776                 4567788999999999999998877655  4677


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      ..|..+.+...+..-+++|.++.+..-..       .-..+.....+.++++++.+.|+.-.+  -.+....+|-.+.-+
T Consensus       458 ~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~--~nplq~~~wf~~G~~  528 (777)
T KOG1128|consen  458 RLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLE--INPLQLGTWFGLGCA  528 (777)
T ss_pred             hhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhh--cCccchhHHHhccHH
Confidence            88888888877777788888888765432       112222223446899999999988766  233445688888888


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHH
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  568 (660)
                      ..+.++++.|.+.|.....  +.+...||++-.+|.+.|+-.+|...+.++++-+-++...|.+..-+..+.|.|++|.+
T Consensus       529 ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~  608 (777)
T KOG1128|consen  529 ALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIK  608 (777)
T ss_pred             HHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHH
Confidence            9999999999999987543  44567999999999999999999999999999888888888888999999999999999


Q ss_pred             HHHHHHhC
Q 048281          569 IRHTMRQQ  576 (660)
Q Consensus       569 ~~~~~~~~  576 (660)
                      .+.++.+.
T Consensus       609 A~~rll~~  616 (777)
T KOG1128|consen  609 AYHRLLDL  616 (777)
T ss_pred             HHHHHHHh
Confidence            99988554

>PF12854 PPR_1: PPR repeat

Probab=98.45  E-value=2.7e-07  Score=55.80  Aligned_cols=33  Identities=42%  Similarity=0.623  Sum_probs=25.0

Q ss_pred             CCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcC
Q 048281          265 GYDSGVPVMNALIDMYGKGKCVGEALEIFEMME  297 (660)
Q Consensus       265 g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  297 (660)
                      |+.||..+|++||++||+.|++++|.++|++|+
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            567777777777777777777777777777763

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.45  E-value=0.00034  Score=80.46  Aligned_cols=261  Identities=11%  Similarity=-0.016  Sum_probs=116.4

Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCCh----hhHHHHHHHHHccCCchhHHHHHHHHHHhCCC-----CCchHHHHHHHHHH
Q 048281          211 AQIGEFHKALEVFRRMSKEGIWMSR----FTVTGVLSALIMMGFFKNGRVVHGIVVKMGYD-----SGVPVMNALIDMYG  281 (660)
Q Consensus       211 ~~~~~~~~A~~~~~~m~~~~~~p~~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-----~~~~~~~~li~~~~  281 (660)
                      ...|++++|...+++....-...+.    ...+.+...+...|+++.|...+.......-.     .....+..+...+.
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            3455555555555554432111111    12233333444455555555555444322100     01123334444555


Q ss_pred             cCCCHHHHHHHHHhcCC-------CC----hhhHHHHHHHHHHcCChHHHHHHHHHHhhcC--CCCC--HHHHHHHHHHH
Q 048281          282 KGKCVGEALEIFEMMEE-------KD----IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAG--FQPD--LVTFSTVLPAC  346 (660)
Q Consensus       282 ~~~~~~~A~~~~~~~~~-------~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~--~~t~~~ll~~~  346 (660)
                      ..|+++.|...+++...       ++    ...+..+...+...|++++|...+.+.....  ..+.  ...+..+....
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            55555555555444321       00    1122333344445566666655555543310  1111  12222333444


Q ss_pred             hcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCH----hHHHHHHHH
Q 048281          347 SHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDV----ASWNIMILG  419 (660)
Q Consensus       347 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~----~~~~~li~~  419 (660)
                      ...|+.+.|...+.............  ...........+..+...|+.+.|...+.....   ...    ..+..+..+
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~  700 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYH--SDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARA  700 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhccccc--HhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHH
Confidence            55566666655555543321110000  000011111222334446666666666654431   111    123445566


Q ss_pred             HHhcCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 048281          420 YGMDGQGKEALDMFSCMCEA----KLKPD-EVTFVGVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                      +...|++++|...+++....    |..++ ..+...+..++...|+.++|...+.++.+
T Consensus       701 ~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        701 QILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            67777777777777776543    22221 12444455567777777777777777766

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.45  E-value=2.2e-05  Score=70.61  Aligned_cols=160  Identities=14%  Similarity=0.104  Sum_probs=131.6

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHH
Q 048281          409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVI  488 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  488 (660)
                      |... ..+-..+...|+.+....+..+.... -.-|......++....+.|++..|...++++..  .-++|...|+.+.
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lg  141 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLG  141 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHH
Confidence            3444 55666777788888888887776543 133444555678888999999999999999987  7788899999999


Q ss_pred             HHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHH
Q 048281          489 DMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  566 (660)
                      -+|.+.|++++|..-|.+..+  ..++...+.+.-.+.-.|+.+.|+.++.......+.+..+-..|+.+....|++++|
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A  221 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREA  221 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHH
Confidence            999999999999998887654  567788999999999999999999999999888887888889999999999999999


Q ss_pred             HHHHHH
Q 048281          567 LDIRHT  572 (660)
Q Consensus       567 ~~~~~~  572 (660)
                      ..+...
T Consensus       222 ~~i~~~  227 (257)
T COG5010         222 EDIAVQ  227 (257)
T ss_pred             Hhhccc
Confidence            887554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.43  E-value=3.2e-05  Score=82.96  Aligned_cols=131  Identities=13%  Similarity=0.042  Sum_probs=77.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHH
Q 048281          409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEV-TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCV  487 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  487 (660)
                      ++..+..|.....+.|++++|..+++...+.  .|+.. ....+...+.+.+++++|....+....  .-+-+......+
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            3455556666666666666666666666663  45443 344445566666666666666666654  233344555566


Q ss_pred             HHHHhhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 048281          488 IDMLGRAGQLNEAYELALAMPN-E-ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLE  543 (660)
Q Consensus       488 ~~~~~~~g~~~~A~~~~~~~~~-~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  543 (660)
                      ..++...|++++|.++|+++.. . .+..+|..+..++...|+.++|...|+++++..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~  218 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI  218 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            6666666666666666666543 2 234566666666666666666666666666653

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.37  E-value=0.00017  Score=70.75  Aligned_cols=176  Identities=16%  Similarity=0.068  Sum_probs=119.6

Q ss_pred             CCHHHHHHHHhcCCC------CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048281          393 GSMRDAQMVFTKMSK------KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGRE  466 (660)
Q Consensus       393 g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  466 (660)
                      .++.++...-+.++.      ++...+...+.+.........+..++. +... -.-...-|...+ .+...|.+++|+.
T Consensus       251 ~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~-~~~~-~~~~aa~YG~A~-~~~~~~~~d~A~~  327 (484)
T COG4783         251 ERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLA-KRSK-RGGLAAQYGRAL-QTYLAGQYDEALK  327 (484)
T ss_pred             hHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHH-HHhC-ccchHHHHHHHH-HHHHhcccchHHH
Confidence            355566666666652      344555555554433332222222222 2222 011222333333 3455688899999


Q ss_pred             HHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 048281          467 FLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN-PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       467 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  544 (660)
                      .++.+++  ..+-|+..+....+.+.+.++.++|.+.++++.. .|+ ...+-++..++.+.|+..+|+.+++.....+|
T Consensus       328 ~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p  405 (484)
T COG4783         328 LLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDP  405 (484)
T ss_pred             HHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Confidence            9999876  5666777778888889999999999999988654 454 67788888899999999999999999888899


Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          545 GHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       545 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                      +++..|..|+..|..+|+..++....-+.
T Consensus       406 ~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         406 EDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             CCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            99999999999988887777776665554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.34  E-value=2.8e-05  Score=73.33  Aligned_cols=164  Identities=14%  Similarity=0.009  Sum_probs=123.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-CH---hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH----HH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK--K-DV---ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEV----TF  448 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~~  448 (660)
                      ...+..++..+.+.|+++.|...|+++..  | +.   .++..+..++...|++++|+..++++.+.  .|+..    ++
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            66778888899999999999999998763  3 22   46788889999999999999999999985  34322    34


Q ss_pred             HHHHHHHhcc--------CCHHHHHHHHHHhHHhcCCCCChH-H--------------HHHHHHHHhhcCCHHHHHHHHH
Q 048281          449 VGVLSACSHS--------GFLSQGREFLPLMESRYGVVPTIE-H--------------YTCVIDMLGRAGQLNEAYELAL  505 (660)
Q Consensus       449 ~~ll~~~~~~--------g~~~~a~~~~~~~~~~~~~~~~~~-~--------------~~~l~~~~~~~g~~~~A~~~~~  505 (660)
                      ..+..++...        |+.++|.+.++.+.+.+.-.+... .              ...+...|.+.|++++|...++
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~  190 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFE  190 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            4444455543        788999999999987422211110 1              1245677889999999999998


Q ss_pred             hCCC-CC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 048281          506 AMPN-EA----NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       506 ~~~~-~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  544 (660)
                      +... .|    ....|..++.++...|++++|...++.+....|
T Consensus       191 ~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       191 TVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            8643 12    356899999999999999999999988876555

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).

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.34  E-value=6.3e-06  Score=69.99  Aligned_cols=96  Identities=20%  Similarity=0.177  Sum_probs=71.8

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ......+...+...|++++|.+.++.+..  +.+...|..+...+...|+++.|...++++++.+|+++..+..++.+|.
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~   96 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            34455666677777777777777776533  3456677777777888888888888888888888888888888888888


Q ss_pred             hCCChHHHHHHHHHHHhC
Q 048281          559 AGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       559 ~~g~~~~a~~~~~~~~~~  576 (660)
                      ..|++++|.+.++...+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        97 ALGEPESALKALDLAIEI  114 (135)
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            888888888888777664

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=98.33  E-value=0.00071  Score=66.55  Aligned_cols=180  Identities=20%  Similarity=0.150  Sum_probs=129.6

Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-H
Q 048281          376 IDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVL-S  453 (660)
Q Consensus       376 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll-~  453 (660)
                      .++...+...+........-..+..++.+..+ .....+--..-.+...|++++|+..++.++..  .||...|..+. .
T Consensus       271 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~  348 (484)
T COG4783         271 SPDFQLARARIRAKYEALPNQQAADLLAKRSKRGGLAAQYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGD  348 (484)
T ss_pred             CccHHHHHHHHHHHhccccccchHHHHHHHhCccchHHHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            33455555555443333322233333322222 23344444445566789999999999999886  66666665554 5


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChH
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTD  530 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~  530 (660)
                      .+...++.++|.+.++.+..   ..|+ ....-.+.++|.+.|+..+|+.+++....  +.|+..|..|..+|...|+..
T Consensus       349 i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~  425 (484)
T COG4783         349 ILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRA  425 (484)
T ss_pred             HHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchH
Confidence            78899999999999999976   4455 56778889999999999999999988654  568899999999999999977


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          531 LAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       531 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ++...                 .+..|.-.|+|++|+..+....++.
T Consensus       426 ~a~~A-----------------~AE~~~~~G~~~~A~~~l~~A~~~~  455 (484)
T COG4783         426 EALLA-----------------RAEGYALAGRLEQAIIFLMRASQQV  455 (484)
T ss_pred             HHHHH-----------------HHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            76554                 4556677899999999999887753

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.33  E-value=3.3e-05  Score=76.94  Aligned_cols=240  Identities=10%  Similarity=-0.013  Sum_probs=147.8

Q ss_pred             HHcCChHHHHHHHHHHhhcCCCCC-HHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHH
Q 048281          312 EQCGNHDGTLRLFDRMLSAGFQPD-LVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYT  390 (660)
Q Consensus       312 ~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  390 (660)
                      .+.|+..+|.-.|+..++.  .|. ...|..|-......++-..|+..+.++.+..+..         ..+.-+|.-.|.
T Consensus       296 m~nG~L~~A~LafEAAVkq--dP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~N---------leaLmaLAVSyt  364 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQ--DPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTN---------LEALMALAVSYT  364 (579)
T ss_pred             HhcCCchHHHHHHHHHHhh--ChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCcc---------HHHHHHHHHHHh
Confidence            3445555555555544443  232 2234444444444444444555555554444333         455555666666


Q ss_pred             hcCCHHHHHHHHhcCCC--C----------CHhHHHHHHHHHHhcCChHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHhc
Q 048281          391 KCGSMRDAQMVFTKMSK--K----------DVASWNIMILGYGMDGQGKEALDMFSCMC-EAKLKPDEVTFVGVLSACSH  457 (660)
Q Consensus       391 ~~g~~~~A~~~~~~~~~--~----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~ll~~~~~  457 (660)
                      ..|.-..|.+.++.-..  |          +...-+.  ..+..........++|-++. ..+..+|+..+..|.-.|--
T Consensus       365 Neg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~l  442 (579)
T KOG1125|consen  365 NEGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNL  442 (579)
T ss_pred             hhhhHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhc
Confidence            66666666666654321  0          0000000  11111222334455555544 44545777778877777888


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHHcCChHHHHHH
Q 048281          458 SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN-PVVWRTLLAASRLHGNTDLAEIA  535 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~  535 (660)
                      .|++++|...|+.++.  --+-|...|+.|.-.++...+.++|+..|.+... +|. +.++..|.-+|...|.+++|...
T Consensus       443 s~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~h  520 (579)
T KOG1125|consen  443 SGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKH  520 (579)
T ss_pred             chHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHH
Confidence            8999999999999976  3344568899999999999999999999999765 454 56888899999999999999999


Q ss_pred             HHHHHhcCCCC-----c-----chHHHHHHHHHhCCChHHH
Q 048281          536 AQRVFQLEPGH-----C-----GNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       536 ~~~~~~~~p~~-----~-----~~~~~l~~~~~~~g~~~~a  566 (660)
                      |-.++.+.+.+     .     .+|..|=.++...++.|-+
T Consensus       521 lL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l  561 (579)
T KOG1125|consen  521 LLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLL  561 (579)
T ss_pred             HHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHH
Confidence            99999875541     1     2455555555555555433

>PLN02789 farnesyltranstransferase

Probab=98.32  E-value=0.0001  Score=71.76  Aligned_cols=192  Identities=11%  Similarity=0.067  Sum_probs=142.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048281          381 MNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDG-QGKEALDMFSCMCEAKLKPDEVTFVGVLSACS  456 (660)
Q Consensus       381 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  456 (660)
                      ++..+-..+...++.++|+.+...+.+   .+..+|+.-..++...| ++++++..++++.+.. +-+..+|..-...+.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~  117 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHH
Confidence            344445556667888899999888763   24567777777777777 5799999999999864 234445655444455


Q ss_pred             ccCC--HHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc---CCh
Q 048281          457 HSGF--LSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLH---GNT  529 (660)
Q Consensus       457 ~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~---g~~  529 (660)
                      +.|.  .+++..+++.+.+  .-+-+..+|+....++.+.|+++++++.++++..  ..+...|+.....+.+.   |..
T Consensus       118 ~l~~~~~~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~  195 (320)
T PLN02789        118 KLGPDAANKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HcCchhhHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccc
Confidence            5555  3678889988886  3455778899889999999999999999999765  45778888887776654   222


Q ss_pred             ----HHHHHHHHHHHhcCCCCcchHHHHHHHHHhC----CChHHHHHHHHHHHh
Q 048281          530 ----DLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG----GKYEEVLDIRHTMRQ  575 (660)
Q Consensus       530 ----~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~  575 (660)
                          +.++....++++.+|+|..+|..+..++...    ++..+|.+......+
T Consensus       196 ~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        196 EAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             cccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence                4678888899999999999999999999873    445667777766554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.27  E-value=6.7e-05  Score=71.60  Aligned_cols=205  Identities=12%  Similarity=0.013  Sum_probs=147.7

Q ss_pred             hHHHHH-HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH--HHhccCCHHHHHHHHHHhHHhcCCCCChHH----
Q 048281          411 ASWNIM-ILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLS--ACSHSGFLSQGREFLPLMESRYGVVPTIEH----  483 (660)
Q Consensus       411 ~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~--~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----  483 (660)
                      .+|..+ ..++.-.|++++|...--..++..  ++ ..+..+++  ++...++.+.|...|++.++   ..|+...    
T Consensus       169 ~~a~~lka~cl~~~~~~~~a~~ea~~ilkld--~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~  242 (486)
T KOG0550|consen  169 FKAKLLKAECLAFLGDYDEAQSEAIDILKLD--AT-NAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSA  242 (486)
T ss_pred             hHHHHhhhhhhhhcccchhHHHHHHHHHhcc--cc-hhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhH
Confidence            444444 345677888898888777766542  22 22333443  34456788899998888754   4454322    


Q ss_pred             ---------HHHHHHHHhhcCCHHHHHHHHHhCCC------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc
Q 048281          484 ---------YTCVIDMLGRAGQLNEAYELALAMPN------EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       484 ---------~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                               +..=.+-..+.|++.+|.+.|.+...      +++...|.....+..+.|+.++|+.-.+++++++|.-..
T Consensus       243 ~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syik  322 (486)
T KOG0550|consen  243 SMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIK  322 (486)
T ss_pred             hhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHH
Confidence                     22223445688999999999988653      345566777778889999999999999999999999888


Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCcEEEEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHcCcccC
Q 048281          549 NYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCA  628 (660)
Q Consensus       549 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~~~~p~  628 (660)
                      .|..-+.++...++|++|.+-+++..+..-.                           .++.+.+.+....+++..-++.
T Consensus       323 all~ra~c~l~le~~e~AV~d~~~a~q~~~s---------------------------~e~r~~l~~A~~aLkkSkRkd~  375 (486)
T KOG0550|consen  323 ALLRRANCHLALEKWEEAVEDYEKAMQLEKD---------------------------CEIRRTLREAQLALKKSKRKDW  375 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhccc---------------------------cchHHHHHHHHHHHHHhhhhhH
Confidence            9999999999999999999999998764321                           1344556666677777777777


Q ss_pred             ceeeccCCChhhhhHhhhHH
Q 048281          629 GTLFDSDSTASGFEKHRLYL  648 (660)
Q Consensus       629 ~~~~~~~~~~~~~~~~~~~~  648 (660)
                      ..++.+..+++.-|+.+.++
T Consensus       376 ykilGi~~~as~~eikkayr  395 (486)
T KOG0550|consen  376 YKILGISRNASDDEIKKAYR  395 (486)
T ss_pred             HHHhhhhhhcccchhhhHHH
Confidence            77777777777777777765

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.25  E-value=1.7e-05  Score=78.48  Aligned_cols=122  Identities=15%  Similarity=0.114  Sum_probs=98.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASR  524 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~  524 (660)
                      ....|+..+...++++.|..+++++.+.   .|+  ....++..+...++-.+|.+++++...  +.+...+..-...|.
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            4445666677778888888888888763   244  445577777778888888888877543  346667777777899


Q ss_pred             HcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          525 LHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       525 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                      ..++++.|+.+++++.++.|++..+|..|+.+|...|++++|+-.++.+
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999998877

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.23  E-value=0.00034  Score=76.81  Aligned_cols=203  Identities=12%  Similarity=0.156  Sum_probs=150.1

Q ss_pred             CCH-HHHHHHHHHHhcccchHHHHHHHHHHHHh-CccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-C-
Q 048281          334 PDL-VTFSTVLPACSHLAALMHGRQIHGYIVVN-GLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK-D-  409 (660)
Q Consensus       334 p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~-  409 (660)
                      ||. ..|...|.-....++.+.|+++.++++.. ++...     ..-..+|.++++.-..-|.-+...++|++..+- | 
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REe-----eEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~ 1529 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREE-----EEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDA 1529 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchh-----HHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcch
Confidence            443 45666666677778888888888777643 11110     001457777777777777788888888887743 2 


Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      ...|..|...|.+.+.+++|.++|+.|.+. +.-....|...+..+.+..+-+.|..++.++.+...-.-.+....-.+.
T Consensus      1530 ~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAq 1608 (1710)
T KOG1070|consen 1530 YTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQ 1608 (1710)
T ss_pred             HHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHH
Confidence            356788888899999999999999999876 3456678888888888888888999999988773222224556667777


Q ss_pred             HHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          490 MLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      +-.+.|+.+.+..+|+....  +.-...|+.++..-.++|+.+.+..+|++++.+
T Consensus      1609 LEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l 1663 (1710)
T KOG1070|consen 1609 LEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIEL 1663 (1710)
T ss_pred             HHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence            77889999998888887654  334568999999999999999999999998886

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.23  E-value=0.00022  Score=77.50  Aligned_cols=149  Identities=7%  Similarity=0.024  Sum_probs=80.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACS  456 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  456 (660)
                      .++..+..+|-+.|+.++|..+++++.+   .|+.+.|.+...|... +.++|.+++.+.+..               +.
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i  180 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FI  180 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HH
Confidence            3455566666666666666666665542   3455566666666666 666666666655542               33


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 048281          457 HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAA  536 (660)
Q Consensus       457 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  536 (660)
                      ..+++..+.++|..+..  ..+-+...+..+.+.....            +....-+.++--+-..|...++++.+..++
T Consensus       181 ~~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~------------~~~~~~~~~~~~l~~~y~~~~~~~~~i~iL  246 (906)
T PRK14720        181 KKKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGH------------REFTRLVGLLEDLYEPYKALEDWDEVIYIL  246 (906)
T ss_pred             hhhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhh------------hccchhHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            34455555666665554  2222222222222221111            001122334444555666667777777777


Q ss_pred             HHHHhcCCCCcchHHHHHHHHH
Q 048281          537 QRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       537 ~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      +.+++.+|.|..+..-++..|.
T Consensus       247 K~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        247 KKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHhcCCcchhhHHHHHHHHH
Confidence            7777777777666666666655

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.21  E-value=3.8e-05  Score=65.20  Aligned_cols=113  Identities=7%  Similarity=-0.005  Sum_probs=89.0

Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-
Q 048281          432 MFSCMCEAKLKPDE-VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-  509 (660)
Q Consensus       432 ~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  509 (660)
                      .+++....  .|+. .....+...+...|++++|.+.++.+..  ..+.+...+..+...|.+.|++++|...+++... 
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAA--YDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45555553  4433 4455566678888999999999998876  3345678888899999999999999999887643 


Q ss_pred             -CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc
Q 048281          510 -EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       510 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                       +.+...+..+...+...|+++.|...+++++++.|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence             456778888889999999999999999999999998754

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.20  E-value=0.0088  Score=59.69  Aligned_cols=161  Identities=15%  Similarity=0.088  Sum_probs=120.5

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVI  488 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  488 (660)
                      ..+|-..++.-.+..-...|..+|.+..+.+..+ +...+++++..+|. ++..-|.++|+.=.+++|  .+..--...+
T Consensus       366 tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~--d~p~yv~~Yl  442 (656)
T KOG1914|consen  366 TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFG--DSPEYVLKYL  442 (656)
T ss_pred             ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcC--CChHHHHHHH
Confidence            3467777887778888899999999999998877 66677788876665 789999999998877443  4445567788


Q ss_pred             HHHhhcCCHHHHHHHHHhCCCC-----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc----chHHHHHHHHHh
Q 048281          489 DMLGRAGQLNEAYELALAMPNE-----ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC----GNYVLMSNIYVA  559 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~----~~~~~l~~~~~~  559 (660)
                      +-+.+.++-..|..+|++....     ....+|..++..-..-|+.+.+.++-++....-|.+.    ..-..+.+-|.=
T Consensus       443 dfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~  522 (656)
T KOG1914|consen  443 DFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGI  522 (656)
T ss_pred             HHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhh
Confidence            8899999999999999987643     2347999999999999999999999988877655221    123345555655


Q ss_pred             CCChHHHHHHHHHH
Q 048281          560 GGKYEEVLDIRHTM  573 (660)
Q Consensus       560 ~g~~~~a~~~~~~~  573 (660)
                      .+.+..-..-++.+
T Consensus       523 ~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  523 LDLYPCSLDELKFL  536 (656)
T ss_pred             cccccccHHHHHhh
Confidence            56555444444433

>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=98.19  E-value=9.2e-05  Score=73.44  Aligned_cols=127  Identities=10%  Similarity=0.060  Sum_probs=97.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSG  459 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  459 (660)
                      ....+|+..+...++++.|..+|+++.+.++.....++..+...++-.+|++++++.+... +-+...+..-...|.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            3444555666668889999999999887776667778888888888889999998888652 334455555556688888


Q ss_pred             CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC
Q 048281          460 FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN  509 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  509 (660)
                      +.+.|+.+.+++.+  -.+-+..+|..|+.+|...|++++|+..++.++.
T Consensus       249 ~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  249 KYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             CHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            99999999998876  3444457889999999999999999988888774

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=98.19  E-value=0.0004  Score=74.75  Aligned_cols=138  Identities=9%  Similarity=0.021  Sum_probs=111.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC--CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS--KK-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEV-TFVGVLSA  454 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~  454 (660)
                      +..+..|.....+.|+.++|+.+++...  .| +...+..++.++.+.+++++|+..+++....  .|+.. ....+..+
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~  163 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLEAKS  163 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHHHHH
Confidence            7788889999999999999999999876  34 5567888889999999999999999999985  56554 45555667


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHH
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLL  520 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~  520 (660)
                      +.+.|++++|..+|+++..  ..+-+...+..+..++...|+.++|...|++...  .+....|+.++
T Consensus       164 l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        164 WDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            8899999999999999986  3444578889999999999999999999998654  23344444443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.17  E-value=0.0014  Score=59.20  Aligned_cols=156  Identities=13%  Similarity=0.057  Sum_probs=79.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----cC
Q 048281          384 ALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSH----SG  459 (660)
Q Consensus       384 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g  459 (660)
                      .-...|+..|++++|.+.......-.....  =...+.+..+.+-|...+++|.+-   -+..|.+.|..++.+    .+
T Consensus       113 ~aa~i~~~~~~~deAl~~~~~~~~lE~~Al--~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~gge  187 (299)
T KOG3081|consen  113 LAAIIYMHDGDFDEALKALHLGENLEAAAL--NVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGE  187 (299)
T ss_pred             HhhHHhhcCCChHHHHHHHhccchHHHHHH--HHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccch
Confidence            334456666777777766665322222222  223344555666666666666652   244555555555432    23


Q ss_pred             CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCh-HHHHHHH
Q 048281          460 FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNT-DLAEIAA  536 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~-~~A~~~~  536 (660)
                      .+..|.-+|+++.+  ...|+..+.+....+....|++++|..++++...  ..++.+...++-.-...|.. +--.+..
T Consensus       188 k~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l  265 (299)
T KOG3081|consen  188 KIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNL  265 (299)
T ss_pred             hhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHH
Confidence            45566666666644  3555555555555555566666666666555433  23444444444444444433 3333444


Q ss_pred             HHHHhcCCCC
Q 048281          537 QRVFQLEPGH  546 (660)
Q Consensus       537 ~~~~~~~p~~  546 (660)
                      .++....|.+
T Consensus       266 ~QLk~~~p~h  275 (299)
T KOG3081|consen  266 SQLKLSHPEH  275 (299)
T ss_pred             HHHHhcCCcc
Confidence            4444445544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.09  E-value=5.9e-06  Score=50.84  Aligned_cols=35  Identities=31%  Similarity=0.580  Sum_probs=28.1

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCc
Q 048281          100 FTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDK  134 (660)
Q Consensus       100 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  134 (660)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36888888888888888888888888888888763

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.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.09  E-value=0.024  Score=60.28  Aligned_cols=510  Identities=11%  Similarity=0.061  Sum_probs=261.1

Q ss_pred             hccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHh--HcCCChhHHHHHHccC--CCCCCcccHHHHHHHHHcCCChhHH
Q 048281           43 AHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMY--SKCCQMKYALFVFNNL--SCEPNVFTYNAMISGFYSNDFAFKG  118 (660)
Q Consensus        43 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~--~~~g~~~~A~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a  118 (660)
                      ...++++.|.+..+.+.+..  |+ ..|...+.++  .|.|+.++|..+++..  ....|..+...+-..|...+..++|
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHH
Confidence            35577888888888877763  33 3455555554  4789999999998841  2234777888889999999999999


Q ss_pred             HHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCC----------hHHH
Q 048281          119 LDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQF----------MEEA  188 (660)
Q Consensus       119 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~----------~~~A  188 (660)
                      ..+|++..+.  -|+..-...+..++.+.+++.+-.++--++-+. ++-+.+.+=++++.+...-.          ..-|
T Consensus        97 ~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   97 VHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            9999999865  577888888889999998887766665555553 33445554455555543321          2334


Q ss_pred             HHHHccCCCCC-----chhHHHHHHHHHhCCChhHHHHHH-HHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHH
Q 048281          189 LKVFEELPLRD-----VVLWNAMVNGYAQIGEFHKALEVF-RRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVV  262 (660)
Q Consensus       189 ~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~A~~~~-~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  262 (660)
                      .+.++.+.+.+     ..-.-.-...+-..|.+++|++++ ....+.-...+...-+--+..+...+++.+..++-..+.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            55555554333     111112234455678899999998 444443334444555566777888888998888888888


Q ss_pred             HhCCCCCchHHHHHHHHHH----------------cCCCHHHHHHHHHhcCCC-ChhhHHHHHHHHH---HcCChHHHHH
Q 048281          263 KMGYDSGVPVMNALIDMYG----------------KGKCVGEALEIFEMMEEK-DIFSWNSIMTVHE---QCGNHDGTLR  322 (660)
Q Consensus       263 ~~g~~~~~~~~~~li~~~~----------------~~~~~~~A~~~~~~~~~~-~~~~~~~li~~~~---~~g~~~~a~~  322 (660)
                      ..|...    |...++.+.                ..+..+...+..++.... .--.|-+-+..+.   .-|+.+++.-
T Consensus       254 ~k~~Dd----y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~~~gd~ee~~~  329 (932)
T KOG2053|consen  254 EKGNDD----YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYKLIGDSEEMLS  329 (932)
T ss_pred             HhCCcc----hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhcccCChHHHHH
Confidence            877332    333222221                122233333333222221 1122333333332   3466666554


Q ss_pred             HHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCH-----HH
Q 048281          323 LFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSM-----RD  397 (660)
Q Consensus       323 ~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-----~~  397 (660)
                      .|-+-.  |-.|   .|..=+..+...=..+....++...+.......+..+   -...+...+..-.-.|.+     +.
T Consensus       330 ~y~~kf--g~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k---~l~~h~c~l~~~rl~G~~~~l~ad~  401 (932)
T KOG2053|consen  330 YYFKKF--GDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEK---VLQQHLCVLLLLRLLGLYEKLPADS  401 (932)
T ss_pred             HHHHHh--CCCc---HhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHH---HHHHHHHHHHHHHHhhccccCChHH
Confidence            433221  1122   1111111111111112222222222111111000000   000011111111111211     11


Q ss_pred             HH----HHHhcCCC---------C------CH---hHHHHHHHHHHhcCChH---HHHHHHHHHHHcCCCCCHHHHHHHH
Q 048281          398 AQ----MVFTKMSK---------K------DV---ASWNIMILGYGMDGQGK---EALDMFSCMCEAKLKPDEVTFVGVL  452 (660)
Q Consensus       398 A~----~~~~~~~~---------~------~~---~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~p~~~~~~~ll  452 (660)
                      -.    +++-...+         |      +.   .+-+.|+..+-+.++..   +|+-+++.-.... +-|..+-..+|
T Consensus       402 i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLi  480 (932)
T KOG2053|consen  402 ILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLI  480 (932)
T ss_pred             HHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHH
Confidence            11    11111111         1      11   24566777777777644   4555555554432 33445556677


Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC---CCCHHHHHHHHHHHHHcCCh
Q 048281          453 SACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN---EANPVVWRTLLAASRLHGNT  529 (660)
Q Consensus       453 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~  529 (660)
                      ..|+-.|-...|.++|..+--+ .+..|..-|. +..-+...|++..+...+.....   ..-..+-..+..| .+.|.+
T Consensus       481 riY~~lGa~p~a~~~y~tLdIK-~IQ~DTlgh~-~~~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~A-Yr~g~y  557 (932)
T KOG2053|consen  481 RIYSYLGAFPDAYELYKTLDIK-NIQTDTLGHL-IFRRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALA-YRRGAY  557 (932)
T ss_pred             HHHHHhcCChhHHHHHHhcchH-HhhhccchHH-HHHHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHH-HHcCch
Confidence            7888888888888888877653 6666654332 23344556666666665554321   1111122222333 345666


Q ss_pred             HHHHHHHHHHHhcCCC----CcchHHHHHHHHHhCCChHHHHHHHHHHH
Q 048281          530 DLAEIAAQRVFQLEPG----HCGNYVLMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       530 ~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      .+..++..-=-++.-.    -..+-+.....+...++.++-...+..|.
T Consensus       558 SkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  558 SKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADRGTQLLKLLESMK  606 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhccc
Confidence            5554443221122111    11233455666777788777777777665

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.05  E-value=0.00015  Score=62.25  Aligned_cols=114  Identities=18%  Similarity=0.151  Sum_probs=52.9

Q ss_pred             cCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCCC-CCH----HHHHHHHHHHHHcCChHH
Q 048281          458 SGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPNE-ANP----VVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~----~~~~~l~~~~~~~g~~~~  531 (660)
                      .++...+...++.+.+.++-.+ .....-.+...+...|++++|...|+.+... |+.    .....|...+...|++++
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            4455555555555544211110 0122223344455555555555555554331 222    123334455555555555


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          532 AEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      |+..++.. .-.+-.+..+..++++|.+.|++++|+..|++
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            55555442 11222334455566666666666666666554

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.05  E-value=8.1e-06  Score=50.20  Aligned_cols=34  Identities=35%  Similarity=0.601  Sum_probs=30.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD  444 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  444 (660)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3688999999999999999999999999998887

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=98.04  E-value=0.0026  Score=69.42  Aligned_cols=30  Identities=10%  Similarity=0.154  Sum_probs=23.1

Q ss_pred             CchhHHHHHHHHHhCCChhHHHHHHHHHHH
Q 048281          199 DVVLWNAMVNGYAQIGEFHKALEVFRRMSK  228 (660)
Q Consensus       199 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  228 (660)
                      +...|..|+..+...+++++|.++.+...+
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~   59 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLK   59 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            566777888888888888888888886555

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.04  E-value=0.00049  Score=61.59  Aligned_cols=164  Identities=16%  Similarity=0.136  Sum_probs=77.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHH---HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIM---ILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ..+|..++-+...+|+.+.|...++.+...-+.++...   ..-+-..|++++|+++++..++.. +.|.+++--=+...
T Consensus        52 w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAil  130 (289)
T KOG3060|consen   52 WTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAIL  130 (289)
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHH
Confidence            34445555555556666666665555442111111111   111233455556666666555543 33444444434344


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcC---ChH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHG---NTD  530 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g---~~~  530 (660)
                      -..|+.-+|++-+....+  .+..|...|.-+.+.|...|++++|.--++++.-  |.++..+..+...+.-.|   +.+
T Consensus       131 ka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~  208 (289)
T KOG3060|consen  131 KAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLE  208 (289)
T ss_pred             HHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHH
Confidence            444544555555555554  3445555555555555555555555555555322  223333444444433333   344


Q ss_pred             HHHHHHHHHHhcCCC
Q 048281          531 LAEIAAQRVFQLEPG  545 (660)
Q Consensus       531 ~A~~~~~~~~~~~p~  545 (660)
                      .|.+.|.+++++.|.
T Consensus       209 ~arkyy~~alkl~~~  223 (289)
T KOG3060|consen  209 LARKYYERALKLNPK  223 (289)
T ss_pred             HHHHHHHHHHHhChH
Confidence            555555555555553

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.02  E-value=0.0013  Score=58.89  Aligned_cols=163  Identities=10%  Similarity=0.080  Sum_probs=127.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGV-LSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      .|..++-+....|+.+.|...++++...-  |.+.-...+ ..-+-..|.+++|+++++.+.++  -+.|..++-.=+-+
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 LYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED--DPTDTVIRKRKLAI  129 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc--CcchhHHHHHHHHH
Confidence            34455566677899999999999998863  554333222 22355678999999999999984  46677777777777


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCC---ChHH
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGG---KYEE  565 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~~  565 (660)
                      .-..|+--+|++-+.+...  ..|...|.-+...|...|++++|.-++++++-.+|.++..+..++.++.-.|   +++-
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            7778887788877665443  4799999999999999999999999999999999999999999999987665   5667


Q ss_pred             HHHHHHHHHhCCC
Q 048281          566 VLDIRHTMRQQNV  578 (660)
Q Consensus       566 a~~~~~~~~~~~~  578 (660)
                      |.+++.+..+...
T Consensus       210 arkyy~~alkl~~  222 (289)
T KOG3060|consen  210 ARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHHHHhCh
Confidence            8888888766544

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.01  E-value=8.6e-06  Score=49.68  Aligned_cols=33  Identities=30%  Similarity=0.503  Sum_probs=23.5

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCC
Q 048281          100 FTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLP  132 (660)
Q Consensus       100 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  132 (660)
                      .+||.+|.+|++.|+++.|.++|++|.+.|++|
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            467777777777777777777777777777665

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.01  E-value=3.5e-05  Score=70.76  Aligned_cols=92  Identities=11%  Similarity=0.001  Sum_probs=66.1

Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHH
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~  531 (660)
                      -..+.+++.+|+..|.++++  -.+-|...|..-..+|.+.|.++.|++-.+....  +....+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            45667788888888888775  3344556666677778888888888777776543  2234577777778888888888


Q ss_pred             HHHHHHHHHhcCCCCc
Q 048281          532 AEIAAQRVFQLEPGHC  547 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~  547 (660)
                      |++.|+++++++|++.
T Consensus       168 A~~aykKaLeldP~Ne  183 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNE  183 (304)
T ss_pred             HHHHHHhhhccCCCcH
Confidence            8888888888888775

>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=97.99  E-value=2.2e-05  Score=57.43  Aligned_cols=64  Identities=20%  Similarity=0.302  Sum_probs=59.9

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCC-ChHHHHHHHHHHHh
Q 048281          512 NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGG-KYEEVLDIRHTMRQ  575 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~  575 (660)
                      ++.+|..+...+...|++++|+..|+++++++|+++..+..++.+|...| ++++|++.+++..+
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            56789999999999999999999999999999999999999999999999 79999999998865

...

>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=97.99  E-value=5.8e-05  Score=59.21  Aligned_cols=94  Identities=21%  Similarity=0.233  Sum_probs=75.6

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  560 (660)
                      .+..+...+...|++++|...++++..  +.+...+..+...+...|+++.|...++++.+..|.++..+..++.++...
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            355667777888888888888887543  334467777888888889999999999999888888888888899999999


Q ss_pred             CChHHHHHHHHHHHhC
Q 048281          561 GKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       561 g~~~~a~~~~~~~~~~  576 (660)
                      |++++|...+....+.
T Consensus        82 ~~~~~a~~~~~~~~~~   97 (100)
T cd00189          82 GKYEEALEAYEKALEL   97 (100)
T ss_pred             HhHHHHHHHHHHHHcc
Confidence            9999999888887653

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.99  E-value=0.00011  Score=73.41  Aligned_cols=85  Identities=14%  Similarity=0.093  Sum_probs=45.6

Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHH
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  568 (660)
                      +...|++++|++.|+++..  +.+...|..+..+|...|++++|+..++++++++|+++..|..++.+|...|++++|..
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~   91 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKA   91 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            3445555555555554332  23344555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHh
Q 048281          569 IRHTMRQ  575 (660)
Q Consensus       569 ~~~~~~~  575 (660)
                      .+++..+
T Consensus        92 ~~~~al~   98 (356)
T PLN03088         92 ALEKGAS   98 (356)
T ss_pred             HHHHHHH
Confidence            5555544

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.98  E-value=0.00045  Score=59.19  Aligned_cols=125  Identities=15%  Similarity=0.150  Sum_probs=88.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh--HHHH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDE----VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI--EHYT  485 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~  485 (660)
                      .|..++..+ ..++...+...++.+.+..  |+.    .....+...+...|++++|...|+.+... ...|+.  ....
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l   89 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHH
Confidence            344455554 4778888888888888763  332    22333446678889999999999998874 423322  3445


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 048281          486 CVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVF  540 (660)
Q Consensus       486 ~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  540 (660)
                      .|..++...|++++|+..++.... ...+..+......+...|++++|...|++++
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            577888889999999999987654 3345567777888999999999999988753

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.97  E-value=0.002  Score=58.33  Aligned_cols=168  Identities=11%  Similarity=0.047  Sum_probs=111.9

Q ss_pred             HHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHh
Q 048281          324 FDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFT  403 (660)
Q Consensus       324 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  403 (660)
                      .+.+.......+......-...|.+.++++.|.+.......              ....-.=+..+.+..+++-|.+.++
T Consensus        96 ~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~--------------lE~~Al~VqI~lk~~r~d~A~~~lk  161 (299)
T KOG3081|consen   96 YELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGEN--------------LEAAALNVQILLKMHRFDLAEKELK  161 (299)
T ss_pred             HHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccch--------------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33343333333333333334457777788887776654211              2233333556677888899999999


Q ss_pred             cCCCC-CHhHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC
Q 048281          404 KMSKK-DVASWNIMILGYGM----DGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVV  478 (660)
Q Consensus       404 ~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  478 (660)
                      .|.+- +-.+.+.|..++.+    .+.+.+|.-+|++|.++ ..|+..+.+....++...|++++|..+++++..+  ..
T Consensus       162 ~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k--d~  238 (299)
T KOG3081|consen  162 KMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK--DA  238 (299)
T ss_pred             HHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc--cC
Confidence            88865 34566666666554    34688999999999875 5899999999999999999999999999999873  44


Q ss_pred             CChHHHHHHHHHHhhcCCHHHH-HHHHHhCC
Q 048281          479 PTIEHYTCVIDMLGRAGQLNEA-YELALAMP  508 (660)
Q Consensus       479 ~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~  508 (660)
                      .++.+...++-+-...|...++ .+.+.+..
T Consensus       239 ~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk  269 (299)
T KOG3081|consen  239 KDPETLANLIVLALHLGKDAEVTERNLSQLK  269 (299)
T ss_pred             CCHHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            5566777777666666765444 33444443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.95  E-value=0.028  Score=56.33  Aligned_cols=143  Identities=13%  Similarity=0.135  Sum_probs=96.7

Q ss_pred             hHHHHHHHHHHHHh-CccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CCHhHHHHHHHHHHhcCC
Q 048281          352 LMHGRQIHGYIVVN-GLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-----KDVASWNIMILGYGMDGQ  425 (660)
Q Consensus       352 ~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~  425 (660)
                      .+....+++.+... ..++         ..+|..+++.-.+..-+..|..+|.+..+     ..+...++++.-||. ++
T Consensus       347 ~~~~~~~~~~ll~~~~~~~---------tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD  416 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDL---------TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KD  416 (656)
T ss_pred             hhhhHHHHHHHHhhhccCC---------ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CC
Confidence            44455555555443 2333         56777788888888888888888887763     256677777777665 56


Q ss_pred             hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh--HHHHHHHHHHhhcCCHHHHHH
Q 048281          426 GKEALDMFSCMCEAKLKPDE-VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI--EHYTCVIDMLGRAGQLNEAYE  502 (660)
Q Consensus       426 ~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~  502 (660)
                      ..-|.++|+--.+.  -+|. .-....+.-+.+.++-..+..+|+....+ ++.|+.  .+|..+++-=..-|++..+.+
T Consensus       417 ~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s-~l~~~ks~~Iw~r~l~yES~vGdL~si~~  493 (656)
T KOG1914|consen  417 KETAFRIFELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS-VLSADKSKEIWDRMLEYESNVGDLNSILK  493 (656)
T ss_pred             hhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc-cCChhhhHHHHHHHHHHHHhcccHHHHHH
Confidence            67788888765543  2333 33344566677778888888888888875 565553  678888887788888888877


Q ss_pred             HHHhC
Q 048281          503 LALAM  507 (660)
Q Consensus       503 ~~~~~  507 (660)
                      +-+++
T Consensus       494 lekR~  498 (656)
T KOG1914|consen  494 LEKRR  498 (656)
T ss_pred             HHHHH
Confidence            76654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.92  E-value=1.9e-05  Score=48.15  Aligned_cols=33  Identities=27%  Similarity=0.480  Sum_probs=26.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP  443 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  443 (660)
                      .+|+.++.+|++.|+++.|..+|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            578888888888888888888888888888776

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.91  E-value=1e-05  Score=61.82  Aligned_cols=78  Identities=19%  Similarity=0.237  Sum_probs=52.0

Q ss_pred             cCCHHHHHHHHHhCCC-CC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHH
Q 048281          494 AGQLNEAYELALAMPN-EA---NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDI  569 (660)
Q Consensus       494 ~g~~~~A~~~~~~~~~-~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  569 (660)
                      .|++++|+.+++++.. .|   +...|..+..+|.+.|++++|..++++ .+.+|.++.....++.++.+.|++++|++.
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            4566667776666543 12   344555677777777777777777777 556666666666778888888888888877


Q ss_pred             HHH
Q 048281          570 RHT  572 (660)
Q Consensus       570 ~~~  572 (660)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            765

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.90  E-value=0.00015  Score=59.89  Aligned_cols=94  Identities=16%  Similarity=0.048  Sum_probs=50.8

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---cchHHHHH
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN-EAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH---CGNYVLMS  554 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~  554 (660)
                      ++..++..+.+.|++++|.+.++.+.. .|+    ...+..+..++...|+++.|...++.++...|++   +..+..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344445555555555555555555432 121    2344445555666666666666666666555543   33455556


Q ss_pred             HHHHhCCChHHHHHHHHHHHhC
Q 048281          555 NIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       555 ~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .++.+.|++++|.+.++.+.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666666666666666665543

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.88  E-value=4.1e-05  Score=55.10  Aligned_cols=58  Identities=22%  Similarity=0.318  Sum_probs=49.3

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +...+...|++++|+..|+++++..|+++..+..++.++...|++++|..+++++.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4567888899999999999999999998889999999999999999999998888654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.81  E-value=0.00031  Score=57.95  Aligned_cols=104  Identities=13%  Similarity=0.112  Sum_probs=72.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC----HHHHHHHH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN----PVVWRTLL  520 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~----~~~~~~l~  520 (660)
                      ++..+...+...|++++|...+..+.+...-.+ ....+..+..++.+.|++++|...++.+.. .|+    ..++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            445556666777778888887777765321111 134556677788888888888888877543 222    45677788


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCcchH
Q 048281          521 AASRLHGNTDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       521 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                      .++...|+.++|...++++++..|+++...
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  113 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAK  113 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHH
Confidence            888888999999999999999888875443

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.77  E-value=0.00019  Score=66.02  Aligned_cols=100  Identities=16%  Similarity=0.076  Sum_probs=72.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhcC
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRAG  495 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  495 (660)
                      ..-+.+.+++.+|+..|.+.++.. +-|.+-|..=..+|++.|.++.|++-.+..+.   +.|. ...|..|..+|...|
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHccC
Confidence            344677888888888888888852 33555566666788888888888887777764   4444 478888888888888


Q ss_pred             CHHHHHHHHHhCCC-CCCHHHHHHHH
Q 048281          496 QLNEAYELALAMPN-EANPVVWRTLL  520 (660)
Q Consensus       496 ~~~~A~~~~~~~~~-~~~~~~~~~l~  520 (660)
                      ++++|++.|++... .|+..+|..=+
T Consensus       164 k~~~A~~aykKaLeldP~Ne~~K~nL  189 (304)
T KOG0553|consen  164 KYEEAIEAYKKALELDPDNESYKSNL  189 (304)
T ss_pred             cHHHHHHHHHhhhccCCCcHHHHHHH
Confidence            99888888888654 56655554433

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.76  E-value=0.00039  Score=69.41  Aligned_cols=105  Identities=12%  Similarity=-0.031  Sum_probs=78.7

Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChH
Q 048281          453 SACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTD  530 (660)
Q Consensus       453 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~  530 (660)
                      ..+...|++++|++.|+++++  ..+.+...|..+..+|.+.|++++|+..++++..  +.+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~--~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAID--LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHH
Confidence            345566788888888888776  3334566777778888888888888888877643  446677888888888899999


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 048281          531 LAEIAAQRVFQLEPGHCGNYVLMSNIYVA  559 (660)
Q Consensus       531 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  559 (660)
                      +|+..|+++++++|+++.....+..+..+
T Consensus        88 eA~~~~~~al~l~P~~~~~~~~l~~~~~k  116 (356)
T PLN03088         88 TAKAALEKGASLAPGDSRFTKLIKECDEK  116 (356)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            99999999999999887776666555443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.71  E-value=0.1  Score=55.67  Aligned_cols=123  Identities=18%  Similarity=0.241  Sum_probs=79.1

Q ss_pred             CCChhHHHHHHccCC-CCCCcccHHHHHHHH--HcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHH
Q 048281           80 CCQMKYALFVFNNLS-CEPNVFTYNAMISGF--YSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKI  156 (660)
Q Consensus        80 ~g~~~~A~~~~~~~~-~~~~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  156 (660)
                      .+++..|....++.. ..||. .|..++.++  .+.|+.++|..+++.....+.. |..|...+-..|.+.++.++|..+
T Consensus        22 ~~qfkkal~~~~kllkk~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~   99 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKKHPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHL   99 (932)
T ss_pred             hHHHHHHHHHHHHHHHHCCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHH
Confidence            355666666555322 33443 345555544  4678888888888777655544 677788888888888888888888


Q ss_pred             HHHHHHhCCCCChhHHHHHHHHhHhcCChH----HHHHHHccCCCCCchhHHHH
Q 048281          157 HGLVFKLGLDLDVYIGSALVNTYLKCQFME----EALKVFEELPLRDVVLWNAM  206 (660)
Q Consensus       157 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~----~A~~~~~~~~~~~~~~~~~l  206 (660)
                      |++....  .|+......+..+|+|.+.+.    .|.++++..+++--..|+.+
T Consensus       100 Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~  151 (932)
T KOG2053|consen  100 YERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVI  151 (932)
T ss_pred             HHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHH
Confidence            8877664  455666667777777776653    36667776665544455433

>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=97.69  E-value=0.00013  Score=53.04  Aligned_cols=53  Identities=21%  Similarity=0.356  Sum_probs=44.7

Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          524 RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ...|++++|+..|+++++..|+++..+..++.+|.+.|++++|.++++++...
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            46788889999999999989988888888999999999999999988887664

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.67  E-value=0.0011  Score=61.49  Aligned_cols=104  Identities=14%  Similarity=0.086  Sum_probs=89.4

Q ss_pred             CCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCCCCcchH
Q 048281          476 GVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHG---NTDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       476 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                      ..+-|...|-.|...|.+.|+...|..-|.+...  .+++..+..+..++....   ...++..+++++++++|.+..+.
T Consensus       151 ~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         151 QNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             hCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            3456788999999999999999999999988654  567778888887765443   46789999999999999999999


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048281          551 VLMSNIYVAGGKYEEVLDIRHTMRQQNVR  579 (660)
Q Consensus       551 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  579 (660)
                      ..|+..+...|++.+|...++.|.+....
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999987543

>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=97.65  E-value=0.00051  Score=53.63  Aligned_cols=91  Identities=16%  Similarity=0.075  Sum_probs=47.4

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCh
Q 048281          452 LSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNT  529 (660)
Q Consensus       452 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~  529 (660)
                      ...+...|++++|..+++.+.+  ..+.+...+..+...+...|++++|.+.++....  +.+..++..+...+...|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALE--LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhH
Confidence            3344444555555555555543  1222224444555555555555555555554322  22334555666666666666


Q ss_pred             HHHHHHHHHHHhcCC
Q 048281          530 DLAEIAAQRVFQLEP  544 (660)
Q Consensus       530 ~~A~~~~~~~~~~~p  544 (660)
                      +.|...+.++++..|
T Consensus        85 ~~a~~~~~~~~~~~~   99 (100)
T cd00189          85 EEALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHHHccCC
Confidence            666666666665554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.65  E-value=0.0012  Score=58.51  Aligned_cols=131  Identities=13%  Similarity=0.091  Sum_probs=90.9

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHH
Q 048281          409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD--EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTC  486 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  486 (660)
                      ....+..+...+...|++++|+..|++..+....+.  ...+..+...+.+.|++++|...+.++.+.  .+.+...+..
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            345667777788888999999999988886543332  356777777888889999999998888762  3334566677


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCC
Q 048281          487 VIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGK  562 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  562 (660)
                      +..+|...|+...+..-++...                  ..+++|.+.++++++++|++   |..+...+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A~------------------~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEAE------------------ALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHHH------------------HHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            7777877777666554333211                  23677889999999988877   5555555555443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.65  E-value=6.5e-05  Score=44.52  Aligned_cols=31  Identities=35%  Similarity=0.656  Sum_probs=21.8

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHCCC
Q 048281          100 FTYNAMISGFYSNDFAFKGLDFFNHMRQLGV  130 (660)
Q Consensus       100 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  130 (660)
                      ++||.+|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677777777777777777777777776653

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.65  E-value=0.00011  Score=52.80  Aligned_cols=61  Identities=23%  Similarity=0.250  Sum_probs=50.8

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          487 VIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      +...+...|++++|.+.|+++..  +.+...|..+..++...|++++|...|+++++..|++|
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            45678899999999999998654  34667899999999999999999999999999999874

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.65  E-value=0.0006  Score=60.47  Aligned_cols=81  Identities=17%  Similarity=0.087  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPN-EAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNI  556 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  556 (660)
                      ..+..+...|...|++++|...|++... .|+    ...+..+...+...|++++|+..++++++..|+++..+..++.+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~  115 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            4556666677777777777777776532 111    35778888889999999999999999999999888888888888


Q ss_pred             HHhCCC
Q 048281          557 YVAGGK  562 (660)
Q Consensus       557 ~~~~g~  562 (660)
                      |...|+
T Consensus       116 ~~~~g~  121 (172)
T PRK02603        116 YHKRGE  121 (172)
T ss_pred             HHHcCC
Confidence            888776

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.61  E-value=8e-05  Score=44.13  Aligned_cols=31  Identities=39%  Similarity=0.552  Sum_probs=23.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKL  441 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  441 (660)
                      ++|+.|+++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677788888888888888888888877663

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.60  E-value=0.0029  Score=66.08  Aligned_cols=139  Identities=17%  Similarity=0.078  Sum_probs=67.6

Q ss_pred             CCCHhHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcc--------CCHHHHHHHHHHhH
Q 048281          407 KKDVASWNIMILGYGMD-----GQGKEALDMFSCMCEAKLKPDE-VTFVGVLSACSHS--------GFLSQGREFLPLME  472 (660)
Q Consensus       407 ~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~--------g~~~~a~~~~~~~~  472 (660)
                      ..+...|...+++....     ++...|..+|++.++.  .|+. ..|..+..++...        .++..+.+......
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            45677787777764432     2366888888888885  5654 3333332222111        01122222222221


Q ss_pred             HhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          473 SRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       473 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      .......+...|.++.-.+...|++++|...++++.. .|+...|..+...+...|+.++|...+++++.++|.++
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~p  487 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGEN  487 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Confidence            1001222334444444444445555555555555332 34444555555555555555555555555555555544

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.59  E-value=0.086  Score=51.37  Aligned_cols=108  Identities=16%  Similarity=0.235  Sum_probs=77.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFL  461 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  461 (660)
                      .+..+.-+...|+...|.++-.+..-|+...|-..+.+++..+++++-..+-..      +-.+.-|..++.+|...|..
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            344455666778888888888888778888888888888888888776655332      22346777888888888888


Q ss_pred             HHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHh
Q 048281          462 SQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALA  506 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  506 (660)
                      .+|..+...+.           +..-+.+|.++|++.+|.+.--+
T Consensus       254 ~eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  254 KEASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHH
Confidence            88887777631           24456778888888888776544

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

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.59  E-value=0.00064  Score=60.05  Aligned_cols=94  Identities=13%  Similarity=-0.061  Sum_probs=76.3

Q ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHH
Q 048281          480 TIEHYTCVIDMLGRAGQLNEAYELALAMPN-EA----NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMS  554 (660)
Q Consensus       480 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  554 (660)
                      ....|..++..+...|++++|...|++... .+    ...+|..+...+...|++++|+..+++++++.|.....+..++
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            345667777788888999999998887632 12    2357889999999999999999999999999999888888888


Q ss_pred             HHHH-------hCCChHHHHHHHHHH
Q 048281          555 NIYV-------AGGKYEEVLDIRHTM  573 (660)
Q Consensus       555 ~~~~-------~~g~~~~a~~~~~~~  573 (660)
                      .++.       +.|++++|...+++.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            8888       888888777777654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.58  E-value=0.079  Score=51.63  Aligned_cols=111  Identities=16%  Similarity=0.217  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRL  525 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~  525 (660)
                      .+.+..+.-|...|....|.++-.+.    .+ |+...|...+.+|+..|+|++-.++-..   +..+.-|..++.+|..
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~F----kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEF----KV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLK  249 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHc----CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHH
Confidence            35555667777889888887775554    45 8899999999999999999998887654   3467889999999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          526 HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       526 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                      .|+..+|.....++    |     +..-...|.+.|+|.+|.+.--+.
T Consensus       250 ~~~~~eA~~yI~k~----~-----~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  250 YGNKKEASKYIPKI----P-----DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             CCCHHHHHHHHHhC----C-----hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            99999998888761    1     245788899999999998875443

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.56  E-value=0.00027  Score=52.24  Aligned_cols=59  Identities=15%  Similarity=0.147  Sum_probs=51.0

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          520 LAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       520 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      ...|.+.+++++|.+.++++++++|+++..+...+.++...|++++|.+.++...+.+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            35678889999999999999999999999999999999999999999999998876543

>PRK15331 chaperone protein SicA; Provisional

Probab=97.55  E-value=0.0017  Score=54.90  Aligned_cols=89  Identities=15%  Similarity=-0.005  Sum_probs=78.6

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChH
Q 048281          487 VIDMLGRAGQLNEAYELALAMP--NEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYE  564 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  564 (660)
                      ..--+...|++++|..+|.-+.  ..-+..-|..|..+|...+++++|+..|..+..++++||..+...+..|...|+.+
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            3344558999999999998743  35677788899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 048281          565 EVLDIRHTMRQ  575 (660)
Q Consensus       565 ~a~~~~~~~~~  575 (660)
                      .|+..|....+
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            99999999877

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.54  E-value=0.0054  Score=54.13  Aligned_cols=81  Identities=10%  Similarity=0.010  Sum_probs=53.0

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD--EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCV  487 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  487 (660)
                      ...|..+...+...|++++|+..|++.......|.  ..++..+...+...|++++|+..++.+.+.  .+.....+..+
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~l  112 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHH
Confidence            34666777777788888888888888876532221  246666777777888888888888877652  22233445555


Q ss_pred             HHHHh
Q 048281          488 IDMLG  492 (660)
Q Consensus       488 ~~~~~  492 (660)
                      ...|.
T Consensus       113 a~i~~  117 (168)
T CHL00033        113 AVICH  117 (168)
T ss_pred             HHHHH
Confidence            55555

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.49  E-value=0.0032  Score=60.56  Aligned_cols=133  Identities=12%  Similarity=0.112  Sum_probs=100.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA-CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      .+|-.++...-+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+.  +..+...|...++
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            367778888888888999999999998543 2334444444433 33356778899999999984  6667788999999


Q ss_pred             HHhhcCCHHHHHHHHHhCCCC-C----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          490 MLGRAGQLNEAYELALAMPNE-A----NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~~-~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      .+.+.|+.+.|..+|++.... +    ....|...+..=.+.|+.+...++.+++.+.-|.+
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            999999999999999986542 2    33589999999999999999999999999987774

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.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.47  E-value=0.001  Score=51.72  Aligned_cols=79  Identities=11%  Similarity=0.123  Sum_probs=66.0

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCC-CCCcccHHHHHHHHhhhC--------CHHHHHHHHHHHHHhCCCCChhHHH
Q 048281          103 NAMISGFYSNDFAFKGLDFFNHMRQLGV-LPDKYTFPCLIKCCCDVM--------AVLEVKKIHGLVFKLGLDLDVYIGS  173 (660)
Q Consensus       103 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~t~~~ll~~~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~~~  173 (660)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.+++.        .+-....+|+.|+..++.|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3456666677999999999999999999 899999999999987663        3456778899999999999999999


Q ss_pred             HHHHHhHh
Q 048281          174 ALVNTYLK  181 (660)
Q Consensus       174 ~li~~~~~  181 (660)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99887654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.46  E-value=0.045  Score=55.90  Aligned_cols=125  Identities=13%  Similarity=0.117  Sum_probs=73.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHH
Q 048281          385 LMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQG  464 (660)
Q Consensus       385 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  464 (660)
                      ...++...|+.++|..+                  +..+|-.+-++++-+++-.    .+..+...+...+.+...+..|
T Consensus       709 AAEmLiSaGe~~KAi~i------------------~~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLA  766 (1081)
T KOG1538|consen  709 AAEMLISAGEHVKAIEI------------------CGDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLA  766 (1081)
T ss_pred             HHHHhhcccchhhhhhh------------------hhcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchH
Confidence            34455556666666554                  2344555555555544432    2334455555555666677778


Q ss_pred             HHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHH-H----------HHHHHHHHHHcCChHHH
Q 048281          465 REFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPV-V----------WRTLLAASRLHGNTDLA  532 (660)
Q Consensus       465 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~-~----------~~~l~~~~~~~g~~~~A  532 (660)
                      -++|..|-.          ...++++....++|.+|..+-++.++ .+++. .          +.-.-.+|.+.|+..+|
T Consensus       767 aeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA  836 (1081)
T KOG1538|consen  767 AEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREA  836 (1081)
T ss_pred             HHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHH
Confidence            888887743          24567777888888888888888775 23321 1          12223456666777777


Q ss_pred             HHHHHHHHh
Q 048281          533 EIAAQRVFQ  541 (660)
Q Consensus       533 ~~~~~~~~~  541 (660)
                      .++++++..
T Consensus       837 ~~vLeQLtn  845 (1081)
T KOG1538|consen  837 VQVLEQLTN  845 (1081)
T ss_pred             HHHHHHhhh
Confidence            777766543

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.42  E-value=0.0015  Score=65.24  Aligned_cols=121  Identities=13%  Similarity=0.072  Sum_probs=93.6

Q ss_pred             CCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCC-----CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCccc
Q 048281           62 GIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEP-----NVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYT  136 (660)
Q Consensus        62 g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t  136 (660)
                      +...+......+++.+....+++.+..++-+....|     -..+.+++|+.|...|..+.++.+++.=...|+-||..|
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            345566777778888888888888888775422222     233557899999999999999999998888999999999


Q ss_pred             HHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhc
Q 048281          137 FPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKC  182 (660)
Q Consensus       137 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  182 (660)
                      |+.||+.+.+.|++..|.++...|...+.-.+..++..-+.+|.+.
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            9999999999999999999998888877666666666656555555

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 [].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.40  E-value=0.00062  Score=51.90  Aligned_cols=47  Identities=15%  Similarity=0.249  Sum_probs=19.7

Q ss_pred             CChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048281          424 GQGKEALDMFSCMCEAKLK-PDEVTFVGVLSACSHSGFLSQGREFLPL  470 (660)
Q Consensus       424 g~~~~A~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~  470 (660)
                      |+++.|+.+++++.+.... |+...+..+..++.+.|++++|..+++.
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            4445555555555443210 1222233344444444555555544444

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.38  E-value=0.15  Score=49.18  Aligned_cols=245  Identities=18%  Similarity=0.153  Sum_probs=166.9

Q ss_pred             HHcCChHHHHHHHHHHhhcCCCCCHH--HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHH
Q 048281          312 EQCGNHDGTLRLFDRMLSAGFQPDLV--TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMY  389 (660)
Q Consensus       312 ~~~g~~~~a~~~~~~m~~~g~~p~~~--t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~  389 (660)
                      .-.|+++.|.+-|+.|...   |...  -...+.-..-+.|+.+.++++-+..-..-...         ...+.+.+...
T Consensus       131 l~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l---------~WA~~AtLe~r  198 (531)
T COG3898         131 LLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQL---------PWAARATLEAR  198 (531)
T ss_pred             HhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCC---------chHHHHHHHHH
Confidence            3458888888888888852   3322  22333334457788888888888776665555         67888999999


Q ss_pred             HhcCCHHHHHHHHhcCC-----CCCHh--HHHHHHHHHH---hcCChHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHhcc
Q 048281          390 TKCGSMRDAQMVFTKMS-----KKDVA--SWNIMILGYG---MDGQGKEALDMFSCMCEAKLKPDEVTFV-GVLSACSHS  458 (660)
Q Consensus       390 ~~~g~~~~A~~~~~~~~-----~~~~~--~~~~li~~~~---~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~  458 (660)
                      +..|+++.|+++.+.-.     ++++.  .-..|+.+-.   -..+...|...-.+..+  +.||-..-. ....++.+.
T Consensus       199 ~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d  276 (531)
T COG3898         199 CAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRD  276 (531)
T ss_pred             HhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhc
Confidence            99999999999998654     34432  1222222211   12345556655555554  567755333 334678999


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHH--H--HHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 048281          459 GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEA--Y--ELALAMPNEANPVVWRTLLAASRLHGNTDLAEI  534 (660)
Q Consensus       459 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A--~--~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  534 (660)
                      |++.++-.+++.+-+   ..|.+.++...+  +.+.|+....  .  +-++.|. +.+..+..++..+....|++..|..
T Consensus       277 ~~~rKg~~ilE~aWK---~ePHP~ia~lY~--~ar~gdta~dRlkRa~~L~slk-~nnaes~~~va~aAlda~e~~~ARa  350 (531)
T COG3898         277 GNLRKGSKILETAWK---AEPHPDIALLYV--RARSGDTALDRLKRAKKLESLK-PNNAESSLAVAEAALDAGEFSAARA  350 (531)
T ss_pred             cchhhhhhHHHHHHh---cCCChHHHHHHH--HhcCCCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHhccchHHHHH
Confidence            999999999999955   456665554444  3566663222  1  1233444 4567788888888999999999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHhC-CChHHHHHHHHHHHhCC
Q 048281          535 AAQRVFQLEPGHCGNYVLMSNIYVAG-GKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       535 ~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~  577 (660)
                      -.+.+....|.. ..|..|+++-... |+-.++...+-+..+.-
T Consensus       351 ~Aeaa~r~~pre-s~~lLlAdIeeAetGDqg~vR~wlAqav~AP  393 (531)
T COG3898         351 KAEAAAREAPRE-SAYLLLADIEEAETGDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             HHHHHhhhCchh-hHHHHHHHHHhhccCchHHHHHHHHHHhcCC
Confidence            999999999965 6788899887655 99999999888776643

>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=97.38  E-value=0.00037  Score=50.82  Aligned_cols=65  Identities=18%  Similarity=0.156  Sum_probs=54.5

Q ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHhcCC
Q 048281          480 TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHG-NTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       480 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p  544 (660)
                      +...|..+...+...|++++|+..|++...  +.++..|..+..+|...| ++++|++.++++++++|
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            456788888888899999999998887654  446678899999999999 79999999999999887

...

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.37  E-value=0.00013  Score=44.00  Aligned_cols=33  Identities=27%  Similarity=0.651  Sum_probs=30.8

Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHhCCChHHHHH
Q 048281          536 AQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       536 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  568 (660)
                      |+++++++|+++.+|..|+.+|...|++++|++
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

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.37  E-value=0.0072  Score=63.16  Aligned_cols=135  Identities=19%  Similarity=0.118  Sum_probs=99.6

Q ss_pred             CCCCCHHHHHHHHHHHhc--cC---CHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhc--------CCHHHHHHHHH
Q 048281          440 KLKPDEVTFVGVLSACSH--SG---FLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRA--------GQLNEAYELAL  505 (660)
Q Consensus       440 g~~p~~~~~~~ll~~~~~--~g---~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------g~~~~A~~~~~  505 (660)
                      +.+.|...|..++.+...  .+   +...|..+|+++.+   ..|+ ...|..+..+|...        ++++.+.+..+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~---ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK---SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            456777888888887443  33   37789999999986   4555 34555544444322        23445555555


Q ss_pred             hCC----CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          506 AMP----NEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       506 ~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      +..    .+.++..+..+.-.....|++++|...++++++++| +...|..++.++...|+.++|...+++......
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            422    234567788887777788999999999999999999 578999999999999999999999999877654

>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=97.37  E-value=0.0002  Score=52.07  Aligned_cols=58  Identities=24%  Similarity=0.249  Sum_probs=29.8

Q ss_pred             hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchH
Q 048281          493 RAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       493 ~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                      ..|++++|+++|+++..  +.+...+..++.+|.+.|++++|...++++...+|+++..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~   62 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQ   62 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHH
Confidence            34555555555555432  23444555555555555555555555555555555544333

...

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.35  E-value=0.19  Score=49.62  Aligned_cols=59  Identities=14%  Similarity=0.192  Sum_probs=46.6

Q ss_pred             HHHHHHHHH--HHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          514 VVWRTLLAA--SRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       514 ~~~~~l~~~--~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                      ..-|.|..|  +..+|++.++.-...-+.+..| ++.+|..+|-++....+++||..++..+
T Consensus       461 eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  461 EIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            344555443  5678888888887777788888 7888999999999999999999988875

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.31  E-value=0.039  Score=47.26  Aligned_cols=133  Identities=11%  Similarity=0.014  Sum_probs=103.4

Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-C---CCHHHH
Q 048281          441 LKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-E---ANPVVW  516 (660)
Q Consensus       441 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~---~~~~~~  516 (660)
                      +.|+...-..|..+....|+..+|...|++...- -+.-|....-.+.++....++...|...++++-+ +   ..+...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            4666666667888888999999999999998872 4556777888888888899999999988887543 2   223345


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          517 RTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       517 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ..+.+++...|.+..|+..|+.++.--|+ +..-...+..+.++|+.+++..-+..+.+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            56778889999999999999999998775 46667778889999998888776665544

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.27  E-value=0.0028  Score=63.38  Aligned_cols=117  Identities=14%  Similarity=0.094  Sum_probs=85.8

Q ss_pred             CChhHHHHHHHHhHhcCChHHHHHHHccCCCC------CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHH
Q 048281          167 LDVYIGSALVNTYLKCQFMEEALKVFEELPLR------DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTG  240 (660)
Q Consensus       167 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~  240 (660)
                      .+......+++.+....+++.+..++-+....      -..+..++++.|.+.|..+.++.+++.=...|+-||..|++.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            34444555555555556666666665554321      123456888889999999999999988888899999999999


Q ss_pred             HHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcC
Q 048281          241 VLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKG  283 (660)
Q Consensus       241 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  283 (660)
                      +|..+.+.|++..|.++...|...+...+..++..-+.++.+.
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999988888887766766666655555554

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 [].

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.26  E-value=0.23  Score=48.96  Aligned_cols=446  Identities=11%  Similarity=0.050  Sum_probs=222.0

Q ss_pred             hccCChhHHHHHHHHHHHhCCC-CC----hhHHHHHHHHhHcCCChhHHHHHHccC-CCCCCcccHHHHHHHH--HcCCC
Q 048281           43 AHQTNLQKGQEIHSYMLRTGII-DS----PLSITSLINMYSKCCQMKYALFVFNNL-SCEPNVFTYNAMISGF--YSNDF  114 (660)
Q Consensus        43 ~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~ll~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~li~~~--~~~~~  114 (660)
                      .+.++..++..+|.++-+.--. |.    ....+.++++|-.. +++.-...+.+. -..| ...|-.+..++  -+.+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~~-~s~~l~LF~~L~~Y~~k~   94 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQFG-KSAYLPLFKALVAYKQKE   94 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHhhh
Confidence            4667888888888887655321 11    23345677777643 333333322211 1112 33455555443  35677


Q ss_pred             hhHHHHHHHHHHHC--CCCC------------CcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCC----CChhHHHHHH
Q 048281          115 AFKGLDFFNHMRQL--GVLP------------DKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLD----LDVYIGSALV  176 (660)
Q Consensus       115 ~~~a~~~~~~m~~~--~~~p------------~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~----~~~~~~~~li  176 (660)
                      +.+|++.+..-...  +..|            |-.-=+..+..+...|++.+++.+++++...-++    -+..+|+.++
T Consensus        95 ~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~v  174 (549)
T PF07079_consen   95 YRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAV  174 (549)
T ss_pred             HHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHH
Confidence            77887777666544  2222            1111233455566777777777777776654333    5666777666


Q ss_pred             HHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC--CchhH
Q 048281          177 NTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMG--FFKNG  254 (660)
Q Consensus       177 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~--~~~~a  254 (660)
                      -++++.=-++--.    .+...=...|--++-.|.+.=+.-++      ---..+.|-...+..++....-..  +..--
T Consensus       175 lmlsrSYfLEl~e----~~s~dl~pdyYemilfY~kki~~~d~------~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~  244 (549)
T PF07079_consen  175 LMLSRSYFLELKE----SMSSDLYPDYYEMILFYLKKIHAFDQ------RPYEKFIPEEELFSTIMQHLFIVPKERLPPL  244 (549)
T ss_pred             HHHhHHHHHHHHH----hcccccChHHHHHHHHHHHHHHHHhh------chHHhhCcHHHHHHHHHHHHHhCCHhhccHH
Confidence            6655432222111    11111111233333333322111000      000112343333444443332221  22223


Q ss_pred             HHHHHHHHHhCCCCCch-HHHHHHHHHHcCCCHHHHHHHHHhcC--------CCChhhHHHHHHHHHHcCChHHHHHHHH
Q 048281          255 RVVHGIVVKMGYDSGVP-VMNALIDMYGKGKCVGEALEIFEMME--------EKDIFSWNSIMTVHEQCGNHDGTLRLFD  325 (660)
Q Consensus       255 ~~~~~~~~~~g~~~~~~-~~~~li~~~~~~~~~~~A~~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~a~~~~~  325 (660)
                      .+++..-...-+.|+.. +...|+....+  +.+++..+-+.+.        +.=+.++..++....+.++..+|-+.+.
T Consensus       245 mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~  322 (549)
T PF07079_consen  245 MQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLA  322 (549)
T ss_pred             HHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            33443334444445433 33344444443  3444444433332        2234567788888888888888888877


Q ss_pred             HHhhcCCCCCHHHHHHH-------HHHHh-ccc---chHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHH---HHHHh
Q 048281          326 RMLSAGFQPDLVTFSTV-------LPACS-HLA---ALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALM---DMYTK  391 (660)
Q Consensus       326 ~m~~~g~~p~~~t~~~l-------l~~~~-~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li---~~~~~  391 (660)
                      -+.-.  .|+...-..+       -+..+ .-.   ++..-..+++.+...+++.         ......|+   .-+-+
T Consensus       323 lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr---------qQLvh~L~~~Ak~lW~  391 (549)
T PF07079_consen  323 LLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR---------QQLVHYLVFGAKHLWE  391 (549)
T ss_pred             HHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH---------HHHHHHHHHHHHHHHh
Confidence            66643  3433211111       11111 111   1222233444444444433         12222222   23344


Q ss_pred             cCC-HHHHHHHHhcCC---CCCHhHHHHHH----HHHHh---cCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHH--
Q 048281          392 CGS-MRDAQMVFTKMS---KKDVASWNIMI----LGYGM---DGQGKEALDMFSCMCEAKLKPDE----VTFVGVLSA--  454 (660)
Q Consensus       392 ~g~-~~~A~~~~~~~~---~~~~~~~~~li----~~~~~---~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~--  454 (660)
                      .|. -++|.++++.+.   ..|...-|.+.    ..|.+   .....+-+.+-+-..+.|+.|-.    ..-+.|..|  
T Consensus       392 ~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEy  471 (549)
T PF07079_consen  392 IGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEY  471 (549)
T ss_pred             cCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHH
Confidence            454 777888887765   23444433322    22322   22344445555555667777643    344444443  


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHH
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRT  518 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  518 (660)
                      +...|++.++.-.-..+.   .+.|++.+|..+.-++....++++|.+++..++  |+..++++
T Consensus       472 Lysqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~ds  530 (549)
T PF07079_consen  472 LYSQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMRDS  530 (549)
T ss_pred             HHhcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhHHH
Confidence            456788888866555553   578899999988888888899999999998887  35555554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.25  E-value=0.024  Score=47.80  Aligned_cols=93  Identities=9%  Similarity=-0.019  Sum_probs=67.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC
Q 048281          383 NALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSG  459 (660)
Q Consensus       383 ~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  459 (660)
                      -.+...+...|++++|.++|+.+.   ..+..-|-.|..++-..|++++|+..|....... +-|+..+-.+..++...|
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcC
Confidence            344555667788888888887655   2355677778888888888888888888887764 345566777777788888


Q ss_pred             CHHHHHHHHHHhHHhcC
Q 048281          460 FLSQGREFLPLMESRYG  476 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~  476 (660)
                      +.+.|.+.|+.++...+
T Consensus       118 ~~~~A~~aF~~Ai~~~~  134 (157)
T PRK15363        118 NVCYAIKALKAVVRICG  134 (157)
T ss_pred             CHHHHHHHHHHHHHHhc
Confidence            88888888887776433

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.24  E-value=0.0014  Score=64.85  Aligned_cols=63  Identities=13%  Similarity=-0.042  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch---HHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          513 PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN---YVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       513 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ...|+.+..+|...|++++|+..|+++++++|+++..   |.+++.+|...|+.++|...+++..+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555555555555555555555554432   45555555555555555555555444

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.23  E-value=0.0032  Score=49.05  Aligned_cols=79  Identities=13%  Similarity=0.105  Sum_probs=64.0

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCC-CCChhhHHHHHHHHHccCC--------chhHHHHHHHHHHhCCCCCchHHH
Q 048281          204 NAMVNGYAQIGEFHKALEVFRRMSKEGI-WMSRFTVTGVLSALIMMGF--------FKNGRVVHGIVVKMGYDSGVPVMN  274 (660)
Q Consensus       204 ~~li~~~~~~~~~~~A~~~~~~m~~~~~-~p~~~t~~~ll~~~~~~~~--------~~~a~~~~~~~~~~g~~~~~~~~~  274 (660)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..-        +-....+++.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3446666677999999999999999999 8999999999998876642        334567888888889999999999


Q ss_pred             HHHHHHHc
Q 048281          275 ALIDMYGK  282 (660)
Q Consensus       275 ~li~~~~~  282 (660)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            98887765

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 [, , ].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.20  E-value=0.00062  Score=44.14  Aligned_cols=42  Identities=26%  Similarity=0.404  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHH
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSN  555 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  555 (660)
                      .+|..+..+|...|++++|+++++++++.+|+++..+..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467889999999999999999999999999999988887764

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.19  E-value=0.039  Score=53.32  Aligned_cols=24  Identities=8%  Similarity=0.039  Sum_probs=10.7

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHH
Q 048281          450 GVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       450 ~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                      .+...+.+.|++++|.++|+++..
T Consensus       160 ~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  160 KAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            333444444455555555544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.17  E-value=0.0037  Score=50.73  Aligned_cols=87  Identities=17%  Similarity=0.064  Sum_probs=58.1

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCC----C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC---CcchHHHHHHHHH
Q 048281          487 VIDMLGRAGQLNEAYELALAMPNE----A-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG---HCGNYVLMSNIYV  558 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~~----~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~  558 (660)
                      +..++-..|+.++|+.+|++....    + -...+..+.+.+...|++++|+.++++.....|+   +......++.++.
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            344556667777777777664331    1 1235556777788888888888888887777676   5555566677777


Q ss_pred             hCCChHHHHHHHHHH
Q 048281          559 AGGKYEEVLDIRHTM  573 (660)
Q Consensus       559 ~~g~~~~a~~~~~~~  573 (660)
                      ..|+.++|.+.+-..
T Consensus        87 ~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   87 NLGRPKEALEWLLEA  101 (120)
T ss_pred             HCCCHHHHHHHHHHH
Confidence            888888887776544

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.15  E-value=0.12  Score=48.47  Aligned_cols=174  Identities=8%  Similarity=-0.032  Sum_probs=102.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC--CC-Hh---HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 048281          384 ALMDMYTKCGSMRDAQMVFTKMSK--KD-VA---SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSH  457 (660)
Q Consensus       384 ~li~~~~~~g~~~~A~~~~~~~~~--~~-~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  457 (660)
                      .....+.+.|++++|.+.|+.+..  |+ ..   ..-.++.+|.+.+++++|...+++..+....-...-+...+.+.+.
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            344555667888888888887763  21 11   2234556777788888888888888775222122233333333321


Q ss_pred             --c---------------CC---HHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHH
Q 048281          458 --S---------------GF---LSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWR  517 (660)
Q Consensus       458 --~---------------g~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  517 (660)
                        .               .+   ..+|...|+.+++                -|=...-..+|...+..+...- ..--.
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~----------------~yP~S~ya~~A~~rl~~l~~~l-a~~e~  179 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVR----------------GYPNSQYTTDATKRLVFLKDRL-AKYEL  179 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHH----------------HCcCChhHHHHHHHHHHHHHHH-HHHHH
Confidence              0               01   1233344444443                2222233344444333332110 00111


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhCCChHHHHHHHHHHH
Q 048281          518 TLLAASRLHGNTDLAEIAAQRVFQLEPGHC---GNYVLMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       518 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      .+..-|.+.|.+..|..-++.+++.-|+.+   ++...+..+|...|..++|.+..+.+.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            345668899999999999999999877654   567788899999999999999887664

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.14  E-value=0.0013  Score=48.44  Aligned_cols=64  Identities=16%  Similarity=0.160  Sum_probs=53.7

Q ss_pred             HHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHH
Q 048281          488 IDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYV  551 (660)
Q Consensus       488 ~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  551 (660)
                      -..|.+.+++++|.++++.+..  +.++..|......+...|++++|...++++++..|+++....
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~   67 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARA   67 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHH
Confidence            3567889999999999998754  456778888999999999999999999999999998765443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.13  E-value=0.0049  Score=59.27  Aligned_cols=129  Identities=11%  Similarity=0.052  Sum_probs=100.0

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh-cCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR-AGQLNEAYELALAMPN--EANPVVWRTLLAA  522 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~  522 (660)
                      .+|..++..+-+.+..+.|..+|.++.+  .-..+..+|...+.+-.+ .++.+.|.++|+....  ..+...|...+..
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 LVWIQYMRFMRRTEGIEAARKVFKRARK--DKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            4678888888888899999999999986  333455666666666444 5666679999998654  5678899999999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHC---GNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +...|+.+.|..+|++++..-|.+.   ..|...+..=.+.|+++.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999766543   46777788788899999999999888653

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.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.13  E-value=0.0036  Score=59.02  Aligned_cols=92  Identities=13%  Similarity=0.088  Sum_probs=48.1

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---cchHHHHHH
Q 048281          484 YTCVIDMLGRAGQLNEAYELALAMPN-EAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH---CGNYVLMSN  555 (660)
Q Consensus       484 ~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~  555 (660)
                      |...+..+.+.|++++|...|+.+.. .|+    +..+.-++.+|...|++++|...|+++++..|++   +..+..++.
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            33333333444555555555554332 122    2344455555666666666666666666555543   334444555


Q ss_pred             HHHhCCChHHHHHHHHHHHh
Q 048281          556 IYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       556 ~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ++...|++++|.++++.+.+
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            56666666666666666554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.10  E-value=0.017  Score=46.86  Aligned_cols=93  Identities=15%  Similarity=0.111  Sum_probs=66.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHH
Q 048281          415 IMILGYGMDGQGKEALDMFSCMCEAKLKPDE--VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDML  491 (660)
Q Consensus       415 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~  491 (660)
                      .+..++-..|+.++|+.+|++....|+....  ..+..+.+++...|++++|..+++.....+.-.+ +......+.-++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            3456677889999999999999988866553  3566677788889999999999998876422111 223333445567


Q ss_pred             hhcCCHHHHHHHHHhC
Q 048281          492 GRAGQLNEAYELALAM  507 (660)
Q Consensus       492 ~~~g~~~~A~~~~~~~  507 (660)
                      ...|+.++|++.+-..
T Consensus        86 ~~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEA  101 (120)
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            7888988888877543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.07  E-value=0.18  Score=51.71  Aligned_cols=35  Identities=20%  Similarity=0.151  Sum_probs=21.6

Q ss_pred             HHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHcc
Q 048281          157 HGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEE  194 (660)
Q Consensus       157 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  194 (660)
                      ++++.+.|-.|+...   +...++-.|++.+|-++|.+
T Consensus       623 L~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  623 LEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             HHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            455666666666543   33455567778888777643

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.04  E-value=0.54  Score=49.48  Aligned_cols=111  Identities=8%  Similarity=0.012  Sum_probs=85.8

Q ss_pred             CchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc
Q 048281          269 GVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSH  348 (660)
Q Consensus       269 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  348 (660)
                      ...+.+--+.-+...|+..+|.++-.+.+-||-..|-.-+.+++..+++++-+++-+.+.      .+.-|..+..+|.+
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~  756 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLK  756 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHh
Confidence            334455556667778999999999999998999999888999999999998777766554      24567778889999


Q ss_pred             ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHH
Q 048281          349 LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVF  402 (660)
Q Consensus       349 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  402 (660)
                      .|+.++|.+++.++..                 +.-.+.+|.+.|++.+|.++-
T Consensus       757 ~~n~~EA~KYiprv~~-----------------l~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  757 QGNKDEAKKYIPRVGG-----------------LQEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             cccHHHHhhhhhccCC-----------------hHHHHHHHHHhccHHHHHHHH
Confidence            9999999888765421                 114678899999988887764

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.03  E-value=0.0038  Score=59.87  Aligned_cols=129  Identities=15%  Similarity=0.030  Sum_probs=92.6

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhH---HhcCCCCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCC-------C-CCCH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLME---SRYGVVPT-IEHYTCVIDMLGRAGQLNEAYELALAMP-------N-EANP  513 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~---~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~-~~~~  513 (660)
                      ..|..|...|.-.|+++.|+..++.-.   +.+|-+.. ...+..|.+++.-.|+++.|.+.|+...       . ....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            356666666667789999988776532   22444332 3678888999999999999999887532       1 1334


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc------CCCCcchHHHHHHHHHhCCChHHHHHHHHHHH
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQL------EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      .+..+|..+|.-..++++|+..+.+=+.+      ......++..|+.+|...|..+.|..+...-.
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            56677888888888899999888775543      12334678899999999999999988776553

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.01  E-value=0.0061  Score=58.98  Aligned_cols=64  Identities=16%  Similarity=0.089  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          513 PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       513 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ..+++.+..+|.+.+++..|++...++++++|+|.-....-+.+|...|.++.|+..|+++.+.
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            3567788888999999999999999999999999999999999999999999999999999873

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.00  E-value=0.021  Score=48.80  Aligned_cols=108  Identities=14%  Similarity=0.150  Sum_probs=93.4

Q ss_pred             HHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          469 PLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN---EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      ++..+.....|++..-..|..++.+.|+..+|...|++...   ..|......+.++....++...|...++.+.+-.|.
T Consensus        77 Rea~~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa  156 (251)
T COG4700          77 REATEELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPA  156 (251)
T ss_pred             HHHHHHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCc
Confidence            34444456778988889999999999999999999998654   468888899999999999999999999999998774


Q ss_pred             --CcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          546 --HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       546 --~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                        .|.....+++.|..+|++++|...|+.....
T Consensus       157 ~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         157 FRSPDGHLLFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             cCCCCchHHHHHHHHhcCCchhHHHHHHHHHHh
Confidence              5677889999999999999999999988764

>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=96.97  E-value=0.0088  Score=52.89  Aligned_cols=97  Identities=19%  Similarity=0.256  Sum_probs=79.2

Q ss_pred             HHHHhcC--CCCCHhHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc-------------
Q 048281          399 QMVFTKM--SKKDVASWNIMILGYGMD-----GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS-------------  458 (660)
Q Consensus       399 ~~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-------------  458 (660)
                      ...|+..  ..++-.+|..++..|.+.     |..+=....++.|.+.|+.-|..+|+.||..+=+.             
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            4455555  466788888888888754     67777888899999999999999999999988653             


Q ss_pred             ---CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC
Q 048281          459 ---GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ  496 (660)
Q Consensus       459 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  496 (660)
                         .+-+-|++++++|.. +|+.||.+++..|++.+++.+.
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               234668999999998 5999999999999999987775

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=96.97  E-value=0.4  Score=46.37  Aligned_cols=105  Identities=8%  Similarity=0.121  Sum_probs=58.7

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHhhcCCC-----CCHH-HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCC
Q 048281          303 SWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQ-----PDLV-TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDI  376 (660)
Q Consensus       303 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-----p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  376 (660)
                      .+..+...+.+.|++++|.++|++.......     .+.. .|...+-.+...||+..|...++......+...    ..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~----~s  232 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFA----SS  232 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTST----TS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCC----Cc
Confidence            3445667777788888888888777654322     1221 222333345556788888888777654432221    11


Q ss_pred             cchhHHHHHHHHHHh--cCCHHHHHHHHhcCCCCCHh
Q 048281          377 DDVFMNNALMDMYTK--CGSMRDAQMVFTKMSKKDVA  411 (660)
Q Consensus       377 ~~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~~~~  411 (660)
                      ....+...|+.+|-.  ...+..|..-|+.+.+.|.-
T Consensus       233 ~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w  269 (282)
T PF14938_consen  233 REYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNW  269 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHH
Confidence            224566667777754  45677788888887765543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.96  E-value=0.3  Score=48.09  Aligned_cols=165  Identities=18%  Similarity=0.095  Sum_probs=110.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-------CHhHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCCHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSKK-------DVASWNIMILGYGM---DGQGKEALDMFSCMCEAKLKPDEVTF  448 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~~~  448 (660)
                      ..+.-.++-.|....+++...++.+.+...       ....-....-++.+   .|+.++|+.++..+....-.+++.||
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~  220 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTL  220 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHH
Confidence            344456666799999999999999998743       12222234456666   89999999999997776678888888


Q ss_pred             HHHHHHHhc---------cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHH----HHHHHH---Hh-C----
Q 048281          449 VGVLSACSH---------SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLN----EAYELA---LA-M----  507 (660)
Q Consensus       449 ~~ll~~~~~---------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~----~A~~~~---~~-~----  507 (660)
                      ..+...|-.         ....++|+..|.+.-   .+.|+...--.++..+...|...    +..++-   .. .    
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg  297 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            887765522         234778888888764   45566544333444444444322    222222   11 1    


Q ss_pred             CC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          508 PN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       508 ~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      ..  ..+--.+.+++.++.-.|++++|.+.++++.++.|+.
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            01  2344456788999999999999999999999998765

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.87  E-value=0.12  Score=46.90  Aligned_cols=140  Identities=14%  Similarity=0.068  Sum_probs=103.9

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHH-----HH
Q 048281          202 LWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMN-----AL  276 (660)
Q Consensus       202 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-----~l  276 (660)
                      ..+.++..+.-.|.+.-.+..+.+.++...+.++.....+.+...+.|+.+.|...++...+..-..+....+     ..
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            4466777777788889999999999998878888888999999999999999999999887664344433333     33


Q ss_pred             HHHHHcCCCHHHHHHHHHhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 048281          277 IDMYGKGKCVGEALEIFEMMEEK---DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVL  343 (660)
Q Consensus       277 i~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll  343 (660)
                      ...|.-++++..|...|.++...   |+..-|.-.-...-.|+..+|++.++.|.+.  .|...+-.+++
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~  326 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVL  326 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHH
Confidence            44566678888999999888764   4555555444455568999999999999976  55555444443

>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=96.84  E-value=0.0021  Score=48.07  Aligned_cols=62  Identities=18%  Similarity=0.199  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCC---CcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQL----EPG---HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .+++.+...|...|++++|+..+++++++    .++   -..++..++.+|...|++++|.+++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            46777778888888888888888887764    222   235677888888889999999888887643

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.79  E-value=0.47  Score=44.52  Aligned_cols=67  Identities=10%  Similarity=-0.066  Sum_probs=38.6

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHH----HHHHHHHHhcccchHHHHHHHHHHHHhCccC
Q 048281          301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVT----FSTVLPACSHLAALMHGRQIHGYIVVNGLAK  369 (660)
Q Consensus       301 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  369 (660)
                      ...+-.....+...|++++|.+.|+++...  .|+...    ...+..++-+.++++.|...++..++..+..
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~  102 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTH  102 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCC
Confidence            333334455556678888888888887765  333321    1233445566666666666666666654443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.75  E-value=0.26  Score=44.93  Aligned_cols=136  Identities=12%  Similarity=0.013  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc----CCCCChHHHHHH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRY----GVVPTIEHYTCV  487 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~~~l  487 (660)
                      .-+.++.++.-.|.+.-.+.++++.++...+-++.....|.+.-.+.||.+.|..+|+...+..    ++.-...+....
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            3455666666677788888888888886655566677777777788888888888888665531    223333333444


Q ss_pred             HHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          488 IDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       488 ~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      ...|.-++++.+|...+.+++.  +.++...|+-.-+..-.|+...|++..+.+.+..|...
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence            4456667778888888877665  33455555555555556777778888888877777643

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.75  E-value=0.089  Score=47.94  Aligned_cols=168  Identities=14%  Similarity=0.042  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCC--C----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHH
Q 048281          381 MNNALMDMYTKCGSMRDAQMVFTKMSK--K----DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDE--VTFVGVL  452 (660)
Q Consensus       381 ~~~~li~~~~~~g~~~~A~~~~~~~~~--~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll  452 (660)
                      .+-.....+...|++++|.+.|+.+..  |    -..+.-.++.++.+.|++++|...+++.++.  -|+.  ..+...+
T Consensus         7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~   84 (203)
T PF13525_consen    7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYM   84 (203)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHH
Confidence            333455566678888888888887762  2    1235556677788888888888888887765  3332  2222222


Q ss_pred             HHHhcc-------------CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHH
Q 048281          453 SACSHS-------------GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTL  519 (660)
Q Consensus       453 ~~~~~~-------------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l  519 (660)
                      .+.+..             +...+|...|+.                ++.-|=......+|...+..+... -..--..+
T Consensus        85 ~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~----------------li~~yP~S~y~~~A~~~l~~l~~~-la~~e~~i  147 (203)
T PF13525_consen   85 LGLSYYKQIPGILRSDRDQTSTRKAIEEFEE----------------LIKRYPNSEYAEEAKKRLAELRNR-LAEHELYI  147 (203)
T ss_dssp             HHHHHHHHHHHHH-TT---HHHHHHHHHHHH----------------HHHH-TTSTTHHHHHHHHHHHHHH-HHHHHHHH
T ss_pred             HHHHHHHhCccchhcccChHHHHHHHHHHHH----------------HHHHCcCchHHHHHHHHHHHHHHH-HHHHHHHH
Confidence            222211             111233333333                333344444445554444433211 00111224


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhCCChHHHH
Q 048281          520 LAASRLHGNTDLAEIAAQRVFQLEPGHC---GNYVLMSNIYVAGGKYEEVL  567 (660)
Q Consensus       520 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~  567 (660)
                      ...|.+.|.+..|..-++.+++.-|+.+   .+...++..|.+.|..+.+.
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            5678889999999999999999988864   45667888899999887544

>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=96.74  E-value=0.0068  Score=53.59  Aligned_cols=36  Identities=11%  Similarity=-0.033  Sum_probs=25.5

Q ss_pred             CHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCC
Q 048281          149 AVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQF  184 (660)
Q Consensus       149 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  184 (660)
                      +-+-|++++++|...|+-||..++..|++.+++.+.
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            345677777777777777777777777777755543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.73  E-value=0.028  Score=53.08  Aligned_cols=100  Identities=10%  Similarity=0.019  Sum_probs=65.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC----CHHHHHHHHH
Q 048281          448 FVGVLSACSHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN-EA----NPVVWRTLLA  521 (660)
Q Consensus       448 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~----~~~~~~~l~~  521 (660)
                      |...+....+.|++++|...|+.+++.+.-.+ ....+..+..+|...|++++|...|+.+.. .|    ....+..++.
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            44333333445677777777777766321111 124556677777777777777777777643 12    2445556677


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          522 ASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       522 ~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      .+...|+.+.|...|+++++..|++.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            78888999999999999999888764

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.70  E-value=0.65  Score=44.99  Aligned_cols=245  Identities=16%  Similarity=0.111  Sum_probs=119.6

Q ss_pred             cCCchhHHHHHHHHHHhCCCCCchH--HHHHHHHHHcCCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHHcCChHHHHH
Q 048281          248 MGFFKNGRVVHGIVVKMGYDSGVPV--MNALIDMYGKGKCVGEALEIFEMMEE--K-DIFSWNSIMTVHEQCGNHDGTLR  322 (660)
Q Consensus       248 ~~~~~~a~~~~~~~~~~g~~~~~~~--~~~li~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~  322 (660)
                      .|+.+.|.+-|+.|...   |....  ...|.-.--+.|..+.|..+-+..-.  | -...+.+.+...|..|+++.|++
T Consensus       133 eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~Alk  209 (531)
T COG3898         133 EGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALK  209 (531)
T ss_pred             cCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHH
Confidence            35555555555555432   11111  11122222355667777666655443  2 23467778888888899999888


Q ss_pred             HHHHHhhcC-CCCCHH--HHHHHHHHHhc---ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHH
Q 048281          323 LFDRMLSAG-FQPDLV--TFSTVLPACSH---LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMR  396 (660)
Q Consensus       323 ~~~~m~~~g-~~p~~~--t~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  396 (660)
                      +++.-.+.. +.++..  .-..++.+-+.   ..+...+...-....+.....         ...-..-..++.+.|++.
T Consensus       210 Lvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdl---------vPaav~AAralf~d~~~r  280 (531)
T COG3898         210 LVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDL---------VPAAVVAARALFRDGNLR  280 (531)
T ss_pred             HHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCcc---------chHHHHHHHHHHhccchh
Confidence            888766543 344443  22233332211   123444444444444433222         222233345566667777


Q ss_pred             HHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 048281          397 DAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEA-KLKPDE-VTFVGVLSACSHSGFLSQGREFLPLMESR  474 (660)
Q Consensus       397 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  474 (660)
                      ++-.+++.+-+.....--..+..+.+.|+  .++.-+++.... .++||. .....+..+-...|++..|..--+...  
T Consensus       281 Kg~~ilE~aWK~ePHP~ia~lY~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~--  356 (531)
T COG3898         281 KGSKILETAWKAEPHPDIALLYVRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA--  356 (531)
T ss_pred             hhhhHHHHHHhcCCChHHHHHHHHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh--
Confidence            77666666653222211112222233333  333333333221 134443 344444555556666666655444443  


Q ss_pred             cCCCCChHHHHHHHHHHhh-cCCHHHHHHHHHhCCC
Q 048281          475 YGVVPTIEHYTCVIDMLGR-AGQLNEAYELALAMPN  509 (660)
Q Consensus       475 ~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~  509 (660)
                       ...|....|..|.+.-.. .|+-.++...+.+...
T Consensus       357 -r~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         357 -REAPRESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             -hhCchhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence             345666666666665433 3666666666555443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.67  E-value=1.1  Score=46.91  Aligned_cols=151  Identities=10%  Similarity=0.072  Sum_probs=68.4

Q ss_pred             CCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCC-----CchhHHHHHHHHHhCCChhHHHHH
Q 048281          148 MAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLR-----DVVLWNAMVNGYAQIGEFHKALEV  222 (660)
Q Consensus       148 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~A~~~  222 (660)
                      |++++|++++-++.+..         .-|..+.+.|++-...++++.-...     -..+|+.+...+.....|++|.+.
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            55666666655444332         2244455555555555555432211     123455555555555555555555


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChh
Q 048281          223 FRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIF  302 (660)
Q Consensus       223 ~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~  302 (660)
                      |..-...         ...+.++.+..++++-+.+.     ..++.+....-.+.+++.+.|.-++|.+.|-+-..|.  
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---------ENQIECLYRLELFGELEVLA-----RTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK--  882 (1189)
T ss_pred             HHhccch---------HhHHHHHHHHHhhhhHHHHH-----HhcCcccchHHHHHHHHHhhchHHHHHHHHHhccCcH--
Confidence            5443110         11222222222222222211     1234444555555666666666666555554433331  


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHH
Q 048281          303 SWNSIMTVHEQCGNHDGTLRLFDR  326 (660)
Q Consensus       303 ~~~~li~~~~~~g~~~~a~~~~~~  326 (660)
                         +.+..|...+++.+|.++-+.
T Consensus       883 ---aAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  883 ---AAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHh
Confidence               223344455555555555443

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=96.60  E-value=0.0025  Score=51.47  Aligned_cols=60  Identities=37%  Similarity=0.645  Sum_probs=45.5

Q ss_pred             cEEEEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHcCcccCceeeccCCChhhh--------hHhhhHHHHHhhc
Q 048281          583 GCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGF--------EKHRLYLEEVIAK  654 (660)
Q Consensus       583 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~~~~p~~~~~~~~~~~~~~--------~~~~~~~~~~~~~  654 (660)
                      |++|..+    +.|.+++.+||+.        .+..++...||.|++.....+...++.        +..+..++||||-
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAi   69 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAI   69 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHH
Confidence            5778776    9999999999988        344666778999988665555444433        6789999999974

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.56  E-value=0.87  Score=44.57  Aligned_cols=86  Identities=10%  Similarity=-0.050  Sum_probs=55.3

Q ss_pred             HHHhcCChHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhc
Q 048281          419 GYGMDGQGKEALDMFSCMCEA---KLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRA  494 (660)
Q Consensus       419 ~~~~~g~~~~A~~~~~~m~~~---g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  494 (660)
                      -..+.|++..|.+.|.+.+..   .+.|+...|.....+..+.|+.++|+.--++..+   +.+. +..|..-..++.-.
T Consensus       258 ~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~---iD~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  258 DAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK---IDSSYIKALLRRANCHLAL  334 (486)
T ss_pred             hHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh---cCHHHHHHHHHHHHHHHHH
Confidence            345678888888888887753   2455555666666677778888888877777654   2222 12333334455566


Q ss_pred             CCHHHHHHHHHhC
Q 048281          495 GQLNEAYELALAM  507 (660)
Q Consensus       495 g~~~~A~~~~~~~  507 (660)
                      ++|++|++-+++.
T Consensus       335 e~~e~AV~d~~~a  347 (486)
T KOG0550|consen  335 EKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHH
Confidence            7788888877764

>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=96.54  E-value=0.0081  Score=51.55  Aligned_cols=69  Identities=23%  Similarity=0.275  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHH-----hCCCccCC
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMR-----QQNVRKNP  582 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~  582 (660)
                      .+...++..+...|+++.|...+++++..+|-+-..|..+..+|...|+..+|.+.|+++.     +.|+.|++
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            4556677788899999999999999999999999999999999999999999999998873     45776543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.50  E-value=0.036  Score=53.80  Aligned_cols=137  Identities=16%  Similarity=0.007  Sum_probs=97.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ  496 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  496 (660)
                      .+.|.+.|++..|...|++.+..            |. +.+.-+.++......         .-..++..|.-+|.+.++
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~------------l~-~~~~~~~ee~~~~~~---------~k~~~~lNlA~c~lKl~~  272 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF------------LE-YRRSFDEEEQKKAEA---------LKLACHLNLAACYLKLKE  272 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH------------hh-ccccCCHHHHHHHHH---------HHHHHhhHHHHHHHhhhh
Confidence            45677777777777777776642            00 111111122211111         122367778888999999


Q ss_pred             HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHH-HHHHHHH
Q 048281          497 LNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEV-LDIRHTM  573 (660)
Q Consensus       497 ~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~~  573 (660)
                      +.+|++...+...  ++++-..---..+|...|+++.|+..|+++++++|+|..+-..|+.+--+...+.+. .++|..|
T Consensus       273 ~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  273 YKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999888654  567777777889999999999999999999999999988888888877766665554 7888888


Q ss_pred             Hh
Q 048281          574 RQ  575 (660)
Q Consensus       574 ~~  575 (660)
                      -.
T Consensus       353 F~  354 (397)
T KOG0543|consen  353 FA  354 (397)
T ss_pred             hh
Confidence            44

>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=96.48  E-value=0.19  Score=40.55  Aligned_cols=140  Identities=12%  Similarity=0.095  Sum_probs=87.0

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHH
Q 048281          421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEA  500 (660)
Q Consensus       421 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  500 (660)
                      .-.|..++..++..+....   .+..-++.++.-....-+-+-..++++.+-+-+.+.+- .....++.+|++.|.    
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C-~NlKrVi~C~~~~n~----   84 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKC-GNLKRVIECYAKRNK----   84 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG--S-THHHHHHHHHTT-----
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhh-cchHHHHHHHHHhcc----
Confidence            3457778888888887763   35556666666666666666777777777553222111 122334444444443    


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048281          501 YELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVR  579 (660)
Q Consensus       501 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  579 (660)
                                 +..-....+.+....|+-+.-.+++..+.+-+..+|+....++.+|.+.|...++.+++++.-+.|++
T Consensus        85 -----------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 -----------LSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             -----------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                       33445556778888999999999999988655557888999999999999999999999999998874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.43  E-value=1.1  Score=44.32  Aligned_cols=134  Identities=10%  Similarity=0.020  Sum_probs=103.9

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAK-LKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVI  488 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  488 (660)
                      ...|...++.-.+..-.+.|..+|-+..+.| +.++...+++++..++. |+...|..+|+.-..  .++.+..--+..+
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-GDRATAYNIFELGLL--KFPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHH--hCCCchHHHHHHH
Confidence            4567777777777777889999999999988 67788888888886664 788899999987665  3333333445667


Q ss_pred             HHHhhcCCHHHHHHHHHhCCC--CCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          489 DMLGRAGQLNEAYELALAMPN--EAN--PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~--~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      .-+.+.++-+.|..+|+....  ..+  ..+|..++..-..-|+...+..+-+++.++-|..
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            778889999999999986443  122  4689999998889999999999989988888864

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.43  E-value=1.5  Score=45.85  Aligned_cols=19  Identities=26%  Similarity=0.277  Sum_probs=10.3

Q ss_pred             HHhcCChHHHHHHHHHHHH
Q 048281          420 YGMDGQGKEALDMFSCMCE  438 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~  438 (660)
                      +.+.|++-+|-+++.+|.+
T Consensus       933 ~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  933 DRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             hhhcccchhHHHHHHHHhH
Confidence            4445555555566655543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.41  E-value=0.2  Score=47.05  Aligned_cols=104  Identities=17%  Similarity=-0.056  Sum_probs=71.4

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC---CHHHHHHHHHhCCC--CCCHHHH
Q 048281          442 KPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG---QLNEAYELALAMPN--EANPVVW  516 (660)
Q Consensus       442 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~--~~~~~~~  516 (660)
                      +-|...|..|...|...|+.+.|...|....+  --.++...+..+..++..+.   ...++..+|+++..  +.++.+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r--L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALR--LAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            44566777777777777777777777777766  33445556666666554432   34567777777544  3455666


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          517 RTLLAASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       517 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      .-|...+...|++.+|...++.|++..|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            6677788888888888888888888876653

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.39  E-value=0.07  Score=44.26  Aligned_cols=88  Identities=17%  Similarity=0.136  Sum_probs=61.6

Q ss_pred             HHHhhcCCHHHHHHHHHhCCCC-----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc---hHHHHHHHHHhC
Q 048281          489 DMLGRAGQLNEAYELALAMPNE-----ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG---NYVLMSNIYVAG  560 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~  560 (660)
                      ....+.|++++|.+.|+.+..+     -....-..|+.+|.+.|++++|...+++.++++|.++.   ++...+-++.++
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~   97 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQ   97 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHH
Confidence            3345788888998888887652     23345667888999999999999999999999998764   333444444444


Q ss_pred             CC---------------hHHHHHHHHHHHhC
Q 048281          561 GK---------------YEEVLDIRHTMRQQ  576 (660)
Q Consensus       561 g~---------------~~~a~~~~~~~~~~  576 (660)
                      ..               ..+|..-|+.+.++
T Consensus        98 ~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~  128 (142)
T PF13512_consen   98 DEGSLQSFFRSDRDPTPARQAFRDFEQLVRR  128 (142)
T ss_pred             hhhHHhhhcccccCcHHHHHHHHHHHHHHHH
Confidence            33               55666666666553

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.36  E-value=1.8  Score=45.90  Aligned_cols=326  Identities=10%  Similarity=0.054  Sum_probs=179.2

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHH-hCC-CCCchHHHHHHHHHHc
Q 048281          205 AMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVK-MGY-DSGVPVMNALIDMYGK  282 (660)
Q Consensus       205 ~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~-~g~-~~~~~~~~~li~~~~~  282 (660)
                      .+|.-+...+.+..|+++-..+...-..- ...|.....-+.+..+.. -..+++.+.+ .+. ......|..+....-.
T Consensus       442 ~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~-d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~  519 (829)
T KOG2280|consen  442 VVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKM-DEEVLDKIDEKLSAKLTPGISYAAIARRAYQ  519 (829)
T ss_pred             hhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCcc-chHHHHHHHHHhcccCCCceeHHHHHHHHHh
Confidence            45666666777777777766664322111 444554444444443211 1122222211 111 1233455666666667


Q ss_pred             CCCHHHHHHHHHhcCCC--------ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHH
Q 048281          283 GKCVGEALEIFEMMEEK--------DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMH  354 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~  354 (660)
                      +|+.+-|..+++.=+..        +..-+...+.-..+.|+.+-...++-.|...   .+...|...+      .+...
T Consensus       520 ~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s~l~~~l------~~~p~  590 (829)
T KOG2280|consen  520 EGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRSSLFMTL------RNQPL  590 (829)
T ss_pred             cCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHHHHHHHH------Hhchh
Confidence            78888888877653321        2233455566667777777777777666543   2222232222      12234


Q ss_pred             HHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHh--cC-----CCCCHhHHHHHHHHHHhcCChH
Q 048281          355 GRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFT--KM-----SKKDVASWNIMILGYGMDGQGK  427 (660)
Q Consensus       355 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~--~~-----~~~~~~~~~~li~~~~~~g~~~  427 (660)
                      |..++....+..-...              +-+.|-. ++...+...|.  ..     ..+-..........+.+.....
T Consensus       591 a~~lY~~~~r~~~~~~--------------l~d~y~q-~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s  655 (829)
T KOG2280|consen  591 ALSLYRQFMRHQDRAT--------------LYDFYNQ-DDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKS  655 (829)
T ss_pred             hhHHHHHHHHhhchhh--------------hhhhhhc-ccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhh
Confidence            4444444443211110              1111211 11111111111  00     0111122223333444433311


Q ss_pred             ---H-------HHHHHHHHHH-cCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC
Q 048281          428 ---E-------ALDMFSCMCE-AKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ  496 (660)
Q Consensus       428 ---~-------A~~~~~~m~~-~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  496 (660)
                         +       -+.+.+.+.. .|..-...+.+--+.-+...|+..+|.++-.+.+     -||...|..=+.+++..++
T Consensus       656 ~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~k  730 (829)
T KOG2280|consen  656 FEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKK  730 (829)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhh
Confidence               1       1222222222 2334445566667777888899999988877663     3888999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          497 LNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       497 ~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      |++-+++-+...   .+.-|.-...+|.+.|+.++|.+.+-++-.        +.-...+|.+.|++.+|.++--+
T Consensus       731 weeLekfAkskk---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~--------l~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  731 WEELEKFAKSKK---SPIGYLPFVEACLKQGNKDEAKKYIPRVGG--------LQEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHHHHhccC---CCCCchhHHHHHHhcccHHHHhhhhhccCC--------hHHHHHHHHHhccHHHHHHHHHH
Confidence            999888877655   356677788999999999999888876422        22578889999999999887544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.35  E-value=0.23  Score=46.39  Aligned_cols=121  Identities=12%  Similarity=0.078  Sum_probs=87.5

Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHH---HHHHHHHcCCh
Q 048281          453 SACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRT---LLAASRLHGNT  529 (660)
Q Consensus       453 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---l~~~~~~~g~~  529 (660)
                      ......|+..+|...|+.....  .+-+...--.|+.+|...|+.+.|..++..++.+....-|..   -+..+.+..+.
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            3456778899999999988763  334456777889999999999999999999887433333333   33444444444


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          530 DLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       530 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+...+-+ -...+|+|...-..++..|...|+.++|.+.+-.+.++
T Consensus       220 ~~~~~l~~-~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         220 PEIQDLQR-RLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CCHHHHHH-HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44433333 34458999999999999999999999999988777554

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.32  E-value=0.032  Score=44.66  Aligned_cols=89  Identities=20%  Similarity=0.206  Sum_probs=72.6

Q ss_pred             HHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCC---cchHHHHHHHHHhCCCh
Q 048281          490 MLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLE-PGH---CGNYVLMSNIYVAGGKY  563 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~---~~~~~~l~~~~~~~g~~  563 (660)
                      +++..|+++.|++.|.+...  +.....||.-..+++-.|+.++|+.-+++++++. |..   ...|..-+.+|...|+-
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            56778899999998887543  5577889999999999999999999999999983 332   23577788889999999


Q ss_pred             HHHHHHHHHHHhCCC
Q 048281          564 EEVLDIRHTMRQQNV  578 (660)
Q Consensus       564 ~~a~~~~~~~~~~~~  578 (660)
                      +.|..-|....+.|-
T Consensus       132 d~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  132 DAARADFEAAAQLGS  146 (175)
T ss_pred             HHHHHhHHHHHHhCC
Confidence            999999998877664

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.22  E-value=0.022  Score=54.94  Aligned_cols=133  Identities=9%  Similarity=-0.036  Sum_probs=86.4

Q ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC-------CCC-
Q 048281          338 TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS-------KKD-  409 (660)
Q Consensus       338 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~-  409 (660)
                      .|..+-..|.-.|+++.+...++.-....-+....   ......+..|.+++.-.|+++.|.+.|....       .+. 
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDr---AaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~v  273 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDR---AAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTV  273 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhH---HHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhH
Confidence            34445555556788888888776543321111000   0014677788889999999999988887532       222 


Q ss_pred             -HhHHHHHHHHHHhcCChHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 048281          410 -VASWNIMILGYGMDGQGKEALDMFSCMCEA-----KLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       410 -~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                       ..+..+|...|.-..++++|+.++.+-..-     ...-....+-+|..++...|..++|+.+.+...+
T Consensus       274 EAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  274 EAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence             235556777887778888998887765431     1122345677888888888998988877766554

>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=96.18  E-value=0.073  Score=43.71  Aligned_cols=97  Identities=10%  Similarity=0.190  Sum_probs=60.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS  458 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  458 (660)
                      ..++.+++.++++.|+++....+.+..-..++.       +-...+.         --......|+..+..+++.+|+..
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            445566666666666666666655543211110       0000000         111234678888888888888888


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHH
Q 048281          459 GFLSQGREFLPLMESRYGVVPTIEHYTCVIDML  491 (660)
Q Consensus       459 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  491 (660)
                      |++..|+++.+...+.++++.+..+|..|++-.
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            888888888888888888877778887777643

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.98  E-value=0.0099  Score=44.41  Aligned_cols=61  Identities=13%  Similarity=0.132  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCC--------CCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPN--------EAN-PVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      .+++.+...|...|++++|++.|++...        .|+ ..++..+..++...|++++|++.+++++++
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3455566666666666666665554321        122 456777777888888888888888877654

...

>PRK11906 transcriptional regulator; Provisional

Probab=95.95  E-value=0.12  Score=51.78  Aligned_cols=65  Identities=12%  Similarity=0.044  Sum_probs=36.6

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          511 ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       511 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .|+.....+..+....++.+.|...|+++..++|+.+.+|...+++..-.|+.++|.+.+++..+
T Consensus       336 ~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr  400 (458)
T PRK11906        336 VDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQ  400 (458)
T ss_pred             CCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            44555555555555555555555556655555565555555555555555555555555555433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.82  E-value=1.4  Score=40.05  Aligned_cols=58  Identities=9%  Similarity=0.004  Sum_probs=24.3

Q ss_pred             HHHHHHcCChHHHHHHHHHHhhcCCCCC--HHHHHHHHHHHhcccchHHHHHHHHHHHHh
Q 048281          308 MTVHEQCGNHDGTLRLFDRMLSAGFQPD--LVTFSTVLPACSHLAALMHGRQIHGYIVVN  365 (660)
Q Consensus       308 i~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  365 (660)
                      ...+...|++.+|.+.|+.+........  ......+..++-+.|+++.|...++..++.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3344455555566655555554311110  112223334444445555555444444443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.71  E-value=1.7  Score=40.17  Aligned_cols=196  Identities=16%  Similarity=0.089  Sum_probs=131.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC-----CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS-----KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLS  453 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  453 (660)
                      ..........+...+.+..+...+....     ......+......+...+++..+...+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            3455566666777777777776666543     23445566666677777778888888888776533331 22222222


Q ss_pred             -HHhccCCHHHHHHHHHHhHHhcCC--CCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CC-CHHHHHHHHHHHHHcC
Q 048281          454 -ACSHSGFLSQGREFLPLMESRYGV--VPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EA-NPVVWRTLLAASRLHG  527 (660)
Q Consensus       454 -~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~~l~~~~~~~g  527 (660)
                       .+...|+++.+...+..... ...  ......+......+...++.++|...+.+...  +. ....+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc
Confidence             67788888888888888744 121  12334444455556778888888888877554  23 3567778888888888


Q ss_pred             ChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          528 NTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       528 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +.+.|...+.......|.....+..++..+...|.++++...+......
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8888999998888888875566677777777777788888888877654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.67  E-value=3.9  Score=44.04  Aligned_cols=158  Identities=11%  Similarity=0.070  Sum_probs=96.9

Q ss_pred             CchhhHHHHHHHhhccCChhHHHHH----HHHHHHhCC------------CCChhHHHHHHHHhHcCCChhHHHHHHccC
Q 048281           30 FTLATCIASLQLCAHQTNLQKGQEI----HSYMLRTGI------------IDSPLSITSLINMYSKCCQMKYALFVFNNL   93 (660)
Q Consensus        30 ~~~~~~~~ll~~~~~~~~~~~a~~~----~~~~~~~g~------------~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~   93 (660)
                      .+..+.++++.++...+.+-.-.-+    .+-+...+.            ....-....-++.+.+..-++-|..+-+..
T Consensus       281 ~s~ss~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~  360 (933)
T KOG2114|consen  281 LSNSSSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAKSQ  360 (933)
T ss_pred             cCccchhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHHhc
Confidence            5555667777777766654332222    222333330            112233455677777888888888877632


Q ss_pred             CCCCCcccHHHH----HHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCCh
Q 048281           94 SCEPNVFTYNAM----ISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDV  169 (660)
Q Consensus        94 ~~~~~~~~~~~l----i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~  169 (660)
                      ..  +...-..+    ..-+.+.|++++|...|-+-... +.|     ..++.-+.....+..-..+++.+.+.|+. +.
T Consensus       361 ~~--d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~  431 (933)
T KOG2114|consen  361 HL--DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NS  431 (933)
T ss_pred             CC--CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cc
Confidence            22  22222222    34455678899888888766532 333     34566666666777777788888888875 34


Q ss_pred             hHHHHHHHHhHhcCChHHHHHHHccCC
Q 048281          170 YIGSALVNTYLKCQFMEEALKVFEELP  196 (660)
Q Consensus       170 ~~~~~li~~~~~~g~~~~A~~~~~~~~  196 (660)
                      ..-..|+.+|.+.++.++-.++.+...
T Consensus       432 dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  432 DHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             hhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            444678888988888888887776665

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.54  E-value=0.83  Score=47.61  Aligned_cols=116  Identities=15%  Similarity=0.054  Sum_probs=73.3

Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC------CCCHHHHHHHHHHHHHcCChHH
Q 048281          458 SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN------EANPVVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~  531 (660)
                      ..+.+.|.+++..+.++  .+-+....-.-.+.+...|++++|++.|++...      +-....+--+...+....++++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            34667777777777653  322333333344556677788888888876442      1223345556667777888888


Q ss_pred             HHHHHHHHHhcCCCCcchHH-HHHHHHHhCCCh-------HHHHHHHHHHHh
Q 048281          532 AEIAAQRVFQLEPGHCGNYV-LMSNIYVAGGKY-------EEVLDIRHTMRQ  575 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~~~~~-~l~~~~~~~g~~-------~~a~~~~~~~~~  575 (660)
                      |...+.++.+....+...|. ..+-++...|+.       ++|.+++.++..
T Consensus       324 A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  324 AAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            88888888887665544444 344556677777       777788777643

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.

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.47  E-value=0.18  Score=43.17  Aligned_cols=71  Identities=15%  Similarity=0.153  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH----hcCCCCChHH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES----RYGVVPTIEH  483 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  483 (660)
                      ....++..+...|++++|+.+++.+.... +-|...|..+|.++...|+...|.++|+.+.+    .+|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34445566666777777777777777653 44566777777777777777777777766543    3466676654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.46  E-value=3.8  Score=42.47  Aligned_cols=419  Identities=12%  Similarity=0.059  Sum_probs=221.0

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCccc-HHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHH
Q 048281           98 NVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYT-FPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALV  176 (660)
Q Consensus        98 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  176 (660)
                      +...|+.+|.---+....+.+..++..+...  -|...- |......=.+.|..+.+.++|++.+.. ++.....|...+
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHH
Confidence            4445666666555555556666677766643  344332 233333345667888888888887764 556666666666


Q ss_pred             HHhH-hcCChHHHHHHHccCCC------CCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc--
Q 048281          177 NTYL-KCQFMEEALKVFEELPL------RDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIM--  247 (660)
Q Consensus       177 ~~~~-~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~--  247 (660)
                      ..+. ..|+.+.....|+....      .+...|...|.--..++++.....++++.++....-=...|.........  
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~  200 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNE  200 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCC
Confidence            5544 44667777777776553      25567888888888888889999998888763211101111111111111  


Q ss_pred             ---cCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCC-HHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHH
Q 048281          248 ---MGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKC-VGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRL  323 (660)
Q Consensus       248 ---~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  323 (660)
                         ....+.+.++-.......             .-...+. .+.-....+.+..+.              +..+++...
T Consensus       201 ~~~l~~~d~~~~l~~~~~~~~-------------~~~~~~~~~e~~~~~v~~~~~~s--------------~~l~~~~~~  253 (577)
T KOG1258|consen  201 EKILLSIDELIQLRSDVAERS-------------KITHSQEPLEELEIGVKDSTDPS--------------KSLTEEKTI  253 (577)
T ss_pred             hhhhcCHHHHHHHhhhHHhhh-------------hcccccChhHHHHHHHhhccCcc--------------chhhHHHHH
Confidence               011111111111110000             0000000 011111111111110              001111111


Q ss_pred             HHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHh
Q 048281          324 FDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFT  403 (660)
Q Consensus       324 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  403 (660)
                      ..+....    -..+|       -........+..++.-++....+- ..-..+....|...++--.+.|+.+.+.-+|+
T Consensus       254 l~~~~~~----~~~~~-------~~s~~~~~kr~~fE~~IkrpYfhv-kpl~~aql~nw~~yLdf~i~~g~~~~~~~l~e  321 (577)
T KOG1258|consen  254 LKRIVSI----HEKVY-------QKSEEEEEKRWGFEEGIKRPYFHV-KPLDQAQLKNWRYYLDFEITLGDFSRVFILFE  321 (577)
T ss_pred             HHHHHHH----HHHHH-------HhhHhHHHHHHhhhhhcccccccc-CcccHHHHHHHHHHhhhhhhcccHHHHHHHHH
Confidence            1110000    00000       000111111112222222111000 00012235677788888888999999999998


Q ss_pred             cCCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC
Q 048281          404 KMSKK---DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT  480 (660)
Q Consensus       404 ~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~  480 (660)
                      +..-|   -...|-..+.-....|+.+-|..++....+-.++-.+.+-..-..-+-..|+.+.|..+++.+.++  . |+
T Consensus       322 rcli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e--~-pg  398 (577)
T KOG1258|consen  322 RCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE--Y-PG  398 (577)
T ss_pred             HHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh--C-Cc
Confidence            87744   334566666666666888888888887776544333333222222345678999999999999884  4 55


Q ss_pred             h-HHHHHHHHHHhhcCCHHHHH---HHHHhCCC-CCCHHHHHHHH----H-HHHHcCChHHHHHHHHHHHhcCCCCcchH
Q 048281          481 I-EHYTCVIDMLGRAGQLNEAY---ELALAMPN-EANPVVWRTLL----A-ASRLHGNTDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       481 ~-~~~~~l~~~~~~~g~~~~A~---~~~~~~~~-~~~~~~~~~l~----~-~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                      . ..-..-+....+.|..+.+.   .++..... ..+..+...+.    + .+...++.+.|..++.++.+..|++...|
T Consensus       399 ~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~~~  478 (577)
T KOG1258|consen  399 LVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILLEANDILPDCKVLY  478 (577)
T ss_pred             hhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCccHHHH
Confidence            3 33334456667888888888   55544332 22222222222    1 24456889999999999999999998889


Q ss_pred             HHHHHHHHhCC
Q 048281          551 VLMSNIYVAGG  561 (660)
Q Consensus       551 ~~l~~~~~~~g  561 (660)
                      ..+.+.....+
T Consensus       479 ~~~~~~~~~~~  489 (577)
T KOG1258|consen  479 LELIRFELIQP  489 (577)
T ss_pred             HHHHHHHHhCC
Confidence            88888877665

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.46  E-value=0.031  Score=33.57  Aligned_cols=33  Identities=24%  Similarity=0.206  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      .+|..++.+|...|++++|+..|+++++++|++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcCC
Confidence            467788888888888899999998888888863

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.45  E-value=0.042  Score=32.91  Aligned_cols=33  Identities=24%  Similarity=0.287  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      ..|..+...+...|++++|++.++++++++|++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            356777888888888888888888888888864

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 ....

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.37  E-value=0.093  Score=52.35  Aligned_cols=63  Identities=13%  Similarity=0.048  Sum_probs=39.7

Q ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          480 TIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANP----VVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       480 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      +...++.+..+|.+.|++++|+..|++... .|+.    .+|..+..+|...|+.++|+..+++++++
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            345566666666666666666666666332 3432    24667777777777777777777777665

>PRK11906 transcriptional regulator; Provisional

Probab=95.30  E-value=0.91  Score=45.66  Aligned_cols=144  Identities=12%  Similarity=0.065  Sum_probs=98.1

Q ss_pred             hHHHHHHHHHHHH-cCCCCCH-HHHHHHHHHHh---------ccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc
Q 048281          426 GKEALDMFSCMCE-AKLKPDE-VTFVGVLSACS---------HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA  494 (660)
Q Consensus       426 ~~~A~~~~~~m~~-~g~~p~~-~~~~~ll~~~~---------~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  494 (660)
                      .+.|+.+|.+... ..+.|+- ..|..+..++.         ...+..+|.+.-+...+  --+.|......+..++.-.
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve--ld~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD--ITTVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHhh
Confidence            4567778888772 2245553 33333332221         12345567777777765  3445677778888888888


Q ss_pred             CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHH--HHHhCCChHHHHHHH
Q 048281          495 GQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSN--IYVAGGKYEEVLDIR  570 (660)
Q Consensus       495 g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~--~~~~~g~~~~a~~~~  570 (660)
                      |+++.|...|++...  +....+|......+...|+.++|.+.++++++++|....+-..-.+  .|+. ..+++|++++
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~-~~~~~~~~~~  430 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVP-NPLKNNIKLY  430 (458)
T ss_pred             cchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcC-CchhhhHHHH
Confidence            889999999998654  4456688888888888999999999999999999986544333223  4444 4578888877


Q ss_pred             HH
Q 048281          571 HT  572 (660)
Q Consensus       571 ~~  572 (660)
                      -+
T Consensus       431 ~~  432 (458)
T PRK11906        431 YK  432 (458)
T ss_pred             hh
Confidence            54

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.27  E-value=2.2  Score=38.72  Aligned_cols=201  Identities=12%  Similarity=0.025  Sum_probs=110.4

Q ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC--HhHHHH
Q 048281          338 TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKD--VASWNI  415 (660)
Q Consensus       338 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~  415 (660)
                      .|.....++....+++++...+....+- .+.+        ...|.       ....++.|.-+.+++.+-+  +..|+.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~-yEnn--------rslfh-------AAKayEqaamLake~~klsEvvdl~eK   96 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKG-YENN--------RSLFH-------AAKAYEQAAMLAKELSKLSEVVDLYEK   96 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhc--------ccHHH-------HHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            3444445566667777777655555422 1111        11111       1222344444444444322  234556


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC----CCCChHHHHHHHHHH
Q 048281          416 MILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYG----VVPTIEHYTCVIDML  491 (660)
Q Consensus       416 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~  491 (660)
                      -...|..+|.++.|-..+++.-+.                ...-++++|+++|++...-..    .+.-...+....+.|
T Consensus        97 As~lY~E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~l  160 (308)
T KOG1585|consen   97 ASELYVECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVL  160 (308)
T ss_pred             HHHHHHHhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHh
Confidence            677788888888777766665431                111234444444444432100    111123455566677


Q ss_pred             hhcCCHHHHHHHHHhCCC-------CCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCCCcchHHHHHHHHHh
Q 048281          492 GRAGQLNEAYELALAMPN-------EANP-VVWRTLLAASRLHGNTDLAEIAAQRVFQL----EPGHCGNYVLMSNIYVA  559 (660)
Q Consensus       492 ~~~g~~~~A~~~~~~~~~-------~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~p~~~~~~~~l~~~~~~  559 (660)
                      .+..++++|-..+.+-..       -++. ..+-+.+-.+....++..|++.++..-+.    .|++..+...|+..| .
T Consensus       161 Vrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d  239 (308)
T KOG1585|consen  161 VRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-D  239 (308)
T ss_pred             hhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-c
Confidence            888888887776654321       1232 23455555666677899999999886553    455666677777766 5


Q ss_pred             CCChHHHHHHHH
Q 048281          560 GGKYEEVLDIRH  571 (660)
Q Consensus       560 ~g~~~~a~~~~~  571 (660)
                      .|+.+++.+++.
T Consensus       240 ~gD~E~~~kvl~  251 (308)
T KOG1585|consen  240 EGDIEEIKKVLS  251 (308)
T ss_pred             cCCHHHHHHHHc
Confidence            678888877654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.27  E-value=1.8  Score=40.70  Aligned_cols=148  Identities=11%  Similarity=0.043  Sum_probs=104.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ  496 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  496 (660)
                      .......|+..+|..+|+...... +-+...-..+..+|...|+.+.|..++..+-.+ --.........-+..+.+...
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~  218 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAA  218 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhc
Confidence            345678899999999999998763 233456667888999999999999999987542 111112222334566666666


Q ss_pred             HHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCCcchHHHHHHHHHhCCChHHH
Q 048281          497 LNEAYELALAMPNEA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLE--PGHCGNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       497 ~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~a  566 (660)
                      ..+...+-.+....| |...-..+...+...|+.+.|...+-.+++.+  -.+...-..+..++.-.|.-+.+
T Consensus       219 ~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         219 TPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHH
Confidence            666666665555444 67777888899999999999998888877753  34566777888888877755544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.19  E-value=7.1  Score=43.99  Aligned_cols=27  Identities=19%  Similarity=0.233  Sum_probs=15.2

Q ss_pred             hHHHHHHHHHHcCC--CHHHHHHHHHhcC
Q 048281          271 PVMNALIDMYGKGK--CVGEALEIFEMME  297 (660)
Q Consensus       271 ~~~~~li~~~~~~~--~~~~A~~~~~~~~  297 (660)
                      .....+|..|.+.+  .++.|+....++.
T Consensus       791 ~~~~~ilTs~vk~~~~~ie~aL~kI~~l~  819 (1265)
T KOG1920|consen  791 KFNLFILTSYVKSNPPEIEEALQKIKELQ  819 (1265)
T ss_pred             hhhHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            33445666666665  4555655555544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.12  E-value=0.23  Score=45.92  Aligned_cols=57  Identities=14%  Similarity=0.041  Sum_probs=31.4

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCC---cchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQLEPGH---CGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      |+.++...|+++.|...|..+.+-.|++   |+.+.-|+.+..+.|+.++|...++++.+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            4555555555555555555555543332   34555555566666666666666665544

>PRK15331 chaperone protein SicA; Provisional

Probab=95.08  E-value=0.54  Score=40.10  Aligned_cols=87  Identities=9%  Similarity=0.023  Sum_probs=42.4

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHH
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNE  499 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  499 (660)
                      +.+.|++++|..+|+-+...+ .-|..-+..|..+|-..+++++|...|..... .. .-|+..+-....+|...|+.+.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~-l~-~~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFT-LL-KNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-cc-cCCCCccchHHHHHHHhCCHHH
Confidence            345566666666666555432 12233333444444455566666666655543 11 2233333344555555566555


Q ss_pred             HHHHHHhCCC
Q 048281          500 AYELALAMPN  509 (660)
Q Consensus       500 A~~~~~~~~~  509 (660)
                      |..-|+....
T Consensus       124 A~~~f~~a~~  133 (165)
T PRK15331        124 ARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHh
Confidence            5555555443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.98  E-value=6.5  Score=44.29  Aligned_cols=92  Identities=15%  Similarity=0.187  Sum_probs=48.1

Q ss_pred             HHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHH--HHHHHHHHhcccchHHH
Q 048281          278 DMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVT--FSTVLPACSHLAALMHG  355 (660)
Q Consensus       278 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t--~~~ll~~~~~~~~~~~a  355 (660)
                      -+|.++|+.++|.+.+                  ...|+|.+|+.+-.+|...   -|...  -..|..-+...+.+-+|
T Consensus       960 l~Ye~~GklekAl~a~------------------~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eA 1018 (1265)
T KOG1920|consen  960 LMYERCGKLEKALKAY------------------KECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEA 1018 (1265)
T ss_pred             HHHHHhccHHHHHHHH------------------HHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhH
Confidence            3455566666665544                  3467777777777766531   12211  13444455555555555


Q ss_pred             HHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 048281          356 RQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS  406 (660)
Q Consensus       356 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  406 (660)
                      -++......                -..-.+..|++...+++|.++-....
T Consensus      1019 a~il~e~~s----------------d~~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1019 AKILLEYLS----------------DPEEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHhc----------------CHHHHHHHHhhHhHHHHHHHHHHhcc
Confidence            554443311                11234455666667777776655444

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.86  E-value=0.28  Score=45.15  Aligned_cols=110  Identities=18%  Similarity=0.202  Sum_probs=84.4

Q ss_pred             HHHHHhcCC--CCCHhHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC-----------
Q 048281          398 AQMVFTKMS--KKDVASWNIMILGYGMD-----GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSG-----------  459 (660)
Q Consensus       398 A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-----------  459 (660)
                      .++.|....  ++|-.+|-+++..+...     +.++-....++.|.+.|+.-|..+|..||..+-+..           
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            355666666  66888888888887654     456777778999999999999999999999876543           


Q ss_pred             -----CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCH-HHHHHHHHhCC
Q 048281          460 -----FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQL-NEAYELALAMP  508 (660)
Q Consensus       460 -----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~  508 (660)
                           .-+-++.++++|.. +|+.||..+-..|++++++.+.. .+..++.--|+
T Consensus       133 ~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             hhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence                 22347889999998 69999999999999999998864 33444444443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.60  E-value=0.63  Score=47.76  Aligned_cols=134  Identities=19%  Similarity=0.286  Sum_probs=85.2

Q ss_pred             HHHHhcCChHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC
Q 048281          418 LGYGMDGQGKEALDMFSCMC-EAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ  496 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  496 (660)
                      ....-.++++++.++.+.-. -..+ | ..-...++.-+.+.|..+.|+++...-..+             .+...++|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i-~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~~r-------------FeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNI-P-KDQGQSIARFLEKKGYPELALQFVTDPDHR-------------FELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHHH-------------HHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccC-C-hhHHHHHHHHHHHCCCHHHHHhhcCChHHH-------------hHHHHhcCC
Confidence            34455677888776664111 1112 2 344667777788888888888776654443             345568899


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          497 LNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       497 ~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ++.|.++.++..   ++..|..|.......|+.+.|+++|.+.-        -+..|.-+|...|+.+.-.++.+....+
T Consensus       334 L~~A~~~a~~~~---~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~--------d~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  334 LDIALEIAKELD---DPEKWKQLGDEALRQGNIELAEECYQKAK--------DFSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHHCCCCS---THHHHHHHHHHHHHTTBHHHHHHHHHHCT---------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcC---cHHHHHHHHHHHHHcCCHHHHHHHHHhhc--------CccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            999888876654   67789999999999999999988888732        2667777888888877777777666655


Q ss_pred             C
Q 048281          577 N  577 (660)
Q Consensus       577 ~  577 (660)
                      |
T Consensus       403 ~  403 (443)
T PF04053_consen  403 G  403 (443)
T ss_dssp             T
T ss_pred             c
Confidence            4

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.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.60  E-value=7.8  Score=41.56  Aligned_cols=102  Identities=12%  Similarity=0.109  Sum_probs=58.9

Q ss_pred             HHHHhhhCCHHHHHHHHHHHHHhCCCC---ChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChh
Q 048281          141 IKCCCDVMAVLEVKKIHGLVFKLGLDL---DVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFH  217 (660)
Q Consensus       141 l~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~  217 (660)
                      ++.+.+.+.+++|..+.+...  |..|   ...++...|..+.-.|++++|-...-.|...+..-|.-.+..+...++..
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~--~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASI--GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhcc--CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccc
Confidence            344455566666665544332  2222   23456667777777788888887777777777777777777776666655


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 048281          218 KALEVFRRMSKEGIWMSRFTVTGVLSALIM  247 (660)
Q Consensus       218 ~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~  247 (660)
                      ....++=   ......+...|..++-.+..
T Consensus       441 ~Ia~~lP---t~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  441 DIAPYLP---TGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hhhccCC---CCCcccCchHHHHHHHHHHH
Confidence            4433321   11112344556666655554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.57  E-value=0.3  Score=45.23  Aligned_cols=89  Identities=19%  Similarity=0.148  Sum_probs=52.1

Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCC---hHHHHHHHHHHhhcCCHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHHcCCh
Q 048281          458 SGFLSQGREFLPLMESRYGVVPT---IEHYTCVIDMLGRAGQLNEAYELALAMPN-----EANPVVWRTLLAASRLHGNT  529 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~  529 (660)
                      .|++..|.+.|...+++  .+-+   ...+-.|..++...|++++|..+|..+..     +.-+..+.-|.......|+.
T Consensus       154 sgdy~~A~~~F~~fi~~--YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~  231 (262)
T COG1729         154 SGDYAEAEQAFQAFIKK--YPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNT  231 (262)
T ss_pred             cCCHHHHHHHHHHHHHc--CCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCH
Confidence            35566666666666552  2221   23344566666666666666666654432     12234556666666777777


Q ss_pred             HHHHHHHHHHHhcCCCCcc
Q 048281          530 DLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       530 ~~A~~~~~~~~~~~p~~~~  548 (660)
                      ++|...++++.+.-|+.+.
T Consensus       232 d~A~atl~qv~k~YP~t~a  250 (262)
T COG1729         232 DEACATLQQVIKRYPGTDA  250 (262)
T ss_pred             HHHHHHHHHHHHHCCCCHH
Confidence            7777777777777776543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.51  E-value=0.46  Score=45.45  Aligned_cols=194  Identities=8%  Similarity=0.054  Sum_probs=116.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHh-------cCCCC--CHhHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCC---H
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFT-------KMSKK--DVASWNIMILGYGMDGQGKEALDMFSCMCEA-KLKPD---E  445 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~-------~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~---~  445 (660)
                      ..++..+.++.++.|.+++++..--       +....  -..+|..+.+++-+.-++.+++.+-+.-... |..|-   .
T Consensus        43 f~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~g  122 (518)
T KOG1941|consen   43 FRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGG  122 (518)
T ss_pred             HHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccc
Confidence            3455556666777777666554321       11111  1235666666666666666666665544432 22231   1


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC-----CChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-----C-CCH-
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVV-----PTIEHYTCVIDMLGRAGQLNEAYELALAMPN-----E-ANP-  513 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~-~~~-  513 (660)
                      ....++..+....+.++++++.|+.+.+- ...     ....++..|...|.+..+.++|.-+..+...     . .|. 
T Consensus       123 q~~l~~~~Ahlgls~fq~~Lesfe~A~~~-A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~  201 (518)
T KOG1941|consen  123 QVSLSMGNAHLGLSVFQKALESFEKALRY-AHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWS  201 (518)
T ss_pred             hhhhhHHHHhhhHHHHHHHHHHHHHHHHH-hhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchh
Confidence            22333445666667788888888887652 211     1235788889999999998888766554321     0 121 


Q ss_pred             HHH-----HHHHHHHHHcCChHHHHHHHHHHHhc--CCCC----cchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          514 VVW-----RTLLAASRLHGNTDLAEIAAQRVFQL--EPGH----CGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       514 ~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                      .-|     ..+.-+++..|....|.+..+++.++  ...|    +.....++++|...|+.+.|..-++..
T Consensus       202 ~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  202 LKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            122     23455788888888888888888775  3333    334457888999999888877666544

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=94.45  E-value=0.34  Score=39.79  Aligned_cols=93  Identities=13%  Similarity=0.122  Sum_probs=54.0

Q ss_pred             CHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhc--CCCCCHhH
Q 048281          335 DLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTK--MSKKDVAS  412 (660)
Q Consensus       335 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~--~~~~~~~~  412 (660)
                      |..++..++.++++.|+++....+.+..-  |+..++.....                 .       +..  -..|+..+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~~~~-----------------~-------~~~~spl~Pt~~l   54 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKKKEG-----------------D-------YPPSSPLYPTSRL   54 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCccccC-----------------c-------cCCCCCCCCCHHH
Confidence            45677778888888888887777765442  33333211100                 0       000  11355666


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH-cCCCCCHHHHHHHHH
Q 048281          413 WNIMILGYGMDGQGKEALDMFSCMCE-AKLKPDEVTFVGVLS  453 (660)
Q Consensus       413 ~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~~~~~ll~  453 (660)
                      ..+++.+|+.+|++..|+++++...+ -+++.+..+|..|+.
T Consensus        55 L~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   55 LIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            66666666666777777776666654 355556667777765

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.44  E-value=2.7  Score=35.51  Aligned_cols=123  Identities=11%  Similarity=-0.002  Sum_probs=57.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc
Q 048281          415 IMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA  494 (660)
Q Consensus       415 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  494 (660)
                      .++..+.+.+.......+++.+...+ ..+...++.++..|++. +..+..+.+..  .     .+.......++.+.+.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~-~~~~ll~~l~~--~-----~~~yd~~~~~~~c~~~   82 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY-DPQKEIERLDN--K-----SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH-CHHHHHHHHHh--c-----cccCCHHHHHHHHHHc
Confidence            44555555556666666666666554 24445555566655543 22333333331  0     1112223345555555


Q ss_pred             CCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-CChHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 048281          495 GQLNEAYELALAMPNEANPVVWRTLLAASRLH-GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIY  557 (660)
Q Consensus       495 g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  557 (660)
                      +.++++.-++.++..      +...+..+..+ ++.+.|++.+.+     +.++..|..++..+
T Consensus        83 ~l~~~~~~l~~k~~~------~~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~  135 (140)
T smart00299       83 KLYEEAVELYKKDGN------FKDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKAL  135 (140)
T ss_pred             CcHHHHHHHHHhhcC------HHHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHH
Confidence            556666666655542      11122222233 556666665554     23344455554443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.29  E-value=1.1  Score=45.96  Aligned_cols=157  Identities=13%  Similarity=0.032  Sum_probs=95.9

Q ss_pred             HHHHcCCChhHHHHHHH--HHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCC
Q 048281          107 SGFYSNDFAFKGLDFFN--HMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQF  184 (660)
Q Consensus       107 ~~~~~~~~~~~a~~~~~--~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  184 (660)
                      +...-.++++.+.++.+  ++.. .+  .....+.++..+-+.|..+.|.++...-            ..-.+...++|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCC
Confidence            34455677777666654  1221 12  2344777888888888888888874322            123455678899


Q ss_pred             hHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHh
Q 048281          185 MEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKM  264 (660)
Q Consensus       185 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  264 (660)
                      ++.|.++.++..  +...|..|.....++|+++-|.+.|.+...         +..++-.|...|+.+.-.++.+.....
T Consensus       334 L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  334 LDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            999998877666  566899999999999999999999887643         556666677777777776666666655


Q ss_pred             CCCCCchHHHHHHHHHHcCCCHHHHHHHHHh
Q 048281          265 GYDSGVPVMNALIDMYGKGKCVGEALEIFEM  295 (660)
Q Consensus       265 g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  295 (660)
                      |-      ++.-..++.-.|+.++..+++.+
T Consensus       403 ~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  403 GD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             cC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            51      34444445555666666655544

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.26  E-value=0.5  Score=44.75  Aligned_cols=159  Identities=13%  Similarity=0.039  Sum_probs=112.5

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHH----HHHHHHhhcCCH
Q 048281          422 MDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYT----CVIDMLGRAGQL  497 (660)
Q Consensus       422 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~  497 (660)
                      -+|+..+|...++++.+. .+.|...+...=.+|...|+...-...++.+..  ...++...|.    .+.-++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            468888888899998876 466777788778899999999998888888875  3345543333    344455689999


Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC----cchHHHHHHHHHhCCChHHHHHHHH
Q 048281          498 NEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH----CGNYVLMSNIYVAGGKYEEVLDIRH  571 (660)
Q Consensus       498 ~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~~~a~~~~~  571 (660)
                      ++|++.-++...  +.|.-.-.+....+...|+..++.+...+-...-...    ...|-..+-.+.+.+.++.|+++|+
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            999999988765  4455556667777888899988888776643321111    1245566667778899999999998


Q ss_pred             HHHhCCCccCCc
Q 048281          572 TMRQQNVRKNPG  583 (660)
Q Consensus       572 ~~~~~~~~~~~~  583 (660)
                      .=.-....++.+
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            754444444443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.25  E-value=3.8  Score=36.57  Aligned_cols=163  Identities=13%  Similarity=0.078  Sum_probs=93.3

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      +..||-+.--+...|+++.|.+.|+...+....-+-...|. .-++.-.|++.-|.+-+-..-+.-.-.|=...|--+. 
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNR-gi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~-  176 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNR-GIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN-  176 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcc-ceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHH-
Confidence            45778888888888888888888888877532222111221 1234456788888776666544212222222332222 


Q ss_pred             HHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------cchHHHHHHHHHhCCC
Q 048281          490 MLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH-------CGNYVLMSNIYVAGGK  562 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~  562 (660)
                        .+.-+..+|..-+.+--...|..-|...+-.+.- |+.. .+.+++++.+-..++       .++|.-|+.-|...|.
T Consensus       177 --E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~  252 (297)
T COG4785         177 --EQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLGD  252 (297)
T ss_pred             --HhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhcccc
Confidence              2344566665544332223455566655544432 2211 123344443332232       3678899999999999


Q ss_pred             hHHHHHHHHHHHhCCC
Q 048281          563 YEEVLDIRHTMRQQNV  578 (660)
Q Consensus       563 ~~~a~~~~~~~~~~~~  578 (660)
                      .++|..+|+.....++
T Consensus       253 ~~~A~~LfKLaiannV  268 (297)
T COG4785         253 LDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHHHHhH
Confidence            9999999998876544

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.20  E-value=4.1  Score=39.36  Aligned_cols=126  Identities=14%  Similarity=0.059  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCC-------C--CHhHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCCHHH
Q 048281          381 MNNALMDMYTKCGSMRDAQMVFTKMSK-------K--DVASWNIMILGYGMDGQGKEALDMFSCMCEA----KLKPDEVT  447 (660)
Q Consensus       381 ~~~~li~~~~~~g~~~~A~~~~~~~~~-------~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~~  447 (660)
                      ....+..++.-.+.++.+++.|+...+       +  ....+-.|...|.+..++++|+-+..+..+.    ++.--..-
T Consensus       124 ~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~k  203 (518)
T KOG1941|consen  124 VSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLK  203 (518)
T ss_pred             hhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHH
Confidence            344456666666677777777765431       1  2235667777788888888887776665532    22222222


Q ss_pred             HHH-----HHHHHhccCCHHHHHHHHHHhHHh---cCCCCC-hHHHHHHHHHHhhcCCHHHHHHHHHh
Q 048281          448 FVG-----VLSACSHSGFLSQGREFLPLMESR---YGVVPT-IEHYTCVIDMLGRAGQLNEAYELALA  506 (660)
Q Consensus       448 ~~~-----ll~~~~~~g~~~~a~~~~~~~~~~---~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~  506 (660)
                      |..     +.-++...|.+..|.+.-++..+-   .|-.+. ......+.+.|-..|+.|.|+.-|+.
T Consensus       204 yr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  204 YRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHH
Confidence            222     233566677777777777665541   133222 34556778888888888888877765

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.19  E-value=2.5  Score=41.82  Aligned_cols=33  Identities=15%  Similarity=0.234  Sum_probs=23.1

Q ss_pred             CChhhHHHHHHHHHccCCchhHHHHHHHHHHhC
Q 048281          233 MSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMG  265 (660)
Q Consensus       233 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  265 (660)
                      .|-..+.+++.++.-.|+.+.|.+..+.|.+..
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            444566677777777777777777777777663

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.16  E-value=0.31  Score=42.54  Aligned_cols=87  Identities=17%  Similarity=0.134  Sum_probs=65.1

Q ss_pred             HhhcCCHHHHHHHHHhCCC--C-----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCCh
Q 048281          491 LGRAGQLNEAYELALAMPN--E-----ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKY  563 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  563 (660)
                      +.+.|++++|..-|.....  +     -..+.|..-..+..+.+.++.|+.-..++++++|....+....+.+|.+..++
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~  184 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY  184 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH
Confidence            4455666666665554322  1     12345555566788889999999999999999998877788888899999999


Q ss_pred             HHHHHHHHHHHhCC
Q 048281          564 EEVLDIRHTMRQQN  577 (660)
Q Consensus       564 ~~a~~~~~~~~~~~  577 (660)
                      ++|+.-++++.+..
T Consensus       185 eealeDyKki~E~d  198 (271)
T KOG4234|consen  185 EEALEDYKKILESD  198 (271)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999987754

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.10  E-value=2.2  Score=43.18  Aligned_cols=193  Identities=12%  Similarity=0.062  Sum_probs=107.4

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHH
Q 048281          422 MDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAY  501 (660)
Q Consensus       422 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  501 (660)
                      +..+...-++.-++..+  +.||-.+.-.+ -+--....+.++.+++++..+. +    ...+..-- .....|.   ..
T Consensus       180 RERnp~aRIkaA~eALe--i~pdCAdAYIL-LAEEeA~Ti~Eae~l~rqAvkA-g----E~~lg~s~-~~~~~g~---~~  247 (539)
T PF04184_consen  180 RERNPQARIKAAKEALE--INPDCADAYIL-LAEEEASTIVEAEELLRQAVKA-G----EASLGKSQ-FLQHHGH---FW  247 (539)
T ss_pred             hcCCHHHHHHHHHHHHH--hhhhhhHHHhh-cccccccCHHHHHHHHHHHHHH-H----HHhhchhh-hhhcccc---hh
Confidence            44566666677777766  45665433222 2333445678888888887662 1    00110000 0001111   11


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--CcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048281          502 ELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG--HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVR  579 (660)
Q Consensus       502 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  579 (660)
                      +.+..-..++-..+-..+..++.+.|+.++|++.++.+++..|.  +-.....|+..+...+++.++..++.+..+...+
T Consensus       248 e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lp  327 (539)
T PF04184_consen  248 EAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLP  327 (539)
T ss_pred             hhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCC
Confidence            11111111233445566788889999999999999999987765  3457788999999999999999999987654443


Q ss_pred             cCCcEEEEEECCEEEEEE-eCCCCCCC-------HHHHHHHHHHHHHHHHHcCcccCc
Q 048281          580 KNPGCSWIELKDGLHTFI-SSDRSHPE-------AKSIYAELHSLTARLREHGDCCAG  629 (660)
Q Consensus       580 ~~~~~~~~~~~~~~~~~~-~~~~~~~~-------~~~~~~~~~~l~~~m~~~~~~p~~  629 (660)
                      +....+|..   ++-.+. .+++..|+       .....+.++.+.+.++..-.+|..
T Consensus       328 kSAti~YTa---ALLkaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~Y  382 (539)
T PF04184_consen  328 KSATICYTA---ALLKARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPKY  382 (539)
T ss_pred             chHHHHHHH---HHHHHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCchh
Confidence            333222211   000000 11222222       223344556667777777777764

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.97  E-value=0.27  Score=45.24  Aligned_cols=89  Identities=17%  Similarity=0.102  Sum_probs=66.2

Q ss_pred             CCCcccHHHHHHHHHcC-----CChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhC----------------CHHHHH
Q 048281           96 EPNVFTYNAMISGFYSN-----DFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVM----------------AVLEVK  154 (660)
Q Consensus        96 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~----------------~~~~a~  154 (660)
                      +.|-.+|-..+..+...     +..+=....++.|.+.|+.-|..+|+.||+.+-+..                +-+=++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            45666676666666433     455556677888899999999999999988875542                223467


Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHhHhcCC
Q 048281          155 KIHGLVFKLGLDLDVYIGSALVNTYLKCQF  184 (660)
Q Consensus       155 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  184 (660)
                      .++++|...|+.||..+-..|++++++.+.
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            888888888998998888888888877765

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.85  E-value=5.4  Score=36.87  Aligned_cols=170  Identities=14%  Similarity=0.074  Sum_probs=89.1

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCC------CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhcc
Q 048281          386 MDMYTKCGSMRDAQMVFTKMSKK------DVASWNIMILGYGMDGQGKEALDMFSCMCEAK-LKPDEVTFVGVLSACSHS  458 (660)
Q Consensus       386 i~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~  458 (660)
                      +..-.+.|++++|.+.|+.+...      ...+--.++-++.+.+++++|+..+++....- -.|| .-|...|.+++.-
T Consensus        41 g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~YlkgLs~~  119 (254)
T COG4105          41 GLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYYLKGLSYF  119 (254)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHh
Confidence            33445667777777777776632      12234445556667777777777777776642 2222 2333333333311


Q ss_pred             -------CCHH---HHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHH--HHHHHHHHHHc
Q 048281          459 -------GFLS---QGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVV--WRTLLAASRLH  526 (660)
Q Consensus       459 -------g~~~---~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~l~~~~~~~  526 (660)
                             .|..   .|..-|++++.++   |+.             .-..+|...+..+.   |...  =.++...|.+.
T Consensus       120 ~~i~~~~rDq~~~~~A~~~f~~~i~ry---PnS-------------~Ya~dA~~~i~~~~---d~LA~~Em~IaryY~kr  180 (254)
T COG4105         120 FQIDDVTRDQSAARAAFAAFKELVQRY---PNS-------------RYAPDAKARIVKLN---DALAGHEMAIARYYLKR  180 (254)
T ss_pred             ccCCccccCHHHHHHHHHHHHHHHHHC---CCC-------------cchhhHHHHHHHHH---HHHHHHHHHHHHHHHHh
Confidence                   1222   2233333333321   111             11111111111110   1110  12345678888


Q ss_pred             CChHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          527 GNTDLAEIAAQRVFQLEPGHC---GNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       527 g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      |.+..|..-++++++.-|+.+   +.+..+..+|...|..++|.+.-+-+..
T Consensus       181 ~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         181 GAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             cChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            888888888888888755443   3555667778888888888877665543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.80  E-value=8.8  Score=39.11  Aligned_cols=16  Identities=19%  Similarity=0.235  Sum_probs=10.6

Q ss_pred             CCChHHHHHHHHHHHh
Q 048281          560 GGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       560 ~g~~~~a~~~~~~~~~  575 (660)
                      -.+.+.|+.++....+
T Consensus       415 Wk~veGAL~lL~~twe  430 (539)
T PF04184_consen  415 WKRVEGALNLLHCTWE  430 (539)
T ss_pred             HhcCHhHHHHHHHHhc
Confidence            3566777777776654

The molecular function of this protein is uncertain.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=93.70  E-value=5.6  Score=36.55  Aligned_cols=197  Identities=15%  Similarity=0.048  Sum_probs=128.6

Q ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHHHh-CccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-CHhH
Q 048281          337 VTFSTVLPACSHLAALMHGRQIHGYIVVN-GLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK--K-DVAS  412 (660)
Q Consensus       337 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~  412 (660)
                      ..+......+...+....+...+...... .....        ...+......+...+....+.+.+.....  + +...
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNL--------AEALLNLGLLLEALGKYEEALELLEKALALDPDPDLA  131 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccch--------HHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchH
Confidence            33444444445555555555554444432 11111        44555566666666777777777776553  2 1122


Q ss_pred             HHHHHH-HHHhcCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-ChHHHHH
Q 048281          413 WNIMIL-GYGMDGQGKEALDMFSCMCEAKLKP----DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVP-TIEHYTC  486 (660)
Q Consensus       413 ~~~li~-~~~~~g~~~~A~~~~~~m~~~g~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~  486 (660)
                      ...... .+...|+++.|...+.+...  ..|    ....+......+...++.+.+...+.....  .... ....+..
T Consensus       132 ~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~  207 (291)
T COG0457         132 EALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKALK--LNPDDDAEALLN  207 (291)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh--hCcccchHHHHH
Confidence            333333 68888999999999999865  233    233344444446778899999999999876  3334 4678888


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          487 VIDMLGRAGQLNEAYELALAMPN-EAN-PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      +...+...++++.|...+..... .|+ ...+..+...+...+..+.+...+.+..+..|.
T Consensus       208 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         208 LGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             hhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            88899999999999999888654 333 455566666666777899999999999998886

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.68  E-value=5.5  Score=36.36  Aligned_cols=145  Identities=13%  Similarity=0.104  Sum_probs=81.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----CCHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLK-----PDEVTFVGVLS  453 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-----p~~~~~~~ll~  453 (660)
                      ...++--..+|..+|..+-|-..+++.-            -...+.++++|+++|++....=..     .-...+..+-.
T Consensus        91 vdl~eKAs~lY~E~GspdtAAmaleKAa------------k~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr  158 (308)
T KOG1585|consen   91 VDLYEKASELYVECGSPDTAAMALEKAA------------KALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSR  158 (308)
T ss_pred             HHHHHHHHHHHHHhCCcchHHHHHHHHH------------HHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhh
Confidence            4456666777778887776666555431            123445667777777665532100     01122333444


Q ss_pred             HHhccCCHHHHHHHHHHhHH---hcCCCCCh-HHHHHHHHHHhhcCCHHHHHHHHHh---CCC---CCCHHHHHHHHHHH
Q 048281          454 ACSHSGFLSQGREFLPLMES---RYGVVPTI-EHYTCVIDMLGRAGQLNEAYELALA---MPN---EANPVVWRTLLAAS  523 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~---~~~---~~~~~~~~~l~~~~  523 (660)
                      .+.+...+++|-..+..-..   ...--++. ..|.+.|-.|.-..++..|.+.++.   ++.   +.+..+...|+.+|
T Consensus       159 ~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay  238 (308)
T KOG1585|consen  159 VLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY  238 (308)
T ss_pred             HhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh
Confidence            55666666665544433211   00111222 4466666677778889999999887   332   24556777788777


Q ss_pred             HHcCChHHHHHHH
Q 048281          524 RLHGNTDLAEIAA  536 (660)
Q Consensus       524 ~~~g~~~~A~~~~  536 (660)
                      - .|+.+++..++
T Consensus       239 d-~gD~E~~~kvl  250 (308)
T KOG1585|consen  239 D-EGDIEEIKKVL  250 (308)
T ss_pred             c-cCCHHHHHHHH
Confidence            4 47777665554

>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=93.57  E-value=3.8  Score=35.44  Aligned_cols=138  Identities=14%  Similarity=0.108  Sum_probs=88.2

Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCC--CHHHHHHHHHhcC
Q 048281          220 LEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGK--CVGEALEIFEMME  297 (660)
Q Consensus       220 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~--~~~~A~~~~~~~~  297 (660)
                      ++.++.+.+.+++|+...+..+++.+.+.|++..-    .+++..++-+|.......+-.+....  -..-|.+++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            45666777788889988999999999988876543    34456666565554443332222211  1334555555543


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccC
Q 048281          298 EKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAK  369 (660)
Q Consensus       298 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  369 (660)
                          ..+..++..+...|++-+|+++.+.....    +......++.+..+.+|...-..++......+...
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n~~~  153 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEERNLRL  153 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhhHhh
Confidence                24566778888999999999998875322    22233556777777777776666777666655443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.40  E-value=4.2  Score=34.25  Aligned_cols=86  Identities=10%  Similarity=0.081  Sum_probs=41.8

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHh
Q 048281          102 YNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLK  181 (660)
Q Consensus       102 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  181 (660)
                      ...++..+...+.+.....+++.+...+. .+...++.++..+++.+. ......+.   .   ..+.+.....+..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~---~---~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLD---N---KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHH---h---ccccCCHHHHHHHHHH
Confidence            34555666656666666666666665542 355556666666654422 22222222   1   1222333334555555


Q ss_pred             cCChHHHHHHHccC
Q 048281          182 CQFMEEALKVFEEL  195 (660)
Q Consensus       182 ~g~~~~A~~~~~~~  195 (660)
                      .+.++++..++.++
T Consensus        82 ~~l~~~~~~l~~k~   95 (140)
T smart00299       82 AKLYEEAVELYKKD   95 (140)
T ss_pred             cCcHHHHHHHHHhh
Confidence            55555555554443

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=93.33  E-value=0.16  Score=30.39  Aligned_cols=31  Identities=16%  Similarity=0.177  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          515 VWRTLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       515 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      +|..+...|...|++++|...|+++++++|+
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            5677777888888888888888888888774

...

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.32  E-value=9.7  Score=38.14  Aligned_cols=148  Identities=9%  Similarity=-0.070  Sum_probs=81.2

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC--hHH
Q 048281          409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP---DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT--IEH  483 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~  483 (660)
                      ...+|..++..+.+.|+++.|...+.++...+..+   ++.....-...+-..|+..+|...++..... ....+  ...
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~~  223 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSIS  223 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhcccccc
Confidence            44578888888888899888888888887643221   2333334455566678888888888877762 12111  111


Q ss_pred             HHHHHHHHhhcCCHHHHHHH-HHhCCCCCCHHHHHHHHHHHHHc------CChHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 048281          484 YTCVIDMLGRAGQLNEAYEL-ALAMPNEANPVVWRTLLAASRLH------GNTDLAEIAAQRVFQLEPGHCGNYVLMSNI  556 (660)
Q Consensus       484 ~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~~~~~------g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  556 (660)
                      ...+...+..  ..+..... ......+.-...+..+..-+...      ++.+.+...|+++.++.|.....|..++..
T Consensus       224 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~  301 (352)
T PF02259_consen  224 NAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALF  301 (352)
T ss_pred             HHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHH
Confidence            1111111000  00000000 00000000112333333334344      788899999999999999887777777766


Q ss_pred             HHh
Q 048281          557 YVA  559 (660)
Q Consensus       557 ~~~  559 (660)
                      +.+
T Consensus       302 ~~~  304 (352)
T PF02259_consen  302 NDK  304 (352)
T ss_pred             HHH
Confidence            654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.03  E-value=0.33  Score=39.09  Aligned_cols=56  Identities=21%  Similarity=0.116  Sum_probs=51.9

Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          521 AASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       521 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      -+....|+.+.|++.|.+.+.+-|.+++.|+.-+..+.-+|+.++|+.-+++..+.
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleL  106 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALEL  106 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHh
Confidence            45778899999999999999999999999999999999999999999999988664

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=93.00  E-value=13  Score=38.74  Aligned_cols=121  Identities=15%  Similarity=0.032  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC---CCCHHHHHHHHH
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN---EANPVVWRTLLA  521 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~l~~  521 (660)
                      ..+|...+.--...|+.+...-.|+...-  .+..=...|-..+.-....|+.+-|..++.....   +..+.+--.-..
T Consensus       297 l~nw~~yLdf~i~~g~~~~~~~l~ercli--~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  297 LKNWRYYLDFEITLGDFSRVFILFERCLI--PCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHhhhhhhcccHHHHHHHHHHHHh--HHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            34666666666667777777777766643  2222334555555555555777777666655432   222222222223


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHH
Q 048281          522 ASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVL  567 (660)
Q Consensus       522 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  567 (660)
                      .+-..|+.+.|..+++.+.+--|+....-..-+....+.|+.+.+.
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhh
Confidence            3445567777777777776655665555555555666677777666

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.89  E-value=2.9  Score=39.83  Aligned_cols=154  Identities=10%  Similarity=-0.016  Sum_probs=108.2

Q ss_pred             hcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH----HHHHHHhccCCHHH
Q 048281          391 KCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFV----GVLSACSHSGFLSQ  463 (660)
Q Consensus       391 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~----~ll~~~~~~g~~~~  463 (660)
                      -.|+.-+|...++++.   ..|..+++--=.+|..+|+.+.-...+++.... ..||...|.    .+.-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            4677888887888776   347888988889999999999999999998865 355554333    23345668899999


Q ss_pred             HHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC---H---HHHHHHHHHHHHcCChHHHHHHHH
Q 048281          464 GREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEAN---P---VVWRTLLAASRLHGNTDLAEIAAQ  537 (660)
Q Consensus       464 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~---~~~~~l~~~~~~~g~~~~A~~~~~  537 (660)
                      |.+.-++..+  --+.|.-.-.++...+...|+..++.++..+-...-+   .   ..|-...-.+...+.++.|+.+|+
T Consensus       194 AEk~A~ralq--iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  194 AEKQADRALQ--INRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             HHHHHHhhcc--CCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9998888765  2334555667788888899999999999887654211   1   112222333455689999999997


Q ss_pred             HHH--hcCCCCc
Q 048281          538 RVF--QLEPGHC  547 (660)
Q Consensus       538 ~~~--~~~p~~~  547 (660)
                      +=+  +++.++.
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            632  2455554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.78  E-value=0.21  Score=30.47  Aligned_cols=26  Identities=15%  Similarity=0.078  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          516 WRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       516 ~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      |..|...|.+.|++++|+.++++++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45555566666666666666666443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.62  E-value=0.25  Score=46.77  Aligned_cols=111  Identities=14%  Similarity=0.009  Sum_probs=80.5

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCC
Q 048281          452 LSACSHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGN  528 (660)
Q Consensus       452 l~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~  528 (660)
                      ..-|.++|.+++|+..|.....   +.| +..++..-..+|.+..++..|+.-......  +.-...|.--+.+-...|+
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            4568899999999999998764   444 788888888899999999888776665432  2223456666666667788


Q ss_pred             hHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHH
Q 048281          529 TDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDI  569 (660)
Q Consensus       529 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  569 (660)
                      ..+|.+-++.+++++|++.+    |-..|.+.....|+.-+
T Consensus       181 ~~EAKkD~E~vL~LEP~~~E----LkK~~a~i~Sl~E~~I~  217 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNIE----LKKSLARINSLRERKIA  217 (536)
T ss_pred             HHHHHHhHHHHHhhCcccHH----HHHHHHHhcchHhhhHH
Confidence            99999999999999998644    44445555555554443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=92.42  E-value=13  Score=37.26  Aligned_cols=86  Identities=7%  Similarity=-0.013  Sum_probs=59.0

Q ss_pred             CCCCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccC-CCCCCcccHHH
Q 048281           26 FNHPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNL-SCEPNVFTYNA  104 (660)
Q Consensus        26 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~  104 (660)
                      ..+|.+..+|..|++-+...+..++..+++++|..- .+--+.+|..-|+.=....++...+.+|.+- ...-++..|..
T Consensus        36 kdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~ldLW~l  114 (660)
T COG5107          36 KDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLNLDLWML  114 (660)
T ss_pred             hcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhccHhHHHH
Confidence            345667778888999888888888888888888653 2233456666676656667888888888742 23345667777


Q ss_pred             HHHHHHcC
Q 048281          105 MISGFYSN  112 (660)
Q Consensus       105 li~~~~~~  112 (660)
                      .+.--.+-
T Consensus       115 Yl~YIRr~  122 (660)
T COG5107         115 YLEYIRRV  122 (660)
T ss_pred             HHHHHHhh
Confidence            66655443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.14  E-value=0.31  Score=29.69  Aligned_cols=26  Identities=19%  Similarity=0.346  Sum_probs=22.5

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHH
Q 048281          549 NYVLMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       549 ~~~~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      +|..|+.+|.+.|+|++|.+++++..
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            47789999999999999999999854

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.14  E-value=17  Score=38.02  Aligned_cols=161  Identities=12%  Similarity=0.060  Sum_probs=97.8

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCCh-----hhHHHHHHHHHc----cCCchhHHHHHHHHHHhCCCCCchH
Q 048281          203 WNAMVNGYAQIGEFHKALEVFRRMSKEG-IWMSR-----FTVTGVLSALIM----MGFFKNGRVVHGIVVKMGYDSGVPV  272 (660)
Q Consensus       203 ~~~li~~~~~~~~~~~A~~~~~~m~~~~-~~p~~-----~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~  272 (660)
                      ...++....-.|+-+.+++.+.+..+.+ +.-..     -+|..++..+..    ..+.+.+.+++..+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            4445555556677777777777654422 21111     123333333332    34566777777777766  356555


Q ss_pred             HHHH-HHHHHcCCCHHHHHHHHHhcCCC-------ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 048281          273 MNAL-IDMYGKGKCVGEALEIFEMMEEK-------DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLP  344 (660)
Q Consensus       273 ~~~l-i~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~  344 (660)
                      |... ...+...|++++|++.|+.....       ....+--+.-.+.-.+++++|.+.|..+.+.. .-+..+|..+..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            5433 35667789999999999875431       22334455666778899999999999999753 234445554444


Q ss_pred             HH-hcccch-------HHHHHHHHHHHHhC
Q 048281          345 AC-SHLAAL-------MHGRQIHGYIVVNG  366 (660)
Q Consensus       345 ~~-~~~~~~-------~~a~~~~~~~~~~~  366 (660)
                      +| ...++.       ++|..++..+....
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~  377 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPKLK  377 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHHHH
Confidence            43 445666       77777777765543

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.

>PRK11619 lytic murein transglycosylase; Provisional

Probab=92.07  E-value=21  Score=38.94  Aligned_cols=113  Identities=12%  Similarity=-0.028  Sum_probs=54.4

Q ss_pred             CChHHHHHHHHHHHHcC-CCCCHH--HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHH
Q 048281          424 GQGKEALDMFSCMCEAK-LKPDEV--TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEA  500 (660)
Q Consensus       424 g~~~~A~~~~~~m~~~g-~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  500 (660)
                      .+.+.|..++.+..... +.+...  ....+.......+...++...++....   ...+......-+..-.+.++++.+
T Consensus       255 ~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~---~~~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        255 QDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIM---RSQSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             hCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccc---ccCCcHHHHHHHHHHHHccCHHHH
Confidence            44566777776654332 222221  222232222222224455555554432   112333444444454567777777


Q ss_pred             HHHHHhCCCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 048281          501 YELALAMPNE--ANPVVWRTLLAASRLHGNTDLAEIAAQRV  539 (660)
Q Consensus       501 ~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  539 (660)
                      ...+..|+..  ....-.-=+..++...|+.++|...|+++
T Consensus       332 ~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~  372 (644)
T PRK11619        332 NTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQL  372 (644)
T ss_pred             HHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7777766541  11122222345555567777777777665

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=91.83  E-value=4.4  Score=33.86  Aligned_cols=114  Identities=11%  Similarity=0.023  Sum_probs=59.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKL--KPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG  495 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  495 (660)
                      ....+.|++++|.+.|+.+...-.  +-.......++.++.+.+++++|...++..++-+.-.|+ .-|...+.+++.-.
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHHHH
Confidence            334556777777777777665411  112234445666677777777777777777664333333 23444444433322


Q ss_pred             CHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          496 QLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       496 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      ..+.++.-+-  ..+.|.             +....|...|+++++.-|++.
T Consensus        97 ~~~~~~~~~~--~~drD~-------------~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   97 QDEGSLQSFF--RSDRDP-------------TPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HhhhHHhhhc--ccccCc-------------HHHHHHHHHHHHHHHHCcCCh
Confidence            2221111111  111121             235578888888898889864

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.78  E-value=0.33  Score=31.19  Aligned_cols=37  Identities=27%  Similarity=0.409  Sum_probs=19.7

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHH
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTL  519 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l  519 (660)
                      ++..+...|.+.|++++|.++|+++..  +.|+..|..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHh
Confidence            445556666666666666666665443  2334444433

>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=91.44  E-value=14  Score=35.58  Aligned_cols=19  Identities=16%  Similarity=-0.169  Sum_probs=12.4

Q ss_pred             HHHHcCChHHHHHHHHHHH
Q 048281          522 ASRLHGNTDLAEIAAQRVF  540 (660)
Q Consensus       522 ~~~~~g~~~~A~~~~~~~~  540 (660)
                      .+.+.++++.|...|+-.+
T Consensus       255 ~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  255 KHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHhhcCHHHHHHHHHHHH
Confidence            4556677777777776543

It is also involved in sporulation [].

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.05  E-value=1.5  Score=36.63  Aligned_cols=55  Identities=15%  Similarity=0.098  Sum_probs=44.4

Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          524 RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      ...++.+.++.++..+.-+.|+.++.-..-++++...|+|+||.++++.+.+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            3467888888888888888888888888888888888888888888888877654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK09687 putative lyase; Provisional

Probab=91.04  E-value=15  Score=35.28  Aligned_cols=119  Identities=10%  Similarity=-0.031  Sum_probs=54.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC-CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHh
Q 048281          414 NIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSG-FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLG  492 (660)
Q Consensus       414 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  492 (660)
                      ...+.++.+.++ .+++..+-.+.+   .+|...-...+.++.+.+ ....+...+-.+..    .++..+-...+.+++
T Consensus       146 ~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~----D~~~~VR~~A~~aLg  217 (280)
T PRK09687        146 FAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ----DKNEEIRIEAIIGLA  217 (280)
T ss_pred             HHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc----CCChHHHHHHHHHHH
Confidence            334444444443 344455544444   233333333444444432 12334444444432    234445555555666


Q ss_pred             hcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 048281          493 RAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       493 ~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  544 (660)
                      +.|+ ..|+..+-+....++  .....+.++...|+. +|...+.++.+..|
T Consensus       218 ~~~~-~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        218 LRKD-KRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             ccCC-hhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            6665 334444433332333  223445555555553 46666666665555

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.87  E-value=1.1  Score=42.22  Aligned_cols=59  Identities=17%  Similarity=0.273  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          515 VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       515 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                      ++..++..+...|+.+.+...+++++..+|-+-..|..+..+|.+.|+...|+..++.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l  213 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQL  213 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHH
Confidence            34444555555555555555555555555555555555555555555555555555554

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=90.81  E-value=1.6  Score=37.15  Aligned_cols=53  Identities=15%  Similarity=0.211  Sum_probs=29.7

Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          524 RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ...++.+.++.++..+.-+.|..++.-..-++++...|+|.+|..+++.+.+.
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            34445555555555555555555555555555555555566665555555443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.35  E-value=13  Score=36.04  Aligned_cols=63  Identities=16%  Similarity=0.137  Sum_probs=39.0

Q ss_pred             hHHHHHHHHHHHCCCCCCcccHHHHHHHHhh--h----CCHHHHHHHHHHHHHhCCC---CChhHHHHHHHH
Q 048281          116 FKGLDFFNHMRQLGVLPDKYTFPCLIKCCCD--V----MAVLEVKKIHGLVFKLGLD---LDVYIGSALVNT  178 (660)
Q Consensus       116 ~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~--~----~~~~~a~~~~~~~~~~g~~---~~~~~~~~li~~  178 (660)
                      .+.+.+++.|.+.|..-+..+|-+..-....  .    .....+..+|+.|.+..+-   ++...+..|+..
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~  150 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM  150 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc
Confidence            4566788889998888777776654433332  1    2356778888888877532   334455555443

>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=90.03  E-value=9.4  Score=31.23  Aligned_cols=62  Identities=11%  Similarity=0.158  Sum_probs=35.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCC
Q 048281          414 NIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGV  477 (660)
Q Consensus       414 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  477 (660)
                      ..-+..+...|+-++-.+++.++.+.+ .|++.....+..+|.+.|+..++.+++.++-++ |+
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek-G~  151 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEK-GL  151 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-T-
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh-ch
Confidence            344556666777777777777666532 566666666777777777777777777777663 44

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PRK09687 putative lyase; Provisional

Probab=89.93  E-value=19  Score=34.62  Aligned_cols=75  Identities=12%  Similarity=0.062  Sum_probs=44.7

Q ss_pred             CCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 048281          267 DSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPAC  346 (660)
Q Consensus       267 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~  346 (660)
                      .++..+...-+.++.+.|+.+....+.+.+..++  .....+.++...|.. +|+..+..+.+.  .||...-...+.+|
T Consensus       203 D~~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        203 DKNEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             CCChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            3455566666667777776543334444444433  234566777777775 688888887764  35666655555544

>PRK12798 chemotaxis protein; Reviewed

Probab=89.89  E-value=23  Score=35.48  Aligned_cols=180  Identities=15%  Similarity=0.206  Sum_probs=120.4

Q ss_pred             cCCHHHHHHHHhcCCC----CCHhHHHHHHHHH-HhcCChHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHhccCCHH
Q 048281          392 CGSMRDAQMVFTKMSK----KDVASWNIMILGY-GMDGQGKEALDMFSCMCEAKLKPDEV----TFVGVLSACSHSGFLS  462 (660)
Q Consensus       392 ~g~~~~A~~~~~~~~~----~~~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~g~~p~~~----~~~~ll~~~~~~g~~~  462 (660)
                      .|+..+|.+.+..+..    +....|-.|+.+- ....++.+|+.+|++..-.  .|-..    ...--+....+.|+.+
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            6899999999988873    3455677777654 4456899999999988753  44332    3333445667889999


Q ss_pred             HHHHHHHHhHHhcCCCCChHHHHH-HHHHHhh---cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 048281          463 QGREFLPLMESRYGVVPTIEHYTC-VIDMLGR---AGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQR  538 (660)
Q Consensus       463 ~a~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  538 (660)
                      ++..+-....+++...|-...|.. +...+.+   .-..+.-..++..|.......+|..+.+.-...|+.+.|....++
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            998888877776666665544433 2333333   334566666777777544567899999999999999999999999


Q ss_pred             HHhcCCCCcchHHHHHHHHHh-----CCChHHHHHHHHHHH
Q 048281          539 VFQLEPGHCGNYVLMSNIYVA-----GGKYEEVLDIRHTMR  574 (660)
Q Consensus       539 ~~~~~p~~~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~  574 (660)
                      +..+... ...-...+.+|..     ..+.+++.+.++.+-
T Consensus       283 A~~L~~~-~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~  322 (421)
T PRK12798        283 ALKLADP-DSADAARARLYRGAALVASDDAESALEELSQID  322 (421)
T ss_pred             HHHhccC-CCcchHHHHHHHHHHccCcccHHHHHHHHhcCC
Confidence            9998532 2223333444432     244666666665543

>PRK10941 hypothetical protein; Provisional

Probab=89.78  E-value=2.5  Score=40.06  Aligned_cols=63  Identities=21%  Similarity=0.064  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          515 VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       515 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ..+.+-.+|.+.++++.|.++.+.++.+.|+++.-+.-.+-+|.+.|.+..|..-++...+..
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            456677889999999999999999999999999888889999999999999999998887653

>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=89.51  E-value=2.5  Score=28.44  Aligned_cols=51  Identities=10%  Similarity=0.139  Sum_probs=37.5

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCcEEEEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHcCc
Q 048281          549 NYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGD  625 (660)
Q Consensus       549 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~~~  625 (660)
                      ....++-.+.+.|++++|++..+.+.+.                          +|...+..+....+.++|++.|.
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~~--------------------------eP~N~Qa~~L~~~i~~~i~kdgl   53 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLEI--------------------------EPDNRQAQSLKELIEDKIQKDGL   53 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH--------------------------TTS-HHHHHHHHHHHHHHHHTTT
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHhh--------------------------CCCcHHHHHHHHHHHHHHhccCC
Confidence            3556888899999999999999999873                          34555666666666788888773

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=89.45  E-value=18  Score=33.60  Aligned_cols=137  Identities=15%  Similarity=0.176  Sum_probs=87.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh
Q 048281          416 MILGYGMDGQGKEALDMFSCMCEAKL--KPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR  493 (660)
Q Consensus       416 li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  493 (660)
                      =+..-.+.|++++|.+.|+.+.....  +-...+...++.++.+.++++.|....++..+.++-.||+. |...+.++. 
T Consensus        40 ~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d-Y~~YlkgLs-  117 (254)
T COG4105          40 EGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD-YAYYLKGLS-  117 (254)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-HHHHHHHHH-
Confidence            34445678999999999999987521  11234566667788889999999999999988777777763 444444443 


Q ss_pred             cCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc-----------------chHHHHHH
Q 048281          494 AGQLNEAYELALAMPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC-----------------GNYVLMSN  555 (660)
Q Consensus       494 ~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-----------------~~~~~l~~  555 (660)
                               .|..+.. ..|..             -...|..-|+++++.-|++.                 ..=..+++
T Consensus       118 ---------~~~~i~~~~rDq~-------------~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~Iar  175 (254)
T COG4105         118 ---------YFFQIDDVTRDQS-------------AARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIAR  175 (254)
T ss_pred             ---------HhccCCccccCHH-------------HHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHH
Confidence                     2222221 11221             12234444444455445432                 22346788


Q ss_pred             HHHhCCChHHHHHHHHHHHhC
Q 048281          556 IYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       556 ~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      -|.+.|.|.-|..-++.|.+.
T Consensus       176 yY~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         176 YYLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             HHHHhcChHHHHHHHHHHHhc
Confidence            899999999999999988776

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.38  E-value=20  Score=35.84  Aligned_cols=65  Identities=25%  Similarity=0.316  Sum_probs=55.2

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC----CCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          511 ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEP----GHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       511 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ....+|..++..+++.|+++.|...+.++....+    ..+.....-+..+...|+..+|...++...+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4556899999999999999999999999988642    2456677789999999999999999988876

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.18  E-value=1.2  Score=42.47  Aligned_cols=87  Identities=17%  Similarity=0.076  Sum_probs=58.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG  495 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  495 (660)
                      .+-|.+.|.+++|+..|......  .| |.+++..-..+|.+...+..|..-...++.-  -..-+..|..-+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL--d~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL--DKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh--hHHHHHHHHHHHHHHHHHh
Confidence            45699999999999999988874  66 8899988889999999988888777766541  1111223333333333345


Q ss_pred             CHHHHHHHHHhC
Q 048281          496 QLNEAYELALAM  507 (660)
Q Consensus       496 ~~~~A~~~~~~~  507 (660)
                      ...+|.+-++..
T Consensus       180 ~~~EAKkD~E~v  191 (536)
T KOG4648|consen  180 NNMEAKKDCETV  191 (536)
T ss_pred             hHHHHHHhHHHH
Confidence            555555555443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.00  E-value=39  Score=36.94  Aligned_cols=46  Identities=9%  Similarity=0.105  Sum_probs=30.7

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHH
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVL  567 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  567 (660)
                      ++..+++..+.+.+..+.+..   .+.+|..|..+..-+++.+..++-.
T Consensus       711 l~~~~~q~~d~E~~it~~~~~---g~~~p~l~~~~L~yF~~~~~i~~~~  756 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERL---GKEDPSLWLHALKYFVSEESIEDCY  756 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHh---CccChHHHHHHHHHHhhhcchhhHH
Confidence            456677777777777776654   4456677888888888777544333

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.64  E-value=0.76  Score=27.22  Aligned_cols=29  Identities=17%  Similarity=0.334  Sum_probs=24.9

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          548 GNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       548 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ..+..++.++...|++++|++.+++..+.
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            46889999999999999999999998763

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.61  E-value=0.87  Score=26.69  Aligned_cols=28  Identities=25%  Similarity=0.128  Sum_probs=17.6

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          518 TLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       518 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      .+..++.+.|++++|...|+++++..|+
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            3455566666666666666666666664

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=88.61  E-value=41  Score=36.73  Aligned_cols=56  Identities=16%  Similarity=0.328  Sum_probs=32.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhc---CCCCc-chHH-----HHHHHHHhCCChHHHHHHHHHHH
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQL---EPGHC-GNYV-----LMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~~---~p~~~-~~~~-----~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      ++..-.-.|+..+..........+   .|+.. ..|.     .+...|...|+.++|.....+..
T Consensus       540 lm~~~lf~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  540 LMGHRLFEGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            333333367777766666555554   22222 2332     34455777899999988887764

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 [].

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.51  E-value=41  Score=36.50  Aligned_cols=55  Identities=11%  Similarity=-0.119  Sum_probs=31.4

Q ss_pred             HHHHhHcCCChhHHHHHHccCC-CCC---CcccHHHHHHHHHcCCChhHHHHHHHHHHH
Q 048281           73 LINMYSKCCQMKYALFVFNNLS-CEP---NVFTYNAMISGFYSNDFAFKGLDFFNHMRQ  127 (660)
Q Consensus        73 ll~~~~~~g~~~~A~~~~~~~~-~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  127 (660)
                      -++.+.+.+.+++|+..-+... ..|   -...+-..|..+.-.|++++|-...-.|..
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~g  420 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLG  420 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhc
Confidence            3556666677777777665211 112   123456666666666777766666555543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=88.49  E-value=1  Score=28.24  Aligned_cols=27  Identities=19%  Similarity=0.165  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          515 VWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       515 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      +++.|...|...|++++|+.+++++++
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            445555555555555555555555544

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.49  E-value=7.3  Score=34.37  Aligned_cols=98  Identities=9%  Similarity=-0.035  Sum_probs=59.5

Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCC-----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHHcC
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPT-----IEHYTCVIDMLGRAGQLNEAYELALAMPN-EA-NPVVWRTLLAASRLHG  527 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~g  527 (660)
                      +...|++++|..-|..++..  +++.     ...|..-.-++.+.++++.|++-..+... .| ......--..+|.+..
T Consensus       105 ~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKME  182 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhh
Confidence            44556677777766666652  2222     12344445566777788887777666543 12 1222222344677788


Q ss_pred             ChHHHHHHHHHHHhcCCCCcchHHHHH
Q 048281          528 NTDLAEIAAQRVFQLEPGHCGNYVLMS  554 (660)
Q Consensus       528 ~~~~A~~~~~~~~~~~p~~~~~~~~l~  554 (660)
                      .++.|+.-|+++++.+|....+-....
T Consensus       183 k~eealeDyKki~E~dPs~~ear~~i~  209 (271)
T KOG4234|consen  183 KYEEALEDYKKILESDPSRREAREAIA  209 (271)
T ss_pred             hHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            899999999999999997654433333

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.45  E-value=17  Score=32.13  Aligned_cols=114  Identities=11%  Similarity=0.043  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHH--HHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHH-----HHHHHHHhhcCCHHHH
Q 048281          428 EALDMFSCMCEAKLKPDEVTFVG--VLSACSHSGFLSQGREFLPLMESRYGVVPTIEHY-----TCVIDMLGRAGQLNEA  500 (660)
Q Consensus       428 ~A~~~~~~m~~~g~~p~~~~~~~--ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~~A  500 (660)
                      +......++....-+..-.++..  +...+...+++++|..-++.....    |....+     -.|.......|.+++|
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 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAALRLARVQLQQKKADAA  145 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            44555555554321112222222  234567778888888887776531    222222     2345667778888888


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          501 YELALAMPNEA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       501 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      +..++....+. .......-..++...|+.++|...|+++++..++
T Consensus       146 L~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         146 LKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence            88888765421 1122333456778888888888888888887643

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=88.43  E-value=4.8  Score=35.56  Aligned_cols=92  Identities=12%  Similarity=0.074  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCCC-----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCCcchHH---
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPNE-----ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL--EPGHCGNYV---  551 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~---  551 (660)
                      ..+..+.+.|.+.|+.++|.+.|.++...     .-...+..++..+...+++..+.....++..+  .+++....+   
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            56778888899999999999999887652     22346777888888889999988888887775  223322111   


Q ss_pred             -HHHHHHHhCCChHHHHHHHHHH
Q 048281          552 -LMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       552 -~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                       .-+-.+...+++.+|.+.|-..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence             1222344578888888887665

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.11  E-value=2.2  Score=40.20  Aligned_cols=105  Identities=19%  Similarity=0.251  Sum_probs=74.5

Q ss_pred             HHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcc-----cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC
Q 048281           59 LRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVF-----TYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPD  133 (660)
Q Consensus        59 ~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  133 (660)
                      ...|...++.+...++..-....+++++...+-+....|+..     +-.++++-+.+ -++++++.++..=++.|+-||
T Consensus        56 F~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlllk-y~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   56 FERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             hhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHHc-cChHHHHHHHhCcchhccccc
Confidence            344556666677777777776778888887764333333221     12233444433 367789999988889999999


Q ss_pred             cccHHHHHHHHhhhCCHHHHHHHHHHHHHhC
Q 048281          134 KYTFPCLIKCCCDVMAVLEVKKIHGLVFKLG  164 (660)
Q Consensus       134 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  164 (660)
                      ..+++.+|+.+.+.+++..|.++.-.|....
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            9999999999999999999998888777654

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=87.48  E-value=6.8  Score=37.14  Aligned_cols=60  Identities=12%  Similarity=0.247  Sum_probs=36.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCE  438 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  438 (660)
                      ..++..++..+..+|+.+.+.+.++++..   -+...|..++.+|.+.|+...|+..|+++.+
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            55566666666666666666666665542   2445666666666666666666666665553

>PHA02875 ankyrin repeat protein; Provisional

Probab=87.44  E-value=38  Score=34.90  Aligned_cols=209  Identities=13%  Similarity=0.079  Sum_probs=110.4

Q ss_pred             HHhhccCChhHHHHHHHHHHHhCCCCChhH--HHHHHHHhHcCCChhHHHHHHccCCCCCCcc--cHHHHHHHHHcCCCh
Q 048281           40 QLCAHQTNLQKGQEIHSYMLRTGIIDSPLS--ITSLINMYSKCCQMKYALFVFNNLSCEPNVF--TYNAMISGFYSNDFA  115 (660)
Q Consensus        40 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~--~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~li~~~~~~~~~  115 (660)
                      ......|++    ++.+.+++.|..++...  ....+...++.|+.+-+.-+++ .+..|+..  ...+.+...+..|+.
T Consensus         7 ~~A~~~g~~----~iv~~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~~v~~Ll~-~ga~~~~~~~~~~t~L~~A~~~g~~   81 (413)
T PHA02875          7 CDAILFGEL----DIARRLLDIGINPNFEIYDGISPIKLAMKFRDSEAIKLLMK-HGAIPDVKYPDIESELHDAVEEGDV   81 (413)
T ss_pred             HHHHHhCCH----HHHHHHHHCCCCCCccCCCCCCHHHHHHHcCCHHHHHHHHh-CCCCccccCCCcccHHHHHHHCCCH
Confidence            334455665    55566667787665432  3445566677888888777777 54444332  112334455567777


Q ss_pred             hHHHHHHHHHHHCCCCCCcc---cHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhH--HHHHHHHhHhcCChHHHHH
Q 048281          116 FKGLDFFNHMRQLGVLPDKY---TFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYI--GSALVNTYLKCQFMEEALK  190 (660)
Q Consensus       116 ~~a~~~~~~m~~~~~~p~~~---t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~--~~~li~~~~~~g~~~~A~~  190 (660)
                      +.+..+++    .|...+..   .-.+.+...+..|+.+    +.+.+.+.|..|+...  ..+.+...+..|+.+-+..
T Consensus        82 ~~v~~Ll~----~~~~~~~~~~~~g~tpL~~A~~~~~~~----iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~  153 (413)
T PHA02875         82 KAVEELLD----LGKFADDVFYKDGMTPLHLATILKKLD----IMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIEL  153 (413)
T ss_pred             HHHHHHHH----cCCcccccccCCCCCHHHHHHHhCCHH----HHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHH
Confidence            66554443    33221111   1123344455566654    5555566777665432  2344555567888887777


Q ss_pred             HHccCCCC---CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhh---HHHHHHHHHccCCchhHHHHHHHHHHh
Q 048281          191 VFEELPLR---DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFT---VTGVLSALIMMGFFKNGRVVHGIVVKM  264 (660)
Q Consensus       191 ~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t---~~~ll~~~~~~~~~~~a~~~~~~~~~~  264 (660)
                      +++.-...   |..-++.|.. .+..|+.    ++++.+.+.|..|+...   ..+.+...+..|+.+    +.+.+.+.
T Consensus       154 Ll~~g~~~~~~d~~g~TpL~~-A~~~g~~----eiv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~----iv~~Ll~~  224 (413)
T PHA02875        154 LIDHKACLDIEDCCGCTPLII-AMAKGDI----AICKMLLDSGANIDYFGKNGCVAALCYAIENNKID----IVRLFIKR  224 (413)
T ss_pred             HHhcCCCCCCCCCCCCCHHHH-HHHcCCH----HHHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHH----HHHHHHHC
Confidence            77654432   2223333333 3344553    34555666676665432   124444444555544    44445666


Q ss_pred             CCCCCc
Q 048281          265 GYDSGV  270 (660)
Q Consensus       265 g~~~~~  270 (660)
                      |..++.
T Consensus       225 gad~n~  230 (413)
T PHA02875        225 GADCNI  230 (413)
T ss_pred             CcCcch
Confidence            766553

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.38  E-value=7.7  Score=33.39  Aligned_cols=117  Identities=15%  Similarity=0.144  Sum_probs=56.2

Q ss_pred             cCCCHHHHHHHHHhcCCCChhhHHHH-----HHHHHHcCChHHHHHHHHHHhhcCCCCCHH-HHHHHHH--HHhcccchH
Q 048281          282 KGKCVGEALEIFEMMEEKDIFSWNSI-----MTVHEQCGNHDGTLRLFDRMLSAGFQPDLV-TFSTVLP--ACSHLAALM  353 (660)
Q Consensus       282 ~~~~~~~A~~~~~~~~~~~~~~~~~l-----i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~--~~~~~~~~~  353 (660)
                      +.+..++|+.-|..+.+.+--.|-.|     .....+.|+...|...|.++-.....|-.. -...+=.  .+...|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            34555666666666655443333332     234556677777777777776543333322 1111111  233445555


Q ss_pred             HHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 048281          354 HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS  406 (660)
Q Consensus       354 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  406 (660)
                      ......+-+...+-+..        ...-.+|.-+-.+.|++..|.+.|..+-
T Consensus       150 dV~srvepLa~d~n~mR--------~sArEALglAa~kagd~a~A~~~F~qia  194 (221)
T COG4649         150 DVSSRVEPLAGDGNPMR--------HSAREALGLAAYKAGDFAKAKSWFVQIA  194 (221)
T ss_pred             HHHHHhhhccCCCChhH--------HHHHHHHhHHHHhccchHHHHHHHHHHH
Confidence            44443333322221111        3334455555556666666666666543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.35  E-value=5.3  Score=37.84  Aligned_cols=92  Identities=13%  Similarity=0.217  Sum_probs=68.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-C--------CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK-K--------DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFV  449 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  449 (660)
                      ..+...++..-....+++++...+-++.. +        ...+|-.++.-    =++++++.++..=+..|+-||..+++
T Consensus        64 ~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlllk----y~pq~~i~~l~npIqYGiF~dqf~~c  139 (418)
T KOG4570|consen   64 SLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLLK----YDPQKAIYTLVNPIQYGIFPDQFTFC  139 (418)
T ss_pred             eeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHHc----cChHHHHHHHhCcchhccccchhhHH
Confidence            44445556666667788888888777652 2        23344333333    36779999999999999999999999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHh
Q 048281          450 GVLSACSHSGFLSQGREFLPLMESR  474 (660)
Q Consensus       450 ~ll~~~~~~g~~~~a~~~~~~~~~~  474 (660)
                      .++..+.+.+++..|.++.-.|...
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999888887663

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=87.19  E-value=19  Score=31.23  Aligned_cols=134  Identities=10%  Similarity=0.082  Sum_probs=67.6

Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC
Q 048281          155 KIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMS  234 (660)
Q Consensus       155 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~  234 (660)
                      ++.+.+.+.++.|+...+..+++.+.+.|++.....++.--.-+|.......+-.+.  +....+.++=-+|.++     
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR-----   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR-----   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH-----
Confidence            444555566777777777777777777777666655554333333222222221111  1112222222222111     


Q ss_pred             hhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHc
Q 048281          235 RFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQC  314 (660)
Q Consensus       235 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  314 (660)
                                                +   +     ..+..++..+...|++-+|.++.+....-+......++.+-.+.
T Consensus        88 --------------------------L---~-----~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~  133 (167)
T PF07035_consen   88 --------------------------L---G-----TAYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANS  133 (167)
T ss_pred             --------------------------h---h-----hhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHc
Confidence                                      0   1     02344556667777777777777775444444445556666666


Q ss_pred             CChHHHHHHHHHHhh
Q 048281          315 GNHDGTLRLFDRMLS  329 (660)
Q Consensus       315 g~~~~a~~~~~~m~~  329 (660)
                      +|..--..+|+-..+
T Consensus       134 ~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen  134 NDDQLFYAVFRFFEE  148 (167)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            665544444444443

>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=86.81  E-value=19  Score=30.84  Aligned_cols=87  Identities=13%  Similarity=0.002  Sum_probs=50.3

Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCChH-HHHHHHHHHhhcCCHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCChHHH
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPTIE-HYTCVIDMLGRAGQLNEAYELALAMPNE-ANPVVWRTLLAASRLHGNTDLA  532 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A  532 (660)
                      -...++.+.+..++..+.-   +.|... .-..-...+.+.|+|.+|..+|+++... |....-.+|+..|.....-..=
T Consensus        20 al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~W   96 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPSW   96 (160)
T ss_pred             HHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChHH
Confidence            3456688888888887753   445432 2222344467889999999999987763 3444445555555544332332


Q ss_pred             HHHHHHHHhcCC
Q 048281          533 EIAAQRVFQLEP  544 (660)
Q Consensus       533 ~~~~~~~~~~~p  544 (660)
                      .....++++..+
T Consensus        97 r~~A~evle~~~  108 (160)
T PF09613_consen   97 RRYADEVLESGA  108 (160)
T ss_pred             HHHHHHHHhcCC
Confidence            333444455443

>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=86.66  E-value=4  Score=36.25  Aligned_cols=75  Identities=19%  Similarity=0.215  Sum_probs=53.0

Q ss_pred             hhcCCHHHHHHHHHhCCCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-CCC---CcchHHHHHHHHHhCCChHH
Q 048281          492 GRAGQLNEAYELALAMPNEA--NPVVWRTLLAASRLHGNTDLAEIAAQRVFQL-EPG---HCGNYVLMSNIYVAGGKYEE  565 (660)
Q Consensus       492 ~~~g~~~~A~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~---~~~~~~~l~~~~~~~g~~~~  565 (660)
                      .+.|+ ++|.+.|-.+...|  +....-..+..|....|.+++++++.+++++ +|+   |++.+..|+.+|.+.|+++.
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            45555 66777777766532  2233333444555578899999999999997 333   57889999999999999988


Q ss_pred             HH
Q 048281          566 VL  567 (660)
Q Consensus       566 a~  567 (660)
                      |.
T Consensus       197 AY  198 (203)
T PF11207_consen  197 AY  198 (203)
T ss_pred             hh
Confidence            74

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.62  E-value=1.8  Score=25.62  Aligned_cols=28  Identities=21%  Similarity=0.193  Sum_probs=19.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCE  438 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  438 (660)
                      .+|..+..+|...|++++|+..|++.++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            3566677777777777777777777766

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 ....

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=86.59  E-value=32  Score=33.31  Aligned_cols=134  Identities=10%  Similarity=0.152  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc--c----cchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh
Q 048281          318 DGTLRLFDRMLSAGFQPDLVTFSTVLPACSH--L----AALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK  391 (660)
Q Consensus       318 ~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~--~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~  391 (660)
                      ++.+.+++.|.+.|+.-+..+|.+.......  .    .....+..+++.|.+..+-.++                    
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs--------------------  138 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTS--------------------  138 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccC--------------------
Confidence            4566788899999999888887664433322  1    1234455566666555432221                    


Q ss_pred             cCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCC----hHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhccCC--HHH
Q 048281          392 CGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQ----GKEALDMFSCMCEAKLKPDEV--TFVGVLSACSHSGF--LSQ  463 (660)
Q Consensus       392 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~----~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~--~~~  463 (660)
                                      ++-.++..|+..  ..++    .+.+..+|+.+.+.|+..+..  ....++..+.....  ..+
T Consensus       139 ----------------~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r  200 (297)
T PF13170_consen  139 ----------------PEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVAR  200 (297)
T ss_pred             ----------------ccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHH
Confidence                            122223233222  1111    345566777777767655443  22223322222222  346


Q ss_pred             HHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          464 GREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       464 a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      +.++++.+.+. ++++....|..+.-+
T Consensus       201 ~~~l~~~l~~~-~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  201 VIELYNALKKN-GVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHc-CCccccccccHHHHH
Confidence            77778877775 777777776655433

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.29  E-value=5.4  Score=30.46  Aligned_cols=63  Identities=17%  Similarity=0.288  Sum_probs=48.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          425 QGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       425 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      +.-++.+-+..+....+.|++....+.+.+|.+.+++..|.++++.++.+.+.  +...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            44466677777777788999999999999999999999999999988754332  4446666554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.23  E-value=5.7  Score=30.69  Aligned_cols=61  Identities=16%  Similarity=0.215  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          427 KEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       427 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      -+..+-+..+....+.|++....+.+.+|.+.+++..|.++++.++.+.+..  ...|..+++
T Consensus        27 we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   27 WELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            3566667777777889999999999999999999999999999998754433  336766664

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 ....

>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=85.92  E-value=0.93  Score=38.49  Aligned_cols=51  Identities=8%  Similarity=0.057  Sum_probs=21.4

Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHH
Q 048281          106 ISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKI  156 (660)
Q Consensus       106 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  156 (660)
                      |+.+.+.+.+.....+++.+...+..-+....+.++..|++.++.+....+
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~   64 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEF   64 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHH
Confidence            334444444444444444444433333344444444444444443333333

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=85.81  E-value=13  Score=37.42  Aligned_cols=84  Identities=11%  Similarity=-0.014  Sum_probs=40.7

Q ss_pred             hhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHH
Q 048281          492 GRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDI  569 (660)
Q Consensus       492 ~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  569 (660)
                      ...|++|.+...+.....  .....+...+++.....|++++|....+.++.-+-.+++....-+..-...|-++++...
T Consensus       334 ~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~  413 (831)
T PRK15180        334 SHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHY  413 (831)
T ss_pred             HHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHH
Confidence            345555555555543322  122334445555555555555555555555554444444433333333444555555555


Q ss_pred             HHHHHh
Q 048281          570 RHTMRQ  575 (660)
Q Consensus       570 ~~~~~~  575 (660)
                      ++++..
T Consensus       414 wk~~~~  419 (831)
T PRK15180        414 WKRVLL  419 (831)
T ss_pred             HHHHhc
Confidence            555544

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.61  E-value=25  Score=31.13  Aligned_cols=90  Identities=12%  Similarity=0.007  Sum_probs=66.0

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHH-----HHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCC
Q 048281          487 VIDMLGRAGQLNEAYELALAMPNEANPVVWRT-----LLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGG  561 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-----l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  561 (660)
                      +...+..+|++++|...++.....+....+..     |.+.....|.+|+|...+....+-.= .+..-..-++++...|
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w-~~~~~elrGDill~kg  173 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW-AAIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH-HHHHHHHhhhHHHHcC
Confidence            34567889999999999997665444444433     45677888999999988876433110 1223456789999999


Q ss_pred             ChHHHHHHHHHHHhCC
Q 048281          562 KYEEVLDIRHTMRQQN  577 (660)
Q Consensus       562 ~~~~a~~~~~~~~~~~  577 (660)
                      +-++|+.-|.+..+.+
T Consensus       174 ~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         174 DKQEARAAYEKALESD  189 (207)
T ss_pred             chHHHHHHHHHHHHcc
Confidence            9999999999998865

>smart00028 TPR Tetratricopeptide repeats

Probab=85.55  E-value=1.6  Score=24.75  Aligned_cols=30  Identities=23%  Similarity=0.174  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 048281          515 VWRTLLAASRLHGNTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       515 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  544 (660)
                      .|..+...+...|+++.|...+++.++..|
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            344455555555666666666666555544

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.

>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=85.53  E-value=0.53  Score=44.86  Aligned_cols=89  Identities=11%  Similarity=0.092  Sum_probs=68.7

Q ss_pred             hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHH
Q 048281          493 RAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIR  570 (660)
Q Consensus       493 ~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  570 (660)
                      ..|.+++|++.|.....  ++....|..-.+++.+.++...|++-+..+++++|+.+..|-.-+.+..-.|.|++|...+
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            56667888887776543  3444556666677888888888888888888888888888888888888888999999888


Q ss_pred             HHHHhCCCccC
Q 048281          571 HTMRQQNVRKN  581 (660)
Q Consensus       571 ~~~~~~~~~~~  581 (660)
                      ....+.++...
T Consensus       206 ~~a~kld~dE~  216 (377)
T KOG1308|consen  206 ALACKLDYDEA  216 (377)
T ss_pred             HHHHhccccHH
Confidence            88888777554

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=85.28  E-value=10  Score=31.11  Aligned_cols=24  Identities=8%  Similarity=0.023  Sum_probs=12.0

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHh
Q 048281          552 LMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       552 ~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .|+-.+.+.++|+.++++.+.+.+
T Consensus        76 YLAvg~yRlkeY~~s~~yvd~ll~   99 (149)
T KOG3364|consen   76 YLAVGHYRLKEYSKSLRYVDALLE   99 (149)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHHh
Confidence            344445555555555555555443

>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=85.15  E-value=1.3  Score=24.50  Aligned_cols=23  Identities=13%  Similarity=0.199  Sum_probs=16.9

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHH
Q 048281          549 NYVLMSNIYVAGGKYEEVLDIRH  571 (660)
Q Consensus       549 ~~~~l~~~~~~~g~~~~a~~~~~  571 (660)
                      ....++.++...|++++|..+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            45667777888888888877664

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

>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=85.12  E-value=2.2  Score=28.65  Aligned_cols=31  Identities=16%  Similarity=0.189  Sum_probs=25.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCcc
Q 048281          518 TLLAASRLHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       518 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                      .+.-++.+.|++++|.+..+.+++.+|+|..
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Q   36 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDNRQ   36 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-HH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCcHH
Confidence            4566889999999999999999999999854

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.06  E-value=1.7  Score=27.10  Aligned_cols=28  Identities=29%  Similarity=0.475  Sum_probs=24.0

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          548 GNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       548 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .++..|+.+|...|++++|..++++..+
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            4678999999999999999999998854

>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=84.90  E-value=2  Score=25.41  Aligned_cols=28  Identities=29%  Similarity=0.432  Sum_probs=25.3

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          548 GNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       548 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .+|..++.+|...|++++|.+.+++..+
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            4688999999999999999999998865

...

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=84.41  E-value=68  Score=35.04  Aligned_cols=43  Identities=19%  Similarity=0.130  Sum_probs=24.7

Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhh
Q 048281          104 AMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDV  147 (660)
Q Consensus       104 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~  147 (660)
                      .+|--+.+.|++++|.++....... .......|...+..+...
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            4566666777777777777544432 344455666666666554

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.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=84.11  E-value=9.9  Score=33.59  Aligned_cols=25  Identities=32%  Similarity=0.371  Sum_probs=12.0

Q ss_pred             HHHHHHHhHhcCChHHHHHHHccCC
Q 048281          172 GSALVNTYLKCQFMEEALKVFEELP  196 (660)
Q Consensus       172 ~~~li~~~~~~g~~~~A~~~~~~~~  196 (660)
                      +..+...|.+.|+.+.|.+.|.++.
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~   63 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRAR   63 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHh
Confidence            3444444555555555555444443

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.

>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=83.74  E-value=1.2  Score=37.72  Aligned_cols=86  Identities=9%  Similarity=0.098  Sum_probs=64.3

Q ss_pred             HHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChh
Q 048281           37 ASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAF  116 (660)
Q Consensus        37 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  116 (660)
                      .+++.+...+.+.....+++.+...+...++...+.++..|++.++.+...++++ ...   ..-...+++.+.+.|.++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~-~~~---~yd~~~~~~~c~~~~l~~   87 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK-TSN---NYDLDKALRLCEKHGLYE   87 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT-SSS---SS-CTHHHHHHHTTTSHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc-ccc---ccCHHHHHHHHHhcchHH
Confidence            4677777888888888899999888777788999999999999988899988888 222   133456677777777777


Q ss_pred             HHHHHHHHHH
Q 048281          117 KGLDFFNHMR  126 (660)
Q Consensus       117 ~a~~~~~~m~  126 (660)
                      +|.-++.++.
T Consensus        88 ~a~~Ly~~~~   97 (143)
T PF00637_consen   88 EAVYLYSKLG   97 (143)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHcc
Confidence            7777776654

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.

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=83.44  E-value=19  Score=33.08  Aligned_cols=61  Identities=8%  Similarity=-0.055  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          516 WRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       516 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +....+++...|++-++++....++...|++.-+|..-+.+.+..=+.++|..-|.++.+.
T Consensus       233 llNy~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~l  293 (329)
T KOG0545|consen  233 LLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLEL  293 (329)
T ss_pred             HHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhc
Confidence            3344456677889999999999999999999999999999998888888999888888763

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.75  E-value=41  Score=31.32  Aligned_cols=240  Identities=16%  Similarity=0.181  Sum_probs=137.1

Q ss_pred             CCHHHHHHHHHhcCC----C---ChhhHHHHHHHHHHcCChHHHHHHHHHHhhc---CCC--CCHHHHHHHHHHHhcccc
Q 048281          284 KCVGEALEIFEMMEE----K---DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSA---GFQ--PDLVTFSTVLPACSHLAA  351 (660)
Q Consensus       284 ~~~~~A~~~~~~~~~----~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~--p~~~t~~~ll~~~~~~~~  351 (660)
                      ..+++|+.-|+++.+    +   .--+.-.+|..+.+.+++++....|++|..-   .+.  -+..+.+.++...+.+.+
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            456777777776643    1   1224455778888888888888888777531   111  234566677766666666


Q ss_pred             hHHHHHHHHHHHHh-----CccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC------------C---CHh
Q 048281          352 LMHGRQIHGYIVVN-----GLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK------------K---DVA  411 (660)
Q Consensus       352 ~~~a~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------------~---~~~  411 (660)
                      .+.-..+++.-.+.     +-...        ..+-+-|...|...|.+..-.+++.++.+            +   -..
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLW--------FKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLE  192 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLW--------FKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLE  192 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceee--------eeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhh
Confidence            55555555443221     11111        23345677788888888887777776541            0   124


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHH-----hccCCHHHHHHHHHHhHHhcCC--CCCh--
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAK-LKPDEVTFVGVLSAC-----SHSGFLSQGREFLPLMESRYGV--VPTI--  481 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~-----~~~g~~~~a~~~~~~~~~~~~~--~~~~--  481 (660)
                      .|..=|..|....+-.+...+|++...-. --|.+... .+|+-|     .+.|.+++|-.-|=++.+.+.-  .|..  
T Consensus       193 iYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlIm-GvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRtt  271 (440)
T KOG1464|consen  193 IYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIM-GVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTT  271 (440)
T ss_pred             hHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHH-hHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhH
Confidence            67777888888888888888888776432 23444443 345544     3567777776544444432221  1222  


Q ss_pred             -HHHHHHHHHHhhcCC----HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 048281          482 -EHYTCVIDMLGRAGQ----LNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQ  537 (660)
Q Consensus       482 -~~~~~l~~~~~~~g~----~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  537 (660)
                       --|-.|.+++.+.|-    .++|.-    ....|.......|+.+|.. ++..+-+++++
T Consensus       272 CLKYLVLANMLmkS~iNPFDsQEAKP----yKNdPEIlAMTnlv~aYQ~-NdI~eFE~Il~  327 (440)
T KOG1464|consen  272 CLKYLVLANMLMKSGINPFDSQEAKP----YKNDPEILAMTNLVAAYQN-NDIIEFERILK  327 (440)
T ss_pred             HHHHHHHHHHHHHcCCCCCcccccCC----CCCCHHHHHHHHHHHHHhc-ccHHHHHHHHH
Confidence             235666777777662    222211    1123566778888888865 44444444443

>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=82.73  E-value=1.4e+02  Score=37.37  Aligned_cols=65  Identities=14%  Similarity=0.084  Sum_probs=55.0

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          512 NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      -..+|....+.++..|+++.|....-.+.+..+  +..+.-.+..+...|+-..|..++++-.+...
T Consensus      1669 ~ge~wLqsAriaR~aG~~q~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1669 LGECWLQSARIARLAGHLQRAQNALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            346899999999999999999888887777663  56788999999999999999999998875543

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=82.51  E-value=1.6  Score=25.47  Aligned_cols=28  Identities=14%  Similarity=0.343  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          549 NYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       549 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ++..++.++.+.|++++|.+.++++.+.
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4678899999999999999999998764

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.34  E-value=64  Score=33.25  Aligned_cols=163  Identities=10%  Similarity=0.070  Sum_probs=92.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS--KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACS  456 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  456 (660)
                      .....++++.+....+..-.+.+-.+|.  ..+-..|..++.+|..+ ..++-..+|+++.+..  -|.....--+..+.
T Consensus        66 d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~d--fnDvv~~ReLa~~y  142 (711)
T COG1747          66 DSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYD--FNDVVIGRELADKY  142 (711)
T ss_pred             chHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc--chhHHHHHHHHHHH
Confidence            4455566666666666666666666655  23555677777777777 4466677777777653  34444444444444


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCC------hHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCCHHHHHHHHHHHHHc
Q 048281          457 HSGFLSQGREFLPLMESRYGVVPT------IEHYTCVIDMLGRAGQLNEAYELALAMPN----EANPVVWRTLLAASRLH  526 (660)
Q Consensus       457 ~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~l~~~~~~~  526 (660)
                      ..++.+.+..+|..+..+  +.|.      ...|..|...-  ..+.+..+.+..++..    ..-.+.+.-+-.-|...
T Consensus       143 Ekik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~  218 (711)
T COG1747         143 EKIKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSEN  218 (711)
T ss_pred             HHhchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccc
Confidence            447777777777777653  3331      12444444321  2344445555444432    12234444455566667


Q ss_pred             CChHHHHHHHHHHHhcCCCCcc
Q 048281          527 GNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       527 g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                      .++++|++++..+++.+..+..
T Consensus       219 eN~~eai~Ilk~il~~d~k~~~  240 (711)
T COG1747         219 ENWTEAIRILKHILEHDEKDVW  240 (711)
T ss_pred             cCHHHHHHHHHHHhhhcchhhh
Confidence            7777787777777776555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.20  E-value=77  Score=34.12  Aligned_cols=179  Identities=14%  Similarity=0.142  Sum_probs=109.0

Q ss_pred             HHHHHHHHhcCCCC-CHhHHHHHHH----H-HHhcCChHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHhccC--
Q 048281          395 MRDAQMVFTKMSKK-DVASWNIMIL----G-YGMDGQGKEALDMFSCMCE-------AKLKPDEVTFVGVLSACSHSG--  459 (660)
Q Consensus       395 ~~~A~~~~~~~~~~-~~~~~~~li~----~-~~~~g~~~~A~~~~~~m~~-------~g~~p~~~~~~~ll~~~~~~g--  459 (660)
                      ...|.+.++...+. ++..-..+..    + +...++.+.|+.+|+.+.+       .|   +......+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            45566666665532 3333333332    2 4456789999999998877       55   2234445555565532  


Q ss_pred             ---CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh-cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHH
Q 048281          460 ---FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR-AGQLNEAYELALAMPNEANPVVWRTLLAASRL----HGNTDL  531 (660)
Q Consensus       460 ---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  531 (660)
                         +.+.|..++...... | .|+...+-..+..... ..+...|.++|........+...-.+...|..    ..+.+.
T Consensus       305 ~~~d~~~A~~~~~~aA~~-g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~  382 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAEL-G-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLEL  382 (552)
T ss_pred             ccccHHHHHHHHHHHHhc-C-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHH
Confidence               677899999988772 3 3444444333333333 24678999999887765555554444443332    237889


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhC-CChHHHHHHHHHHHhCCCcc
Q 048281          532 AEIAAQRVFQLEPGHCGNYVLMSNIYVAG-GKYEEVLDIRHTMRQQNVRK  580 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~  580 (660)
                      |...++++-+.++  +.+...++..+.-. ++++.+.-.+..+.+.|.+.
T Consensus       383 A~~~~k~aA~~g~--~~A~~~~~~~~~~g~~~~~~~~~~~~~~a~~g~~~  430 (552)
T KOG1550|consen  383 AFAYYKKAAEKGN--PSAAYLLGAFYEYGVGRYDTALALYLYLAELGYEV  430 (552)
T ss_pred             HHHHHHHHHHccC--hhhHHHHHHHHHHccccccHHHHHHHHHHHhhhhH
Confidence            9999999988773  33344444443322 78888887777777666543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=82.07  E-value=1.7  Score=26.01  Aligned_cols=20  Identities=15%  Similarity=0.135  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHHcCChHHH
Q 048281          513 PVVWRTLLAASRLHGNTDLA  532 (660)
Q Consensus       513 ~~~~~~l~~~~~~~g~~~~A  532 (660)
                      +..|+.+...|...|++++|
T Consensus        13 ~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   13 AEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             HHHHHHHHHHHHHCcCHHhh
Confidence            33444444444444444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=81.20  E-value=11  Score=28.78  Aligned_cols=48  Identities=10%  Similarity=0.164  Sum_probs=37.9

Q ss_pred             hhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHH
Q 048281          115 AFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFK  162 (660)
Q Consensus       115 ~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  162 (660)
                      .-++.+-++.+....+.|++....+.+++|.+.+++..|.++++-++.
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            335666667777777888888888888888888888888888887763

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.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=80.24  E-value=3.5  Score=35.76  Aligned_cols=45  Identities=11%  Similarity=0.085  Sum_probs=31.4

Q ss_pred             hHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCC----hHHHHHHHHHH
Q 048281          529 TDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGK----YEEVLDIRHTM  573 (660)
Q Consensus       529 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~----~~~a~~~~~~~  573 (660)
                      +++|+.-|++++.++|+...++..++++|...+.    ..+|..+|++.
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA   99 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKA   99 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHH
Confidence            5667788888889999999999999999987653    33444444443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

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	660
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	2e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 59.4 bits (142), Expect = 3e-09
 Identities = 21/182 (11%), Positives = 51/182 (28%), Gaps = 8/182 (4%)

Query: 124 HMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQ 183
             RQ    P +     L++     +++   +   G   +  L        A     L   
Sbjct: 82  CTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTD 141

Query: 184 FMEEALKVFEEL-------PLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRF 236
            +  A  +            L  + ++NA++ G+A+ G F + + V   +   G+     
Sbjct: 142 QLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLL 201

Query: 237 TVTGVLSALIMMG-FFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEM 295
           +    L  +                + + G          L+    +   +    ++   
Sbjct: 202 SYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPT 261

Query: 296 ME 297
             
Sbjct: 262 FS 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 = 57.1 bits (136), Expect = 1e-08
 Identities = 19/125 (15%), Positives = 39/125 (31%), Gaps = 7/125 (5%)

Query: 383 NALMDMYTKCGSMRDAQMVFTKMSKK-------DVASWNIMILGYGMDGQGKEALDMFSC 435
            A          +  A  +      +        +  +N ++LG+   G  KE + +   
Sbjct: 131 LAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFM 190

Query: 436 MCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG 495
           + +A L PD +++   L         +   E      S+ G+         ++    RA 
Sbjct: 191 VKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT 250

Query: 496 QLNEA 500
            L   
Sbjct: 251 VLKAV 255

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 53.3 bits (126), Expect = 2e-07
 Identities = 17/139 (12%), Positives = 41/139 (29%), Gaps = 9/139 (6%)

Query: 217 HKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNAL 276
              LE   R + E  W  +       +   +    +  +   G   +         + A 
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVE--QAPSGQHSQAQLSGQQQRLLAF 133

Query: 277 IDMYGKGKCVGEALEIFEMMEEK-------DIFSWNSIMTVHEQCGNHDGTLRLFDRMLS 329
                    +  A  +  +   +        +  +N++M    + G     + +   +  
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 330 AGFQPDLVTFSTVLPACSH 348
           AG  PDL++++  L     
Sbjct: 194 AGLTPDLLSYAAALQCMGR 212

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.5 bits (111), Expect = 1e-05
 Identities = 14/113 (12%), Positives = 35/113 (30%), Gaps = 6/113 (5%)

Query: 39  LQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNL----- 93
           LQ    + +L   Q       +  +      + +         Q+  A  +         
Sbjct: 99  LQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQ 158

Query: 94  -SCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCC 145
                 +  YNA++ G+       + +     ++  G+ PD  ++   ++C  
Sbjct: 159 KRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMG 211

>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 = 56.8 bits (136), Expect = 2e-08
 Identities = 78/605 (12%), Positives = 172/605 (28%), Gaps = 202/605 (33%)

Query: 100 FTYNAMISGF---YSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKI 156
           + Y  ++S F   + ++F  K  D  +  +   +L  +                 E+  I
Sbjct: 16  YQYKDILSVFEDAFVDNFDCK--DVQDMPKS--ILSKE-----------------EIDHI 54

Query: 157 HG---------LVFKLGLD-----LDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVL 202
                       +F   L      +  ++   L   Y   +F+   +K  +  P     +
Sbjct: 55  IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY---KFLMSPIKTEQRQPSMMTRM 111

Query: 203 WNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRF-TVTGVLSALIMMGFFKNGR--VVHG 259
           +    +        +   +VF + +     +SR      +  AL+ +   +  +  ++ G
Sbjct: 112 YIEQRD------RLYNDNQVFAKYN-----VSRLQPYLKLRQALLEL---RPAKNVLIDG 157

Query: 260 IVVKMGYDSGVPVMNALIDMYGKGKCV--GEAL---EIFEMMEEKDIFSWNSIMTVHEQC 314
                              + G GK     +     ++   M+ K IF W   + + + C
Sbjct: 158 -------------------VLGSGKTWVALDVCLSYKVQCKMDFK-IF-W---LNL-KNC 192

Query: 315 GNHDGTL----RLFDRMLSAGFQPDLVTFSTVLPACS---HLAALMHGRQ-IHGYIVVNG 366
            + +  L    +L  ++          + +  L   S    L  L+  +   +  +V   
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV--- 249

Query: 367 LAKNGSCKDIDDVFMNNALMDMYTKCGSM---RDAQMV-FTKMSKKDVASWNIMILGYGM 422
                    + +V    A       C  +   R  Q+  F   +     S +   +    
Sbjct: 250 ---------LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300

Query: 423 DGQGKEALDMFS-CM-CEAKLKPDEVTFVGVLSACSHSGF-LSQGREFLPLMESRYGVVP 479
           D    E   +    + C  +  P E          + +   LS   E +    + +    
Sbjct: 301 D----EVKSLLLKYLDCRPQDLPRE--------VLTTNPRRLSIIAESIRDGLATWD--- 345

Query: 480 TIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRV 539
             +H  C         +L    E +L   N   P  +R +           L+      V
Sbjct: 346 NWKHVNC--------DKLTTIIESSL---NVLEPAEYRKMF--------DRLS------V 380

Query: 540 FQLE---PGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN-VRKNPGCSWIELKDGLHT 595
           F      P      +L   +        +V+ + + + + + V K P       K+   +
Sbjct: 381 FPPSAHIPTI----LLS--LIWFDVIKSDVMVVVNKLHKYSLVEKQP-------KESTIS 427

Query: 596 FISSDRSHPEAKSIYAELHSLTARLREHGDCCAGTLFDSDSTASGFEKHRLYLEEVIAKG 655
                            + S+   L+   +             + +  HR  ++      
Sbjct: 428 -----------------IPSIYLELKVKLE-------------NEYALHRSIVDHYNIPK 457

Query: 656 SLDFD 660
           + D D
Sbjct: 458 TFDSD 462

>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 Length = 372

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 16/78 (20%), Positives = 30/78 (38%), Gaps = 2/78 (2%)

Query: 492 GRAGQLNEAYELALAM-PNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNY 550
            +   LN   +  + +       ++++    ++ + G TD +  A      LE     NY
Sbjct: 255 KQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWL-NY 313

Query: 551 VLMSNIYVAGGKYEEVLD 568
           VL+  +Y   G   E  D
Sbjct: 314 VLLGKVYEMKGMNREAAD 331

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	660
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
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	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	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.82
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.8
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.79
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.79
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.78
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.76
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.74
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.74
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.71
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.71
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.7
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.67
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.64
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.64
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.62
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.61
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.6
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.59
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.55
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.54
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.54
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.54
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.53
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.52
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.52
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.52
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.51
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.51
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.5
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.5
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.48
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.48
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.48
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.48
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.47
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.45
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.45
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.43
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.42
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.41
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.37
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.37
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.36
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.35
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.34
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.34
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.32
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.31
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.3
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.27
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.27
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.26
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.26
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.21
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.21
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.15
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.13
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.12
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.08
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.07
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.05
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.03
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.03
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.01
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.01
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.0
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.99
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.98
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.98
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.96
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.96
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.95
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.93
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.89
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.88
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.88
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.88
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.87
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.83
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.82
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.82
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.81
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.78
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.76
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.76
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.75
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.75
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.74
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.73
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.73
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.72
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.71
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.7
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.69
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.69
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.69
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.69
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.69
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.68
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.67
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.66
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.66
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.62
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.62
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.62
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.59
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.55
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.55
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.54
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.54
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.53
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.53
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.52
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.52
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.51
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.51
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.5
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.5
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.49
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.48
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.47
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.46
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.46
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.45
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.43
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.42
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.4
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.4
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.39
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.37
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.35
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.35
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.33
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.32
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.31
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.3
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.3
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.29
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.28
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.27
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.24
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.22
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.22
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.22
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.21
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.21
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.2
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.2
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.19
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.18
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.16
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.15
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.12
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.12
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.12
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.11
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.1
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.1
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.09
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.08
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.08
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.04
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.04
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.0
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.0
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.98
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.96
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.96
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.94
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.91
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.9
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.82
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.77
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.72
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.62
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.61
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.56
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.53
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.52
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.51
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.49
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.46
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.34
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.28
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.24
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.21
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.1
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.06
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.0
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.9
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.89
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.76
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.71
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.52
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.46
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.42
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.29
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.19
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.1
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.08
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.05
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.61
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.4
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.03
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.0
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	94.96
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.9
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.87
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.81
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.9
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.66
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.59
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.33
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	92.3
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	92.25
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	91.29
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.83
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	90.53
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.17
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.09
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	89.93
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	88.38
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	87.89
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.17
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	85.84
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	85.74
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	84.92
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.69
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	84.36
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	82.53
2p58_C	116	Putative type III secretion protein YSCG; type III	82.34
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	81.94
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	81.04
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	81.02
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	80.95
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	80.1

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.6e-42  Score=373.09  Aligned_cols=481  Identities=10%  Similarity=-0.034  Sum_probs=400.1

Q ss_pred             HhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHH
Q 048281           76 MYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKK  155 (660)
Q Consensus        76 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~  155 (660)
                      .+.+.|.+..+...++ .++.+++..|+.++..|.+.|++++|+.+|++|..  ..|+..++..++.+|.+.|++++|..
T Consensus        62 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           62 NTSTDGSFLKERNAQN-TDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cccccCccCCCCCccc-cchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHH
Confidence            3556778888888888 77778999999999999999999999999999985  46788999999999999999999999


Q ss_pred             HHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCC-------------------CchhHHHHHHHHHhCCCh
Q 048281          156 IHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLR-------------------DVVLWNAMVNGYAQIGEF  216 (660)
Q Consensus       156 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~~~~  216 (660)
                      +++.+...  +++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++
T Consensus       139 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  216 (597)
T 2xpi_A          139 LLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNF  216 (597)
T ss_dssp             HHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCH
Confidence            99988643  678899999999999999999999999965433                   378999999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHccCCchhH--HHH-HHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHH
Q 048281          217 HKALEVFRRMSKEGIWMSR-FTVTGVLSALIMMGFFKNG--RVV-HGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEI  292 (660)
Q Consensus       217 ~~A~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~a--~~~-~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~  292 (660)
                      ++|+++|++|.+.+  |+. ..+..+...+...+..+.+  ..+ +..+...+..+...+|+.++..|.+.|++++|.++
T Consensus       217 ~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  294 (597)
T 2xpi_A          217 DRAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDY  294 (597)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHH
Confidence            99999999998854  443 3444444333322221111  111 33444444445566777888999999999999999


Q ss_pred             HHhcCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCC
Q 048281          293 FEMMEE--KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKN  370 (660)
Q Consensus       293 ~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  370 (660)
                      |+++.+  ++..+|+.++..|.+.|++++|+++|+++.+.+ +.+..++..++.++...|++++|..+++.+.+..... 
T Consensus       295 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-  372 (597)
T 2xpi_A          295 LSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEK-  372 (597)
T ss_dssp             HHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTS-
T ss_pred             HHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCccc-
Confidence            999988  789999999999999999999999999999875 3367789999999999999999999999998765433 


Q ss_pred             CCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 048281          371 GSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVT  447 (660)
Q Consensus       371 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  447 (660)
                              ..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+
T Consensus       373 --------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  443 (597)
T 2xpi_A          373 --------AVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLP  443 (597)
T ss_dssp             --------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHH
T ss_pred             --------HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHH
Confidence                    8899999999999999999999999875   3578899999999999999999999999999864 457889


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCC-------CCCC--HHHHHH
Q 048281          448 FVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMP-------NEAN--PVVWRT  518 (660)
Q Consensus       448 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~--~~~~~~  518 (660)
                      |..++.+|.+.|++++|.++|+.+.+.  .+.+..+|..++.+|.+.|++++|.++|+++.       ..|+  ..+|..
T Consensus       444 ~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~  521 (597)
T 2xpi_A          444 YLFLGMQHMQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWAN  521 (597)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHH
Confidence            999999999999999999999999873  44578899999999999999999999999873       2466  789999


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ++.+|.+.|++++|+..++++++.+|+++.+|..++.+|.+.|++++|.++++++.+.
T Consensus       522 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          522 LGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999999999999874

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.9e-39  Score=347.19  Aligned_cols=479  Identities=9%  Similarity=-0.034  Sum_probs=368.6

Q ss_pred             CChhHHHHHHHHhHcCCChhHHHHHHccCC-CCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHH
Q 048281           65 DSPLSITSLINMYSKCCQMKYALFVFNNLS-CEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKC  143 (660)
Q Consensus        65 ~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~  143 (660)
                      +++..|+.++..|.+.|++++|..+|++.. ..|+..+|+.++.+|.+.|++++|..+|+++...  .++..+++.++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHH
Confidence            456667777777777777777777776321 2355566667777777777777777777766432  4566677777777


Q ss_pred             HhhhCCHHHHHHHHHHHHHh---------------CCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCC---CchhHHH
Q 048281          144 CCDVMAVLEVKKIHGLVFKL---------------GLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLR---DVVLWNA  205 (660)
Q Consensus       144 ~~~~~~~~~a~~~~~~~~~~---------------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~  205 (660)
                      +.+.|++++|.++++++...               |.+++..+|+.++.+|.+.|++++|..+|+++.+.   +...|..
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  239 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQ  239 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHH
Confidence            77777777777777642211               22345777888888888888888888888777532   3344444


Q ss_pred             HHHHHHhCCChhHHHH--H-HHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHc
Q 048281          206 MVNGYAQIGEFHKALE--V-FRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGK  282 (660)
Q Consensus       206 li~~~~~~~~~~~A~~--~-~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  282 (660)
                      +...+...+..+.+..  + +..+...+..+...+|..++..|.+.|++++|.++++.+.+.  +++..+++.++.+|.+
T Consensus       240 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~  317 (597)
T 2xpi_A          240 LVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFV  317 (597)
T ss_dssp             HHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHH
T ss_pred             HHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHH
Confidence            4443333322222111  1 444444444455556667777788888888888888877665  4778888888888888


Q ss_pred             CCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHH
Q 048281          283 GKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIH  359 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  359 (660)
                      .|++++|.++|+++.+   .+..+|+.++.++.+.|++++|..+++++.+.. +.+..++..+...+.+.|++++|.+++
T Consensus       318 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  396 (597)
T 2xpi_A          318 RSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYF  396 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHH
Confidence            8888888888888753   366788889999999999999999999888653 446778888888899999999999999


Q ss_pred             HHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048281          360 GYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCM  436 (660)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  436 (660)
                      +.+.+.....         ..+|+.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|.++|+++
T Consensus       397 ~~~~~~~~~~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  467 (597)
T 2xpi_A          397 SKSSTMDPQF---------GPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSS  467 (597)
T ss_dssp             HHHHHHCTTC---------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhCCCC---------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9888765433         7789999999999999999999999875   347789999999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCCC--hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--
Q 048281          437 CEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRY---GVVPT--IEHYTCVIDMLGRAGQLNEAYELALAMPN--  509 (660)
Q Consensus       437 ~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  509 (660)
                      .+.. +.+..+|..++..|.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|.+.++++..  
T Consensus       468 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  546 (597)
T 2xpi_A          468 YALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS  546 (597)
T ss_dssp             HHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            9864 4578899999999999999999999999998732   56777  78999999999999999999999998754  


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          510 EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       510 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      +.+..+|..++.+|...|++++|.+.++++++++|+++..+..++.+|.
T Consensus       547 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          547 TNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALE  595 (597)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHh
Confidence            4578999999999999999999999999999999999999999988774

>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=4.6e-26  Score=232.82  Aligned_cols=372  Identities=11%  Similarity=0.062  Sum_probs=274.8

Q ss_pred             HHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC---CCCchhHHHHHHHHHhCCCh
Q 048281          140 LIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP---LRDVVLWNAMVNGYAQIGEF  216 (660)
Q Consensus       140 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~  216 (660)
                      +...+.+.|++++|.+.+..+.+.. +.+...+..+...+...|++++|...++...   ..+..+|..+...|.+.|++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            3455677888888888888887764 2244566667777788888888888876654   23566788888888888888


Q ss_pred             hHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHh
Q 048281          217 HKALEVFRRMSKEGIWMS-RFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEM  295 (660)
Q Consensus       217 ~~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  295 (660)
                      ++|++.|+++.+.  .|+ ..+|..+..++...|++++|...+..+.+.. +.+...+..+...|...|++++|.+.|++
T Consensus        84 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           84 QEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            8888888887763  343 3456667777777777777777776666553 22333444555555555555555555555


Q ss_pred             cCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCC
Q 048281          296 MEE--K-DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGS  372 (660)
Q Consensus       296 ~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  372 (660)
                      +.+  | +..+|+.+...+...|++++|...|+                                   .+...++..   
T Consensus       161 al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~-----------------------------------~al~~~p~~---  202 (388)
T 1w3b_A          161 AIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFE-----------------------------------KAVTLDPNF---  202 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHH-----------------------------------HHHHHCTTC---
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH-----------------------------------HHHhcCCCc---
Confidence            432  1 23444444444545555555554444                                   444433322   


Q ss_pred             CCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 048281          373 CKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFV  449 (660)
Q Consensus       373 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  449 (660)
                            ...+..+...+...|++++|...|++..   ..+..+|..+..+|...|++++|+..|+++.+.+ +.+..++.
T Consensus       203 ------~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~  275 (388)
T 1w3b_A          203 ------LDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYC  275 (388)
T ss_dssp             ------HHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHH
T ss_pred             ------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHH
Confidence                  5566777777888888888888887654   3357788899999999999999999999999863 33567888


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcC
Q 048281          450 GVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHG  527 (660)
Q Consensus       450 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g  527 (660)
                      .+..++.+.|++++|.+.++.+.+  ..+.+..++..+..++.+.|++++|.+.++++..  +.+..++..++.++.+.|
T Consensus       276 ~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g  353 (388)
T 1w3b_A          276 NLANALKEKGSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQG  353 (388)
T ss_dssp             HHHHHHHHHSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh--hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcC
Confidence            899999999999999999999987  3566788999999999999999999999998765  456789999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCC
Q 048281          528 NTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGK  562 (660)
Q Consensus       528 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  562 (660)
                      ++++|+..+++++++.|+++..|..++.++...|+
T Consensus       354 ~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          354 KLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             CCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            99999999999999999999999999999887764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=1.5e-25  Score=228.91  Aligned_cols=353  Identities=12%  Similarity=0.055  Sum_probs=298.2

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCC
Q 048281          207 VNGYAQIGEFHKALEVFRRMSKEGIWMS-RFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKC  285 (660)
Q Consensus       207 i~~~~~~~~~~~A~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~  285 (660)
                      ...+.+.|++++|++.+.++.+.  .|+ ...+..+...+...|+++.|...+....+.. +.+...+..+...|.+.|+
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            34566778888888888777664  244 3455556666777788888888887777654 4567788889999999999


Q ss_pred             HHHHHHHHHhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCH-HHHHHHHHHHhcccchHHHHHHHHH
Q 048281          286 VGEALEIFEMMEE--K-DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL-VTFSTVLPACSHLAALMHGRQIHGY  361 (660)
Q Consensus       286 ~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~  361 (660)
                      +++|+..|+++.+  | +..+|..+...+.+.|++++|.+.|+++.+.  .|+. ..+..+...+...|++++|...+..
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            9999999988754  3 4567899999999999999999999999876  4554 4556666778888999999999999


Q ss_pred             HHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048281          362 IVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCE  438 (660)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  438 (660)
                      +....+..         ..++..+...|.+.|++++|...|+++.   ..+...|..+...+...|++++|+..+++...
T Consensus       161 al~~~p~~---------~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  231 (388)
T 1w3b_A          161 AIETQPNF---------AVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS  231 (388)
T ss_dssp             HHHHCTTC---------HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH
T ss_pred             HHHhCCCC---------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            98876544         7889999999999999999999999876   34677899999999999999999999999988


Q ss_pred             cCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHH
Q 048281          439 AKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVW  516 (660)
Q Consensus       439 ~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~  516 (660)
                      .. +.+..++..+..++...|++++|...++.+.+  ..+.+..+|..+..+|.+.|++++|.+.++++..  +.+..+|
T Consensus       232 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  308 (388)
T 1w3b_A          232 LS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSL  308 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             hC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHH
Confidence            53 33567888899999999999999999999987  3344578899999999999999999999998754  5678899


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          517 RTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       517 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ..+...+...|++++|+..++++++..|+++.++..++.+|.+.|++++|.+.++++.+.
T Consensus       309 ~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          309 NNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999999999999999999999863

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=6.3e-28  Score=250.59  Aligned_cols=212  Identities=12%  Similarity=0.087  Sum_probs=176.5

Q ss_pred             HHHHHHHHHHHCCCCCCc-ccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccC
Q 048281          117 KGLDFFNHMRQLGVLPDK-YTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEEL  195 (660)
Q Consensus       117 ~a~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  195 (660)
                      .+..+.+++.+.++.+.+ ..++.+|++|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+...++       
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            455666777777766554 358889999999999999999999999999999999999999999887764332       


Q ss_pred             CCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHH
Q 048281          196 PLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNA  275 (660)
Q Consensus       196 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  275 (660)
                                     .+.+.++.|.++|++|...|+.||..||+++|.+|++.|+++.|.+++++|.+.|+.||..+|++
T Consensus        81 ---------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~  145 (501)
T 4g26_A           81 ---------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP  145 (501)
T ss_dssp             ---------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             ---------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehH
Confidence                           12455688999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCHHHHHHHHHhcCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhccc
Q 048281          276 LIDMYGKGKCVGEALEIFEMMEE----KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLA  350 (660)
Q Consensus       276 li~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~  350 (660)
                      +|.+|++.|++++|.++|++|.+    ||..+|++||.+|++.|+.++|.++|++|.+.|..|+..||+.++..++..+
T Consensus       146 lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            99999999999999999999964    7999999999999999999999999999999999999999999999887643

>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=2.5e-27  Score=246.08  Aligned_cols=182  Identities=10%  Similarity=0.078  Sum_probs=138.5

Q ss_pred             cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCC---------HHHHHHHHHHHHHhCCCCChhH
Q 048281          101 TYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMA---------VLEVKKIHGLVFKLGLDLDVYI  171 (660)
Q Consensus       101 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~---------~~~a~~~~~~~~~~g~~~~~~~  171 (660)
                      .++.+|.+|++.|++++|+++|++|.+.|+.||..||++||.+|++.+.         ++.|.++|++|.+.|+.||..+
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~t  107 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT  107 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHH
Confidence            4566667777777777777777777777777777777777777765443         5667777777777777777777


Q ss_pred             HHHHHHHhHhcCChHHHHHHHccCC----CCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 048281          172 GSALVNTYLKCQFMEEALKVFEELP----LRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIM  247 (660)
Q Consensus       172 ~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~  247 (660)
                      |++||.+|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++
T Consensus       108 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~  187 (501)
T 4g26_A          108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMD  187 (501)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhh
Confidence            7777777777777777777776664    357777777777788888888888888888888888888888888888888


Q ss_pred             cCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHc
Q 048281          248 MGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGK  282 (660)
Q Consensus       248 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  282 (660)
                      .|++++|.+++++|.+.|..|+..||+.++..++.
T Consensus       188 ~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          188 TKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            88888888888888888888888888888877765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=2.4e-23  Score=221.17  Aligned_cols=437  Identities=9%  Similarity=-0.054  Sum_probs=239.0

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHh
Q 048281          102 YNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLK  181 (660)
Q Consensus       102 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  181 (660)
                      |......+.+.|++++|+..|+++.+..  |+..+|..+..++...|++++|...++.+++.+ +.+...+..+..+|.+
T Consensus         9 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            9 LKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHH
Confidence            4445556666666666666666666643  566666666666666666666666666666654 2244556666666666


Q ss_pred             cCChHHHHHHHccCCC---CCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHH
Q 048281          182 CQFMEEALKVFEELPL---RDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVH  258 (660)
Q Consensus       182 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~  258 (660)
                      .|++++|...|+++..   .+......++..+........+.+.+..+...+..|+...+..-...............+.
T Consensus        86 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMA  165 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHH
T ss_pred             HhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHH
Confidence            6666666666655432   1223333333333332222222222222222111111111111000000001111111111


Q ss_pred             HHHHHhCC---------CCCchHHHHHHHHHHc---CCCHHHHHHHHHhcCC----------------C-ChhhHHHHHH
Q 048281          259 GIVVKMGY---------DSGVPVMNALIDMYGK---GKCVGEALEIFEMMEE----------------K-DIFSWNSIMT  309 (660)
Q Consensus       259 ~~~~~~g~---------~~~~~~~~~li~~~~~---~~~~~~A~~~~~~~~~----------------~-~~~~~~~li~  309 (660)
                      ..+.....         +.+...+..+...+..   .|++++|...|+++.+                + +..+|..+..
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (514)
T 2gw1_A          166 SFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGI  245 (514)
T ss_dssp             HHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHH
Confidence            11100000         1112333333333333   6677777777666543                1 2345666777


Q ss_pred             HHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHH
Q 048281          310 VHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMY  389 (660)
Q Consensus       310 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~  389 (660)
                      .+...|++++|...|+++.+..  |+...+..+...+...|+++.|...++.+.......         ..++..+...|
T Consensus       246 ~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---------~~~~~~l~~~~  314 (514)
T 2gw1_A          246 FKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNN---------SSVYYHRGQMN  314 (514)
T ss_dssp             HHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTC---------THHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCC---------HHHHHHHHHHH
Confidence            7777777777777777777653  335566666666777777777777777666554332         55666677777


Q ss_pred             HhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048281          390 TKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGRE  466 (660)
Q Consensus       390 ~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  466 (660)
                      ...|++++|...|+++.   ..+...|..+...|...|++++|+..++++.+.. +.+..++..+...+...|++++|..
T Consensus       315 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  393 (514)
T 2gw1_A          315 FILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALK  393 (514)
T ss_dssp             HHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHH
Confidence            77777777777776653   2345566667777777777777777777776642 2344566666667777777777777


Q ss_pred             HHHHhHHhcCCCCC----hHHHHHHHHHHhh---cCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 048281          467 FLPLMESRYGVVPT----IEHYTCVIDMLGR---AGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQ  537 (660)
Q Consensus       467 ~~~~~~~~~~~~~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~  537 (660)
                      .++.+.+...-.++    ...+..+..+|..   .|++++|...++++..  +.+..+|..+...+...|++++|...++
T Consensus       394 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  473 (514)
T 2gw1_A          394 QYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFE  473 (514)
T ss_dssp             HHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            77776653222222    3366667777777   7777777777766432  3455666677777777777777777777


Q ss_pred             HHHhcCCCCcchHHHH
Q 048281          538 RVFQLEPGHCGNYVLM  553 (660)
Q Consensus       538 ~~~~~~p~~~~~~~~l  553 (660)
                      +++++.|+++..+..+
T Consensus       474 ~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          474 ESADLARTMEEKLQAI  489 (514)
T ss_dssp             HHHHHCSSHHHHHHHH
T ss_pred             HHHHhccccHHHHHHH
Confidence            7777777665554443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=1.9e-22  Score=214.26  Aligned_cols=427  Identities=8%  Similarity=-0.064  Sum_probs=320.9

Q ss_pred             ccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC---CCCchhHHHHHHHHH
Q 048281          135 YTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP---LRDVVLWNAMVNGYA  211 (660)
Q Consensus       135 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~  211 (660)
                      ..+......+.+.|++++|...|+.+++..  |+...+..+..+|.+.|++++|...|+++.   ..+..+|..+...|.
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence            346667788899999999999999999976  688999999999999999999999999875   236678999999999


Q ss_pred             hCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHH---HHHHHcCCCHHH
Q 048281          212 QIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNAL---IDMYGKGKCVGE  288 (660)
Q Consensus       212 ~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l---i~~~~~~~~~~~  288 (660)
                      +.|++++|++.|+++...+. ++......++..+........+.+.+..+...+..|+......-   ............
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            99999999999999988753 44444444554444333333333222222211111111100000   001111111222


Q ss_pred             HHHHHHhcCC---------C-ChhhHHHHHHHHHH---cCChHHHHHHHHHHhh-----cCCCC--------CHHHHHHH
Q 048281          289 ALEIFEMMEE---------K-DIFSWNSIMTVHEQ---CGNHDGTLRLFDRMLS-----AGFQP--------DLVTFSTV  342 (660)
Q Consensus       289 A~~~~~~~~~---------~-~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~-----~g~~p--------~~~t~~~l  342 (660)
                      +...+.....         + +...+......+..   .|++++|+..|+++.+     ..-.|        +...+..+
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHH
Confidence            2222222211         1 23445555555554   8999999999999987     32122        23567777


Q ss_pred             HHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHH
Q 048281          343 LPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILG  419 (660)
Q Consensus       343 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  419 (660)
                      ...+...|+++.|...++.+......          ..++..+...|...|++++|...|+++..   .+...|..+...
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~~~~----------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  313 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIELFPR----------VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQM  313 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHHCCC----------HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcc----------HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHH
Confidence            78889999999999999999877532          56788899999999999999999998753   467789999999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHH
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNE  499 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  499 (660)
                      |...|++++|+..++++.+.. +.+...+..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++
T Consensus       314 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~  390 (514)
T 2gw1_A          314 NFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDK  390 (514)
T ss_dssp             HHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHH
Confidence            999999999999999999864 335678888889999999999999999999873  34467889999999999999999


Q ss_pred             HHHHHHhCCC----CCC----HHHHHHHHHHHHH---cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHH
Q 048281          500 AYELALAMPN----EAN----PVVWRTLLAASRL---HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       500 A~~~~~~~~~----~~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  568 (660)
                      |...++++..    .++    ...|..+...+..   .|++++|...++++++..|+++.++..++.+|...|++++|..
T Consensus       391 A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~  470 (514)
T 2gw1_A          391 ALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAIT  470 (514)
T ss_dssp             HHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHH
Confidence            9999988643    122    3489999999999   9999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCC
Q 048281          569 IRHTMRQQN  577 (660)
Q Consensus       569 ~~~~~~~~~  577 (660)
                      .+++..+..
T Consensus       471 ~~~~a~~~~  479 (514)
T 2gw1_A          471 LFEESADLA  479 (514)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhc
Confidence            999998743

>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=99.90  E-value=2.7e-21  Score=201.68  Aligned_cols=336  Identities=11%  Similarity=0.023  Sum_probs=231.7

Q ss_pred             CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHH
Q 048281          199 DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALID  278 (660)
Q Consensus       199 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  278 (660)
                      +...|..+...+.+.|++++|+++|+++.+.. +.+..++..+..++...|+++.|...++.+.+.+ +.+..++..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            34455666666666666666666666665531 2234455555555555555555555555555543 223445555666


Q ss_pred             HHHcCCCHHHHHHHHHhcCCCC---h---hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccch
Q 048281          279 MYGKGKCVGEALEIFEMMEEKD---I---FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAAL  352 (660)
Q Consensus       279 ~~~~~~~~~~A~~~~~~~~~~~---~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  352 (660)
                      +|.+.|++++|...|+++.+.+   .   ..|..++..+...                       .+..+...+...|++
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~~~  159 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQ-----------------------RLRSQALNAFGSGDY  159 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHcCCH
Confidence            6666666666666666554321   1   3333333221110                       111122234555666


Q ss_pred             HHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHH
Q 048281          353 MHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEA  429 (660)
Q Consensus       353 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A  429 (660)
                      +.|...++.+.......         ..++..++.+|.+.|++++|.+.|+++.   ..+..+|..++.+|...|++++|
T Consensus       160 ~~A~~~~~~~~~~~~~~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  230 (450)
T 2y4t_A          160 TAAIAFLDKILEVCVWD---------AELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELS  230 (450)
T ss_dssp             HHHHHHHHHHHHHCTTC---------HHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCC---------hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            66666666666554332         6777888888888888888888888775   35678899999999999999999


Q ss_pred             HHHHHHHHHcCCCCCH-HHHHHH------------HHHHhccCCHHHHHHHHHHhHHhcCCCCC-----hHHHHHHHHHH
Q 048281          430 LDMFSCMCEAKLKPDE-VTFVGV------------LSACSHSGFLSQGREFLPLMESRYGVVPT-----IEHYTCVIDML  491 (660)
Q Consensus       430 ~~~~~~m~~~g~~p~~-~~~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~  491 (660)
                      +..|+++...  .|+. ..+..+            ...|...|++++|...|+.+.+.   .|+     ...+..++.++
T Consensus       231 ~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~  305 (450)
T 2y4t_A          231 LSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCF  305 (450)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHH
Confidence            9999999875  4443 334333            67899999999999999999873   233     45788999999


Q ss_pred             hhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHH------------H
Q 048281          492 GRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNI------------Y  557 (660)
Q Consensus       492 ~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~------------~  557 (660)
                      .+.|++++|...++++..  +.+..+|..++.+|...|++++|...+++++++.|+++..+..++.+            |
T Consensus       306 ~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y  385 (450)
T 2y4t_A          306 SKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYY  385 (450)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSG
T ss_pred             HHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHH
Confidence            999999999999998653  45788999999999999999999999999999999999999988844            4


Q ss_pred             HhCC-----ChHHHHHHHHHH
Q 048281          558 VAGG-----KYEEVLDIRHTM  573 (660)
Q Consensus       558 ~~~g-----~~~~a~~~~~~~  573 (660)
                      ...|     +.+++.+.++++
T Consensus       386 ~~lg~~~~~~~~~~~~~y~~~  406 (450)
T 2y4t_A          386 KILGVKRNAKKQEIIKAYRKL  406 (450)
T ss_dssp             GGSCSSTTCCTTHHHHHHHHH
T ss_pred             HHhCCCccCCHHHHHHHHHHH
Confidence            4455     556777777763

>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=1.5e-21  Score=208.63  Aligned_cols=419  Identities=9%  Similarity=0.023  Sum_probs=231.9

Q ss_pred             cccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHH
Q 048281           99 VFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNT  178 (660)
Q Consensus        99 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  178 (660)
                      ...|..+...+.+.|++++|+..|+++.+... .+...|..+..++...|++++|.+.++.+++.. +.+...+..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-NEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            34567778888899999999999999887642 267788888888999999999999999998875 3356778888888


Q ss_pred             hHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCC------CCCChhhHHHHHHHHHccCCch
Q 048281          179 YLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEG------IWMSRFTVTGVLSALIMMGFFK  252 (660)
Q Consensus       179 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~------~~p~~~t~~~ll~~~~~~~~~~  252 (660)
                      |...|++++|...|+.+. .+....+..+..+...+....|+..++++....      ..|+.....    .+....+.+
T Consensus       103 ~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~----~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLA----SFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHH----HHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHH----HHHHhcChH
Confidence            899999999999886442 223333334455555666678888888875431      122222222    122222222


Q ss_pred             hHHHHHHHHHHhCCCCCch---HHHHHHHHHHcC--------CCHHHHHHHHHhcCCCC----------hhhHHHHHHHH
Q 048281          253 NGRVVHGIVVKMGYDSGVP---VMNALIDMYGKG--------KCVGEALEIFEMMEEKD----------IFSWNSIMTVH  311 (660)
Q Consensus       253 ~a~~~~~~~~~~g~~~~~~---~~~~li~~~~~~--------~~~~~A~~~~~~~~~~~----------~~~~~~li~~~  311 (660)
                      .+...+..    ....+..   ....+...+...        |++++|..+|+++.+.+          ..+|..+...+
T Consensus       178 ~~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          178 LEVSSVNT----SSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             HHHHTSCC----CCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhh----ccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHH
Confidence            21111100    0011111   222222222221        23444444444443311          11233333444


Q ss_pred             HHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh
Q 048281          312 EQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK  391 (660)
Q Consensus       312 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~  391 (660)
                      ...|++++|...|++..+.  .|+..                                           .+..+...|..
T Consensus       254 ~~~~~~~~A~~~~~~~~~~--~~~~~-------------------------------------------~~~~l~~~~~~  288 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINL--HPTPN-------------------------------------------SYIFLALTLAD  288 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCCHH-------------------------------------------HHHHHHHHTCC
T ss_pred             HhcccHHHHHHHHHHHHhc--CCCch-------------------------------------------HHHHHHHHHHH
Confidence            4444444444444444443  23333                                           44444555555


Q ss_pred             cCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048281          392 CGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFL  468 (660)
Q Consensus       392 ~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  468 (660)
                      .|++++|...|+++.   ..+..+|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|..++
T Consensus       289 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  367 (537)
T 3fp2_A          289 KENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFF  367 (537)
T ss_dssp             SSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            555555555555443   2244555556666666666666666666665542 223445555556666666666666666


Q ss_pred             HHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----C----CCHHHHHHHHHHHHHc----------CChH
Q 048281          469 PLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN----E----ANPVVWRTLLAASRLH----------GNTD  530 (660)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~----~~~~~~~~l~~~~~~~----------g~~~  530 (660)
                      +.+.+.  .+.+...+..+...|...|++++|...++++..    .    .....+..+..++...          |+++
T Consensus       368 ~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  445 (537)
T 3fp2_A          368 NETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFN  445 (537)
T ss_dssp             HHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHH
T ss_pred             HHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHH
Confidence            666552  233445566666666666666666666655422    0    1112233444555555          6777


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          531 LAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       531 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +|+..++++++..|+++..+..++.+|...|++++|.+.+++..+.
T Consensus       446 ~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          446 AAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            7777777777777776666777777777777777777777766553

>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=196.61  Aligned_cols=306  Identities=11%  Similarity=0.020  Sum_probs=241.0

Q ss_pred             ChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHH
Q 048281          234 SRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTV  310 (660)
Q Consensus       234 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~  310 (660)
                      +...+..+...+.+.|+++.|..+++.+.+.. +.+..++..+..+|.+.|++++|...|+++.+   .+..+|..++..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            44566777777777788888888877777653 34566777777777777777777777777654   245677777777


Q ss_pred             HHHcCChHHHHHHHHHHhhcCCCCCH----HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHH
Q 048281          311 HEQCGNHDGTLRLFDRMLSAGFQPDL----VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALM  386 (660)
Q Consensus       311 ~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li  386 (660)
                      |.+.|++++|...|+++.+.  .|+.    ..+..+...+.                               ...+..+.
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~-------------------------------~~~~~~~a  150 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDE-------------------------------MQRLRSQA  150 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHH-------------------------------HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHH-------------------------------HHHHHHHH
Confidence            77777777777777777764  3443    23333322211                               22334456


Q ss_pred             HHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 048281          387 DMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQ  463 (660)
Q Consensus       387 ~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  463 (660)
                      ..|.+.|++++|...|+++.   ..+...+..++.+|.+.|++++|+..|+++.+.. +.+..++..+...+...|++++
T Consensus       151 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  229 (450)
T 2y4t_A          151 LNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHEL  229 (450)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            67889999999999999876   3477899999999999999999999999999863 4567889999999999999999


Q ss_pred             HHHHHHHhHHhcCCCCChHHHHHH------------HHHHhhcCCHHHHHHHHHhCCC-CCC-----HHHHHHHHHHHHH
Q 048281          464 GREFLPLMESRYGVVPTIEHYTCV------------IDMLGRAGQLNEAYELALAMPN-EAN-----PVVWRTLLAASRL  525 (660)
Q Consensus       464 a~~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~g~~~~A~~~~~~~~~-~~~-----~~~~~~l~~~~~~  525 (660)
                      |...++.+.+.  .+.+...+..+            +..+.+.|++++|...|+++.. .|+     ...|..+..++.+
T Consensus       230 A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~  307 (450)
T 2y4t_A          230 SLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSK  307 (450)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHH
Confidence            99999999863  33344455444            8899999999999999998754 333     3478889999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          526 HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       526 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .|++++|+..++++++..|+++..+..++.+|...|++++|...++++.+.
T Consensus       308 ~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          308 DEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999874

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.88  E-value=1.5e-19  Score=193.15  Aligned_cols=439  Identities=9%  Similarity=-0.039  Sum_probs=287.4

Q ss_pred             chhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccC--CCCCCcccHHHHHHH
Q 048281           31 TLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNL--SCEPNVFTYNAMISG  108 (660)
Q Consensus        31 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~li~~  108 (660)
                      ....+..+...+.+.|++++|...++.+++... .++..+..+..+|.+.|++++|++.|++.  ..+.+...|..+...
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~  102 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-NEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHH
Confidence            356677788888899999999999999888763 46788888888999999999999998852  244567788888889


Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCC--CCChhHHHHHHHHhHhcCChH
Q 048281          109 FYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGL--DLDVYIGSALVNTYLKCQFME  186 (660)
Q Consensus       109 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~  186 (660)
                      +...|++++|+..|+.+. .  .|+..  ...+..+...+....|...++.+.....  .+........+..+....+.+
T Consensus       103 ~~~~g~~~~A~~~~~~~~-~--~~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLS-L--NGDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHHHHh-c--CCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            999999999999986432 2  22221  2223444555666778888887755311  111122234455566677777


Q ss_pred             HHHHHHccCCCCCch---hHHHHHHHHHhC--------CChhHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHccCCchhH
Q 048281          187 EALKVFEELPLRDVV---LWNAMVNGYAQI--------GEFHKALEVFRRMSKEGIWMSR-FTVTGVLSALIMMGFFKNG  254 (660)
Q Consensus       187 ~A~~~~~~~~~~~~~---~~~~li~~~~~~--------~~~~~A~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~a  254 (660)
                      .+...+......+..   .+..+...+...        |++++|+++++++.+..  |+. ..+..+             
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~-------------  242 (537)
T 3fp2_A          178 LEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENA-------------  242 (537)
T ss_dssp             HHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHH-------------
T ss_pred             HHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHH-------------
Confidence            777777666654433   333333332222        35666777776665432  221 111111             


Q ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCC
Q 048281          255 RVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE--KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGF  332 (660)
Q Consensus       255 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  332 (660)
                                     ..++..+...+...|++++|...|+...+  |+...|..+...+...|++++|+..|+++.+.. 
T Consensus       243 ---------------~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  306 (537)
T 3fp2_A          243 ---------------ALALCYTGIFHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-  306 (537)
T ss_dssp             ---------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-
T ss_pred             ---------------HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-
Confidence                           12345566777888889999988888754  556778888888999999999999999887653 


Q ss_pred             CCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCC
Q 048281          333 QPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKD  409 (660)
Q Consensus       333 ~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~  409 (660)
                      +.+..++                                           ..+...|...|++++|...|+++.   ..+
T Consensus       307 ~~~~~~~-------------------------------------------~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~  343 (537)
T 3fp2_A          307 PEYPPTY-------------------------------------------YHRGQMYFILQDYKNAKEDFQKAQSLNPEN  343 (537)
T ss_dssp             TTCHHHH-------------------------------------------HHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             CCCHHHH-------------------------------------------HHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Confidence            1223334                                           444445555555555555555443   223


Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC----CCCChHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYG----VVPTIEHYT  485 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~  485 (660)
                      ...|..+...|...|++++|+..++++.+.. +.+...+..+...+...|++++|...++.+.+...    .......+.
T Consensus       344 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  422 (537)
T 3fp2_A          344 VYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLI  422 (537)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHH
Confidence            4566667777777777777777777777653 33455677777777788888888888887765311    111223345


Q ss_pred             HHHHHHhhc----------CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchH
Q 048281          486 CVIDMLGRA----------GQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       486 ~l~~~~~~~----------g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                      .+..+|.+.          |++++|...++++..  +.+..+|..+..+|...|++++|...+++++++.|.++...
T Consensus       423 ~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  499 (537)
T 3fp2_A          423 GKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKL  499 (537)
T ss_dssp             HHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHH
T ss_pred             HHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHH
Confidence            556677777          999999999988653  45678899999999999999999999999999999876543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=3e-18  Score=172.45  Aligned_cols=305  Identities=11%  Similarity=0.009  Sum_probs=233.4

Q ss_pred             hhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHHH
Q 048281          235 RFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTVH  311 (660)
Q Consensus       235 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~  311 (660)
                      ...+..+...+...|+++.|...++.+.+.. +.+..++..+...|...|++++|...|+++.+   .+...|..+...+
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            3455666677777788888888887777764 33556777777777777777777777777653   2456677777777


Q ss_pred             HHcCChHHHHHHHHHHhhcCCCC---CHH-HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHH
Q 048281          312 EQCGNHDGTLRLFDRMLSAGFQP---DLV-TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMD  387 (660)
Q Consensus       312 ~~~g~~~~a~~~~~~m~~~g~~p---~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~  387 (660)
                      ...|++++|...|++..+.  .|   +.. .+..+...       ..                        ...+..+..
T Consensus        82 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~-------~~------------------------~~~~~~~a~  128 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKA-------DE------------------------MQRLRSQAL  128 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHH-------HH------------------------HHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHH-------HH------------------------HHHHHHHHH
Confidence            7777777777777777764  34   221 11111110       00                        222344577


Q ss_pred             HHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHH
Q 048281          388 MYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQG  464 (660)
Q Consensus       388 ~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  464 (660)
                      .+...|++++|.+.|+++.   ..+...|..+...+...|++++|+..++++.+.. +.+..++..+...+...|++++|
T Consensus       129 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          129 DAFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            8899999999999999876   4477889999999999999999999999999863 45678888899999999999999


Q ss_pred             HHHHHHhHHhcCCCCChHHHH------------HHHHHHhhcCCHHHHHHHHHhCCC-CCC-H----HHHHHHHHHHHHc
Q 048281          465 REFLPLMESRYGVVPTIEHYT------------CVIDMLGRAGQLNEAYELALAMPN-EAN-P----VVWRTLLAASRLH  526 (660)
Q Consensus       465 ~~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~----~~~~~l~~~~~~~  526 (660)
                      ...++.+.+.  .+.+...+.            .+...+.+.|++++|...++++.. .|+ .    ..+..+..++...
T Consensus       208 ~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  285 (359)
T 3ieg_A          208 LSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKD  285 (359)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHc
Confidence            9999999873  233333332            336779999999999999988653 233 3    2355678899999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          527 GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       527 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |++++|+..++++++..|+++..+..++.+|...|++++|.+.++++.+.
T Consensus       286 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          286 EKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999874

>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=4.7e-18  Score=170.98  Aligned_cols=325  Identities=10%  Similarity=-0.020  Sum_probs=258.3

Q ss_pred             CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHH
Q 048281          199 DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALID  278 (660)
Q Consensus       199 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  278 (660)
                      |+..|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|+++.|...++.+.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            35678888899999999999999999998853 2456788889999999999999999999999875 346678999999


Q ss_pred             HHHcCCCHHHHHHHHHhcCCCCh------hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccch
Q 048281          279 MYGKGKCVGEALEIFEMMEEKDI------FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAAL  352 (660)
Q Consensus       279 ~~~~~~~~~~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  352 (660)
                      .|...|++++|...|+++.+.++      ..+..+...+.                       ...+......+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            99999999999999999866433      22322221110                       11233344556677788


Q ss_pred             HHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHH
Q 048281          353 MHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEA  429 (660)
Q Consensus       353 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A  429 (660)
                      +.|...++.+.+.....         ..++..+...|...|++++|...++++.   ..+...|..+...+...|++++|
T Consensus       137 ~~A~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          137 TAAITFLDKILEVCVWD---------AELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             HHHHHHHHHHHHHCTTC---------HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCc---------hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            88888888777765443         7888999999999999999999999876   34778999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHH------------HHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh----HHHHHHHHHHhh
Q 048281          430 LDMFSCMCEAKLKPDEVTFV------------GVLSACSHSGFLSQGREFLPLMESRYGVVPTI----EHYTCVIDMLGR  493 (660)
Q Consensus       430 ~~~~~~m~~~g~~p~~~~~~------------~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~  493 (660)
                      ...+++..+.. +.+...+.            .+...+...|++++|...++.+.+. . +.+.    ..+..+..+|..
T Consensus       208 ~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~~~~la~~~~~  284 (359)
T 3ieg_A          208 LSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT-E-PSVAEYTVRSKERICHCFSK  284 (359)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CSSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-C-CCchHHHHHHHHHHHHHHHH
Confidence            99999999853 22333332            2255688999999999999999874 2 2223    335668899999


Q ss_pred             cCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC
Q 048281          494 AGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       494 ~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  560 (660)
                      .|++++|...+++...  +.+..+|..+...+...|++++|...++++++++|+++..+..+..++...
T Consensus       285 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~  353 (359)
T 3ieg_A          285 DEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLL  353 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHH
Confidence            9999999999998654  457889999999999999999999999999999999988888777776543

>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=99.82  E-value=6.7e-18  Score=167.77  Aligned_cols=286  Identities=11%  Similarity=-0.008  Sum_probs=209.5

Q ss_pred             CCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 048281          267 DSGVPVMNALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVL  343 (660)
Q Consensus       267 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll  343 (660)
                      +.+..++..++..+...|++++|.++|+++.+   .+...+..++..+...|++++|..+++++.+.. +.+...+..+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            44555666666677777777777777776643   234456666677777777777777777777642 22345566666


Q ss_pred             HHHhccc-chHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHH
Q 048281          344 PACSHLA-ALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILG  419 (660)
Q Consensus       344 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  419 (660)
                      ..+...| +++.|...++.+.......         ...+..+...|...|++++|...|+++.   ..+...+..+...
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~---------~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~  168 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTY---------GPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLE  168 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTC---------THHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCcc---------HHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHH
Confidence            6677777 7777777777776654333         5677778888888888888888887765   2345677778888


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC-------CCCChHHHHHHHHHHh
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYG-------VVPTIEHYTCVIDMLG  492 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~  492 (660)
                      |...|++++|+..++++.+.. +.+...+..+...+...|++++|...++.+.+...       .+.....+..+..+|.
T Consensus       169 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~  247 (330)
T 3hym_B          169 YGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCR  247 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHH
Confidence            888888888888888888753 44567777788888888888888888888876321       1334578888888899


Q ss_pred             hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHH-HhCCCh
Q 048281          493 RAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIY-VAGGKY  563 (660)
Q Consensus       493 ~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~  563 (660)
                      +.|++++|...+++...  +.+...|..+..++...|++++|...+++++++.|+++..+..++.++ ...|+.
T Consensus       248 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          248 KLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            99999999988887643  456778888889999999999999999999999998888888888888 455554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=1.7e-16  Score=166.95  Aligned_cols=351  Identities=9%  Similarity=-0.013  Sum_probs=237.1

Q ss_pred             cCChHHHHHHHccCCC-CCchhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCCch
Q 048281          182 CQFMEEALKVFEELPL-RDVVLWNAMVNGYAQ----IGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIM----MGFFK  252 (660)
Q Consensus       182 ~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~  252 (660)
                      .+++++|...|++..+ .+...+..|...|..    .+++++|++.|++..+.|   +...+..+-..+..    .++++
T Consensus        56 ~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~  132 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKA  132 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHH
Confidence            3444444444443322 233344444444444    455555555555554432   23333334444444    44555


Q ss_pred             hHHHHHHHHHHhCCCCCchHHHHHHHHHHc----CCCHHHHHHHHHhcCC-CChhhHHHHHHHHHH----cCChHHHHHH
Q 048281          253 NGRVVHGIVVKMGYDSGVPVMNALIDMYGK----GKCVGEALEIFEMMEE-KDIFSWNSIMTVHEQ----CGNHDGTLRL  323 (660)
Q Consensus       253 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~  323 (660)
                      +|...++...+.|   +...+..|...|..    .++.++|.+.|++..+ .+..++..+...|..    .+++++|+++
T Consensus       133 ~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~  209 (490)
T 2xm6_A          133 ESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQW  209 (490)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHH
Confidence            5555555555443   34445555555655    5667777777766543 355666667777766    6777777777


Q ss_pred             HHHHhhcCCCCCHHHHHHHHHHHhc----ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh----cCCH
Q 048281          324 FDRMLSAGFQPDLVTFSTVLPACSH----LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK----CGSM  395 (660)
Q Consensus       324 ~~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~  395 (660)
                      |++..+.|   +...+..+...+..    .++.++|...++...+.+.           ...+..+..+|..    .++.
T Consensus       210 ~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~-----------~~a~~~lg~~y~~g~~~~~d~  275 (490)
T 2xm6_A          210 YRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGN-----------SIAQFRLGYILEQGLAGAKEP  275 (490)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTC-----------HHHHHHHHHHHHHTTTSSCCH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC-----------HHHHHHHHHHHHCCCCCCCCH
Confidence            77777654   34444455555543    6677777777777765532           5566667777777    7889


Q ss_pred             HHHHHHHhcCCC-CCHhHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC---CHHHHHH
Q 048281          396 RDAQMVFTKMSK-KDVASWNIMILGYGMD-----GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSG---FLSQGRE  466 (660)
Q Consensus       396 ~~A~~~~~~~~~-~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g---~~~~a~~  466 (660)
                      ++|...|++..+ .+...+..+...|...     +++++|+.+|++..+.|   +...+..+...+...|   +.++|.+
T Consensus       276 ~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~  352 (490)
T 2xm6_A          276 LKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVE  352 (490)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHH
Confidence            999999988764 4667788888888887     89999999999999875   4456666666666655   7899999


Q ss_pred             HHHHhHHhcCCCCChHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHH
Q 048281          467 FLPLMESRYGVVPTIEHYTCVIDMLGR----AGQLNEAYELALAMPNEANPVVWRTLLAASRL----HGNTDLAEIAAQR  538 (660)
Q Consensus       467 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~  538 (660)
                      +|+...+.    .+...+..|..+|..    .+++++|...|++.....++..+..|...|..    .++.++|...|++
T Consensus       353 ~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  428 (490)
T 2xm6_A          353 WFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDT  428 (490)
T ss_dssp             HHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            99999873    367788889999988    89999999999987766678899999999998    8999999999999


Q ss_pred             HHhcCCC---CcchHHHHHHHHHh
Q 048281          539 VFQLEPG---HCGNYVLMSNIYVA  559 (660)
Q Consensus       539 ~~~~~p~---~~~~~~~l~~~~~~  559 (660)
                      +.+..|+   ++.....++.++..
T Consensus       429 A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          429 ASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HHHCCCCCcCCHHHHHHHHhcCHh
Confidence            9999854   66666667666554

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.80  E-value=3.1e-17  Score=162.95  Aligned_cols=265  Identities=12%  Similarity=0.016  Sum_probs=230.0

Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcc
Q 048281          299 KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDD  378 (660)
Q Consensus       299 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  378 (660)
                      .+...+..++..+...|++++|+++|+++.+.. +.+...+..+...+...|+++.|...+..+.+.....         
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~---------   89 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSN---------   89 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTS---------
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCC---------
Confidence            466778888999999999999999999998763 2334456667778889999999999999999876544         


Q ss_pred             hhHHHHHHHHHHhcC-CHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCG-SMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA  454 (660)
Q Consensus       379 ~~~~~~li~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  454 (660)
                      ..++..+...|...| ++++|...|++..+   .+...|..+...+...|++++|+..++++.+.. +.+...+..+...
T Consensus        90 ~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~  168 (330)
T 3hym_B           90 PVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLE  168 (330)
T ss_dssp             THHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHH
Confidence            778999999999999 99999999998763   356789999999999999999999999999864 3345677778889


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-----------CCCHHHHHHHHHHH
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-----------EANPVVWRTLLAAS  523 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~~l~~~~  523 (660)
                      +...|++++|...++.+.+  ..+.+...+..+...|...|++++|...++++..           +....+|..+..++
T Consensus       169 ~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~  246 (330)
T 3hym_B          169 YGLTNNSKLAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVC  246 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHH
Confidence            9999999999999999987  3455678999999999999999999999987532           23457899999999


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          524 RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ...|++++|+..++++++..|+++..+..++.+|...|++++|.+.+++..+.
T Consensus       247 ~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          247 RKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             HHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            99999999999999999999999999999999999999999999999987663

>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=99.79  E-value=1e-14  Score=160.37  Aligned_cols=477  Identities=11%  Similarity=0.066  Sum_probs=334.5

Q ss_pred             HHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHcc-------------CCCCCCc--
Q 048281           35 CIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNN-------------LSCEPNV--   99 (660)
Q Consensus        35 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~-------------~~~~~~~--   99 (660)
                      ...|+..+-+.+++..-...++.-...|. .++.++|+|...|...++-++.  ++.+             ....|..  
T Consensus       842 ~~~lv~~~ekrnrLkll~p~LE~~~~~g~-~~~~~hnalakiyid~n~npe~--fL~~n~~yd~~~vgkyce~rDp~la~  918 (1630)
T 1xi4_A          842 TDELVAEVEKRNRLKLLLPWLEARIHEGC-EEPATHNALAKIYIDSNNNPER--FLRENPYYDSRVVGKYCEKRDPHLAC  918 (1630)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHhccCCCHHH--HhhccCcccHHHHHHHHHhcCcchHH
Confidence            44566666666777666666776677774 5888999999999876543332  1110             0011111  


Q ss_pred             ------ccHHHHHHHHHcCCChhH-HHHHHH-----------------------HHHHCCC--CCCcccHHHHHHHHhhh
Q 048281          100 ------FTYNAMISGFYSNDFAFK-GLDFFN-----------------------HMRQLGV--LPDKYTFPCLIKCCCDV  147 (660)
Q Consensus       100 ------~~~~~li~~~~~~~~~~~-a~~~~~-----------------------~m~~~~~--~p~~~t~~~ll~~~~~~  147 (660)
                            ..-.-||....+++-++. |.-+++                       +-....+  .-|+.--....++|...
T Consensus       919 iay~~g~~d~eli~vt~~n~l~k~~arylv~r~d~~lW~~vl~~~n~~RR~Lidqv~a~aL~e~~~PeeVs~~vKaf~~a  998 (1630)
T 1xi4_A          919 VAYERGQCDLELINVCNENSLFKSLSRYLVRRKDPELWGSVLLESNPYRRPLIDQVVQTALSETQDPEEVSVTVKAFMTA  998 (1630)
T ss_pred             HHhcccCCcHHHHHHHhcchhHHHHHHHHHHhcCHHHHHHHhcCCcHHHHHHHHHHHHhhcccccCHHHhHHHHHHHHhC
Confidence                  112234444444443322 221111                       1111110  12333446678888899


Q ss_pred             CCHHHHHHHHHHHHHhC--CCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHH
Q 048281          148 MAVLEVKKIHGLVFKLG--LDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRR  225 (660)
Q Consensus       148 ~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  225 (660)
                      |.+.+|.++++...-.+  +.-+....+.|+.+..+. +..+.....++...-+   ...+...+...|.+++|..+|++
T Consensus       999 glp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai~lglyEEAf~IYkK 1074 (1630)
T 1xi4_A          999 DLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAISNELFEEAFAIFRK 1074 (1630)
T ss_pred             CCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999988432  113445666677777666 4566666665555333   44577788889999999999998


Q ss_pred             HHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHH
Q 048281          226 MSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWN  305 (660)
Q Consensus       226 m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~  305 (660)
                      ..     -.....+.++   ...+++++|.++....      .+..+|..+..++.+.|++++|+..|.+.  .|...|.
T Consensus      1075 a~-----~~~~A~~VLi---e~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~ 1138 (1630)
T 1xi4_A         1075 FD-----VNTSAVQVLI---EHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYM 1138 (1630)
T ss_pred             cC-----CHHHHHHHHH---HHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHH
Confidence            52     1111122222   2667888888887754      34778999999999999999999999764  6778889


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHH
Q 048281          306 SIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNAL  385 (660)
Q Consensus       306 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  385 (660)
                      .++..+.+.|++++|.+.|....+..  ++....+.+..+|++.++++....+.    .   .++        ...+..+
T Consensus      1139 eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n--------~ad~~~i 1201 (1630)
T 1xi4_A         1139 EVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPN--------NAHIQQV 1201 (1630)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCC--------HHHHHHH
Confidence            99999999999999999999877654  33333345888889988887544442    1   122        4456679


Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHH
Q 048281          386 MDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGR  465 (660)
Q Consensus       386 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  465 (660)
                      .+.|...|++++|...|...     ..|..+..+|.+.|++++|++.+++.      .+..+|..+-.+|...|++..|.
T Consensus      1202 Gd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~ 1270 (1630)
T 1xi4_A         1202 GDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQ 1270 (1630)
T ss_pred             HHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHH
Confidence            99999999999999999985     58999999999999999999999977      35688999999999999999998


Q ss_pred             HHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc--CChHHHHHHHHHHHh
Q 048281          466 EFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLH--GNTDLAEIAAQRVFQ  541 (660)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~  541 (660)
                      ...-.      +..+...+..++..|.+.|.+++|+.+++....  +.....|.-|...|.+.  ++..++.+.|..-..
T Consensus      1271 ~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rin 1344 (1630)
T 1xi4_A         1271 MCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVN 1344 (1630)
T ss_pred             HHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            86654      334566788999999999999999999988643  34556776676666654  466777777776666


Q ss_pred             cCC-----CCcchHHHHHHHHHhCCChHHHHH
Q 048281          542 LEP-----GHCGNYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       542 ~~p-----~~~~~~~~l~~~~~~~g~~~~a~~  568 (660)
                      ..|     .++..|..+.-+|.+.|.|+.|..
T Consensus      1345 i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1345 IPKVLRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             cchHhHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            544     566789999999999999999984

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.79  E-value=1.2e-15  Score=162.05  Aligned_cols=411  Identities=8%  Similarity=-0.009  Sum_probs=264.1

Q ss_pred             CcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCC--CCchhHHHHHHH-
Q 048281          133 DKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPL--RDVVLWNAMVNG-  209 (660)
Q Consensus       133 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~-  209 (660)
                      |...|..++.. .+.|+++.|..+++.+++.. +.+...|..++..+.+.|++++|..+|++...  |++..|...+.. 
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            55567777763 66777888888888777652 33556677777777777777777777777653  455556655542 


Q ss_pred             HHhCCChhHHHH----HHHHHHH-CCCCCC-hhhHHHHHHHHHc---------cCCchhHHHHHHHHHHhCCCCCchHHH
Q 048281          210 YAQIGEFHKALE----VFRRMSK-EGIWMS-RFTVTGVLSALIM---------MGFFKNGRVVHGIVVKMGYDSGVPVMN  274 (660)
Q Consensus       210 ~~~~~~~~~A~~----~~~~m~~-~~~~p~-~~t~~~ll~~~~~---------~~~~~~a~~~~~~~~~~g~~~~~~~~~  274 (660)
                      ....|+.+.|.+    +|++... .|..|+ ...|...+.....         .|+++.|..+|+..++.........|.
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            234566666554    4554433 243333 2334444433322         344555555555554411000011111


Q ss_pred             HHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHH------hhcC---CCCCH--------H
Q 048281          275 ALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRM------LSAG---FQPDL--------V  337 (660)
Q Consensus       275 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m------~~~g---~~p~~--------~  337 (660)
                      .........+. ..+..++.                 .+.+++..|..+++++      .+..   +.|+.        .
T Consensus       170 ~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~  231 (530)
T 2ooe_A          170 DYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVD  231 (530)
T ss_dssp             HHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHH
T ss_pred             HHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHH
Confidence            11110000000 00011110                 0234556666666652      2221   24431        2


Q ss_pred             HHHHHHHHHhc----ccch----HHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh-------cCCHH------
Q 048281          338 TFSTVLPACSH----LAAL----MHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK-------CGSMR------  396 (660)
Q Consensus       338 t~~~ll~~~~~----~~~~----~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~~------  396 (660)
                      .|...+.....    .++.    ..+..+++.++...+..         +.+|..++..+.+       .|+++      
T Consensus       232 ~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~~---------~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~  302 (530)
T 2ooe_A          232 MWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHH---------PDIWYEAAQYLEQSSKLLAEKGDMNNAKLFS  302 (530)
T ss_dssp             HHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTTC---------HHHHHHHHHHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCCC---------HHHHHHHHHHHHHhchhhhhccchhhhhhhh
Confidence            33333322211    1222    36677888887764433         7888888888876       79987      


Q ss_pred             -HHHHHHhcCCC---C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHH
Q 048281          397 -DAQMVFTKMSK---K-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDE--VTFVGVLSACSHSGFLSQGREFLP  469 (660)
Q Consensus       397 -~A~~~~~~~~~---~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~  469 (660)
                       +|..+|++..+   | +...|..++..+.+.|++++|..+|+++.+.  .|+.  ..|..++..+.+.|++++|..+|+
T Consensus       303 ~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  380 (530)
T 2ooe_A          303 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFK  380 (530)
T ss_dssp             HHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHH
Confidence             89999998763   3 5789999999999999999999999999984  5653  478888888889999999999999


Q ss_pred             HhHHhcCCCCChHHHHHHHHH-HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          470 LMESRYGVVPTIEHYTCVIDM-LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       470 ~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      .+.+.  .+.+...|...+.. +...|+.++|..+|++...  +.++..|..++..+...|+.++|..+|++++...|.+
T Consensus       381 ~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~  458 (530)
T 2ooe_A          381 KARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  458 (530)
T ss_dssp             HHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSC
T ss_pred             HHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCC
Confidence            99863  22233444433333 3468999999999998654  4568899999999999999999999999999987766


Q ss_pred             cc----hHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          547 CG----NYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       547 ~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +.    .|...+......|+.+.+.++.+++.+.
T Consensus       459 ~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          459 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             GGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            65    6777788888899999999999988664

>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=6.8e-18  Score=166.70  Aligned_cols=353  Identities=14%  Similarity=0.069  Sum_probs=161.4

Q ss_pred             hcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHH
Q 048281          181 KCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGI  260 (660)
Q Consensus       181 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  260 (660)
                      +.|++++|.++++++..|  .+|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|...+..
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 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            567788888888888555  48888888888888888888888653      5777888888888888888888887777


Q ss_pred             HHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHH
Q 048281          261 VVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFS  340 (660)
Q Consensus       261 ~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  340 (660)
                      .++.  .+++.+.+.|+.+|.+.|+++++.++++   .|+..+|+.++..|...|.+++|...|..+         ..|.
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--ARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            7664  4456778888899999999988887775   367778999999999999999999999876         3688


Q ss_pred             HHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 048281          341 TVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGY  420 (660)
Q Consensus       341 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  420 (660)
                      .+..++.+.|+++.|.+.+..+      .+        +.+|..++.+|...|+++.|......+. ..+.-...++..|
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~--------~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Y  217 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NS--------TRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYY  217 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TC--------HHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CC--------chhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHH
Confidence            8888889999999988888877      23        7888999999999999999987777655 3444455688889


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC------ChHHHHHHHHHHhhc
Q 048281          421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVP------TIEHYTCVIDMLGRA  494 (660)
Q Consensus       421 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~  494 (660)
                      .+.|++++|+.+++...... +-....|+.+.-++++- ++++..+.++...++.+++|      +...|..++-.|...
T Consensus       218 ek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~  295 (449)
T 1b89_A          218 QDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKY  295 (449)
T ss_dssp             HHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999887643 33445566655555543 33444333333333335555      456788899999999


Q ss_pred             CCHHHHHHHHHhCCC--------------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC
Q 048281          495 GQLNEAYELALAMPN--------------EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       495 g~~~~A~~~~~~~~~--------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  560 (660)
                      ++++.|....-+-+.              ..+..+|-..+..|.  +....++.-+-.++.  |.  .-+......+.+.
T Consensus       296 ~e~d~A~~tm~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl--~~~p~~l~~ll~~l~--~~--ld~~r~v~~~~~~  369 (449)
T 1b89_A          296 EEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYL--EFKPLLLNDLLMVLS--PR--LDHTRAVNYFSKV  369 (449)
T ss_dssp             TCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHH--HHCGGGHHHHHHHHG--GG--CCHHHHHHHHHHT
T ss_pred             chHHHHHHHHHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHH--hcCHHHHHHHHHHHH--hc--cCcHHHHHHHHHc
Confidence            999988887655431              123444444444444  222223333333331  11  1134456666777


Q ss_pred             CChHHHHHHHHHHHhCCC
Q 048281          561 GKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       561 g~~~~a~~~~~~~~~~~~  578 (660)
                      |.+.-+..++..++..+.
T Consensus       370 ~~l~l~~~yl~~v~~~n~  387 (449)
T 1b89_A          370 KQLPLVKPYLRSVQNHNN  387 (449)
T ss_dssp             TCTTTTHHHHHHHHTTCC
T ss_pred             CCcHHHHHHHHHHHHhhH
Confidence            777777777777766554

>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=99.78  E-value=2.3e-17  Score=166.80  Aligned_cols=280  Identities=9%  Similarity=-0.078  Sum_probs=213.8

Q ss_pred             cCCCHHHHHH-HHHhcCC--C-----ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchH
Q 048281          282 KGKCVGEALE-IFEMMEE--K-----DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALM  353 (660)
Q Consensus       282 ~~~~~~~A~~-~~~~~~~--~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~  353 (660)
                      -.|++++|.. .|++..+  +     +...+..+...+.+.|++++|+..|+++.+.. +.+...+..+...+...|+++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHH
Confidence            3467777777 7775443  1     24567777888888888888888888887753 334556777777788888888


Q ss_pred             HHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-CHhHHHH---------------
Q 048281          354 HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK--K-DVASWNI---------------  415 (660)
Q Consensus       354 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~---------------  415 (660)
                      .|...+..+.......         ..++..+...|...|++++|.+.|+++..  | +...+..               
T Consensus       116 ~A~~~~~~al~~~~~~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (368)
T 1fch_A          116 LAISALRRCLELKPDN---------QTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKR  186 (368)
T ss_dssp             HHHHHHHHHHHHCTTC---------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------C
T ss_pred             HHHHHHHHHHhcCCCC---------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHH
Confidence            8888888887775443         67788888888888888888888887652  1 2222211               


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc
Q 048281          416 MILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA  494 (660)
Q Consensus       416 li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  494 (660)
                      .+..+...|++++|+..|+++.+..... +..++..+...+...|++++|...++.+.+.  .+.+...+..+..+|.+.
T Consensus       187 ~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~  264 (368)
T 1fch_A          187 ILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANG  264 (368)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHc
Confidence            1333348899999999999999863221 4788889999999999999999999999873  345678999999999999


Q ss_pred             CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-----------cchHHHHHHHHHhCC
Q 048281          495 GQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH-----------CGNYVLMSNIYVAGG  561 (660)
Q Consensus       495 g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g  561 (660)
                      |++++|...++++..  +.+..+|..+..+|...|++++|...+++++++.|++           +.+|..++.+|...|
T Consensus       265 g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  344 (368)
T 1fch_A          265 NQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLG  344 (368)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhC
Confidence            999999999998643  4567899999999999999999999999999998877           788999999999999


Q ss_pred             ChHHHHHHHHHH
Q 048281          562 KYEEVLDIRHTM  573 (660)
Q Consensus       562 ~~~~a~~~~~~~  573 (660)
                      ++++|..++++.
T Consensus       345 ~~~~A~~~~~~~  356 (368)
T 1fch_A          345 QSDAYGAADARD  356 (368)
T ss_dssp             CGGGHHHHHTTC
T ss_pred             ChHhHHHhHHHH
Confidence            999999987743

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.77  E-value=4.8e-15  Score=155.84  Aligned_cols=352  Identities=12%  Similarity=0.032  Sum_probs=296.7

Q ss_pred             CCchhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCCchhHHHHHHHHHHhCCCCC
Q 048281          198 RDVVLWNAMVNGYAQ----IGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIM----MGFFKNGRVVHGIVVKMGYDSG  269 (660)
Q Consensus       198 ~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~  269 (660)
                      .+..++..+...|..    .+++++|++.|++..+.|   +...+..+-..+..    .++.+.|...+....+.|   +
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            366667777777777    899999999999998864   55677778888888    899999999999998875   5


Q ss_pred             chHHHHHHHHHHc----CCCHHHHHHHHHhcCCC-ChhhHHHHHHHHHH----cCChHHHHHHHHHHhhcCCCCCHHHHH
Q 048281          270 VPVMNALIDMYGK----GKCVGEALEIFEMMEEK-DIFSWNSIMTVHEQ----CGNHDGTLRLFDRMLSAGFQPDLVTFS  340 (660)
Q Consensus       270 ~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~  340 (660)
                      ...+..|...|..    .+++++|...|++..+. +..++..+...|..    .+++++|++.|++..+.|   +...+.
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~  187 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            6777888889988    78999999999987654 67788888888988    789999999999999875   566666


Q ss_pred             HHHHHHhc----ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh----cCCHHHHHHHHhcCCC-CCHh
Q 048281          341 TVLPACSH----LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK----CGSMRDAQMVFTKMSK-KDVA  411 (660)
Q Consensus       341 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~  411 (660)
                      .+...+..    .++.++|...+....+.+.           +..+..+..+|..    .++.++|...|++..+ .+..
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~-----------~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~  256 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSATSGD-----------ELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSI  256 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC-----------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHHCCC-----------HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHH
Confidence            77777766    7899999999999987652           6678888888886    8999999999998764 4677


Q ss_pred             HHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc-----CCHHHHHHHHHHhHHhcCCCCChH
Q 048281          412 SWNIMILGYGM----DGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS-----GFLSQGREFLPLMESRYGVVPTIE  482 (660)
Q Consensus       412 ~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~  482 (660)
                      .+..+...|..    .++.++|+.+|++..+.|   +...+..+...+...     ++.++|...++...+. +   +..
T Consensus       257 a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~  329 (490)
T 2xm6_A          257 AQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DAT  329 (490)
T ss_dssp             HHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHH
T ss_pred             HHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHH
Confidence            88888888888    899999999999998865   455666677777776     8999999999999873 3   456


Q ss_pred             HHHHHHHHHhhcC---CHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCcchHHHHHH
Q 048281          483 HYTCVIDMLGRAG---QLNEAYELALAMPNEANPVVWRTLLAASRL----HGNTDLAEIAAQRVFQLEPGHCGNYVLMSN  555 (660)
Q Consensus       483 ~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  555 (660)
                      .+..|..+|.+.|   +.++|.+.|++.....++..+..|...|..    .++.++|...++++.+..  ++..+..|+.
T Consensus       330 a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~  407 (490)
T 2xm6_A          330 AQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGE  407 (490)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHH
Confidence            7888888888766   889999999987766788999999999999    899999999999998864  5788999999


Q ss_pred             HHHh----CCChHHHHHHHHHHHhCCC
Q 048281          556 IYVA----GGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       556 ~~~~----~g~~~~a~~~~~~~~~~~~  578 (660)
                      +|..    .+++++|...+++..+.+.
T Consensus       408 ~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          408 IYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            9998    8999999999999988763

>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=4.8e-16  Score=153.55  Aligned_cols=280  Identities=11%  Similarity=0.091  Sum_probs=93.7

Q ss_pred             cCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHH
Q 048281           79 KCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHG  158 (660)
Q Consensus        79 ~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  158 (660)
                      +.|++++|.++++ ..+.|  .+|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|+.+++
T Consensus        15 ~~~~ld~A~~fae-~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           15 HIGNLDRAYEFAE-RCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHH-hCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            5678899999998 55555  48999999999999999999999653      577789999999999999999999888


Q ss_pred             HHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhH
Q 048281          159 LVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTV  238 (660)
Q Consensus       159 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~  238 (660)
                      ..++.  .+++.+.+.|+.+|.+.|+++++.++++.   |+..+|+.+...|...|.+++|...|..+         ..|
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             -------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCH
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhH
Confidence            77764  45577888899999999999998887753   66678888888888888888888888865         245


Q ss_pred             HHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChH
Q 048281          239 TGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHD  318 (660)
Q Consensus       239 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  318 (660)
                      ..+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|+++
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHH
Confidence            55555555555555555555544      244555555555555555555544444333 22222333455555555555


Q ss_pred             HHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh--cCCHH
Q 048281          319 GTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK--CGSMR  396 (660)
Q Consensus       319 ~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~--~g~~~  396 (660)
                      +|+.+++....                                   .....         ..+|+-|.-.|++  .+++.
T Consensus       225 Eai~lLe~aL~-----------------------------------le~ah---------~~~ftel~il~~ky~p~k~~  260 (449)
T 1b89_A          225 ELITMLEAALG-----------------------------------LERAH---------MGMFTELAILYSKFKPQKMR  260 (449)
T ss_dssp             HHHHHHHHHTT-----------------------------------STTCC---------HHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHhC-----------------------------------CcHHH---------HHHHHHHHHHHHhcCHHHHH
Confidence            55555555442                                   22111         3333444444433  34444


Q ss_pred             HHHHHHhcCCC--------CCHhHHHHHHHHHHhcCChHHHHHH
Q 048281          397 DAQMVFTKMSK--------KDVASWNIMILGYGMDGQGKEALDM  432 (660)
Q Consensus       397 ~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~  432 (660)
                      +.++.|..-..        .+...|..+...|.+.++++.|...
T Consensus       261 ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t  304 (449)
T 1b89_A          261 EHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  304 (449)
T ss_dssp             HHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Confidence            55555543221        1456788888888888888877763

>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=99.76  E-value=1.2e-13  Score=152.07  Aligned_cols=446  Identities=11%  Similarity=0.050  Sum_probs=272.8

Q ss_pred             hhHHHHHHHHhHcCCChhHHHHHHccCCCCC-----CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHH
Q 048281           67 PLSITSLINMYSKCCQMKYALFVFNNLSCEP-----NVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLI  141 (660)
Q Consensus        67 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll  141 (660)
                      +.--...+.+|...|.+.+|++++++....|     +...-|.++....+. +..+..+..++....       ...-+.
T Consensus       985 PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~-------d~~eIA 1056 (1630)
T 1xi4_A          985 PEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY-------DAPDIA 1056 (1630)
T ss_pred             HHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-------cHHHHH
Confidence            3344555666666677777777776422222     223445555555555 344455544444311       133355


Q ss_pred             HHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHH
Q 048281          142 KCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALE  221 (660)
Q Consensus       142 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  221 (660)
                      ..|...|.+++|..+|++..     ......+.++.   ..+++++|.++.+++.  +..+|..+..++...|++++|++
T Consensus      1057 ~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAId 1126 (1630)
T 1xi4_A         1057 NIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAID 1126 (1630)
T ss_pred             HHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHH
Confidence            66667777777777777641     11111222222   5677777777777663  35677788888888888888888


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCCh
Q 048281          222 VFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDI  301 (660)
Q Consensus       222 ~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  301 (660)
                      .|.+.      -|...|..++.+|.+.|+++++.+.+....+..  ++..+.+.++.+|++.+++++...+.   ..++.
T Consensus      1127 sYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ 1195 (1630)
T 1xi4_A         1127 SYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNN 1195 (1630)
T ss_pred             HHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCH
Confidence            88553      456677778888888888888888888777654  33333445788888888877544443   34566


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhH
Q 048281          302 FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFM  381 (660)
Q Consensus       302 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  381 (660)
                      ..|..+...|...|++++|..+|...         ..|..+...+.+.|+++.|.+.++..      .+        ..+
T Consensus      1196 ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n--------~~a 1252 (1630)
T 1xi4_A         1196 AHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NS--------TRT 1252 (1630)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CC--------HHH
Confidence            66777888888888888888888874         36777888888888888888877765      22        667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh--ccC
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACS--HSG  459 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~g  459 (660)
                      |..+..++...|++..|...... ...+...+..++..|.+.|.+++|+.+++...... +-....|+-+...++  +.+
T Consensus      1253 Wkev~~acve~~Ef~LA~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~pe 1330 (1630)
T 1xi4_A         1253 WKEVCFACVDGKEFRLAQMCGLH-IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQ 1330 (1630)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHH
Confidence            77777788888888888877654 23345556677888888888888888887776432 222234444444443  334


Q ss_pred             CHHHHHHHHHHhHHhcCCCC------ChHHHHHHHHHHhhcCCHHHHHHHHHhC--------------CCCCCHHHHHHH
Q 048281          460 FLSQGREFLPLMESRYGVVP------TIEHYTCVIDMLGRAGQLNEAYELALAM--------------PNEANPVVWRTL  519 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------------~~~~~~~~~~~l  519 (660)
                      ++.++.++|..-   .+++|      +...|..++-.|.+.|+++.|....-+-              ....++..|...
T Consensus      1331 klmEhlk~f~~r---ini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyyka 1407 (1630)
T 1xi4_A         1331 KMREHLELFWSR---VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRA 1407 (1630)
T ss_pred             HHHHHHHHHHHh---cccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHH
Confidence            444555554432   24433      4566788888888888888887433221              123455666666


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          520 LAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       520 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      +..|...  ..+++.-+..++.  |.  .-+......+.+.|.+.-+..+++.+..
T Consensus      1408 i~Fyl~~--~P~~lndLl~~l~--~r--lD~~R~V~l~~~~~~l~lik~yl~~vq~ 1457 (1630)
T 1xi4_A         1408 IQFYLEF--KPLLLNDLLMVLS--PR--LDHTRAVNYFSKVKQLPLVKPYLRSVQN 1457 (1630)
T ss_pred             HHHHHhh--ChHHHHHHHHHhh--hc--CChHHHHHHHHHcCChHHhHHHHHHHHH
Confidence            6666532  2333333333322  11  1123345555555666666666555543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.76  E-value=3.5e-17  Score=165.26  Aligned_cols=261  Identities=10%  Similarity=-0.096  Sum_probs=209.2

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcch
Q 048281          300 DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDV  379 (660)
Q Consensus       300 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  379 (660)
                      +...|..+...+.+.|++++|+..|+++.+.. +.+...+..+...+...|+++.|...++.+.......         .
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~---------~  133 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNN---------L  133 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---------H
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC---------H
Confidence            44568888888888888888888888888763 3356677888888888888888888888888775443         7


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCCCC-------------HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CCH
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSKKD-------------VASWNIMILGYGMDGQGKEALDMFSCMCEAKLK-PDE  445 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~  445 (660)
                      .++..+...|...|++++|...|+++.+.+             ...+..+...+...|++++|+..|+++.+.... ++.
T Consensus       134 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  213 (365)
T 4eqf_A          134 KALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDP  213 (365)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCH
T ss_pred             HHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCH
Confidence            788888999999999999999988875311             223445688899999999999999999986422 157


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAAS  523 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~  523 (660)
                      .++..+...+...|++++|...++++.+.  .+.+..++..+..+|.+.|++++|...|+++..  +.+..+|..+..+|
T Consensus       214 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  291 (365)
T 4eqf_A          214 DLQTGLGVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISC  291 (365)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHH
Confidence            88999999999999999999999999873  455678999999999999999999999998654  45688999999999


Q ss_pred             HHcCChHHHHHHHHHHHhcCCC------------CcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          524 RLHGNTDLAEIAAQRVFQLEPG------------HCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      ...|++++|...+++++++.|+            +...+..++.++...|+.+.+.++.++
T Consensus       292 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          292 INLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999999999999998776            357889999999999999998887665

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.74  E-value=1.4e-15  Score=147.36  Aligned_cols=270  Identities=7%  Similarity=-0.071  Sum_probs=212.2

Q ss_pred             HHHHcCCCHHHHHHHHHhcCCCCh----hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchH
Q 048281          278 DMYGKGKCVGEALEIFEMMEEKDI----FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALM  353 (660)
Q Consensus       278 ~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~  353 (660)
                      .-....|+++.|+..++.....++    .....+..+|...|+++.|+..++.    .-.|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHH
Confidence            344557888999988887765432    3445677889999999998876654    13566678888888888888999


Q ss_pred             HHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHH
Q 048281          354 HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMF  433 (660)
Q Consensus       354 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  433 (660)
                      .|.+.++.++..+..|+       +...+..+..+|.+.|++++|++.+++  ..+...+..++..|.+.|++++|...|
T Consensus        83 ~A~~~l~~ll~~~~~P~-------~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVT-------NTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             HHHHHHHHHHHSCCCCS-------CHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCC-------CHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999998887764332       167788888999999999999999998  567889999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHH---HHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-
Q 048281          434 SCMCEAKLKPDEVTFV---GVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-  509 (660)
Q Consensus       434 ~~m~~~g~~p~~~~~~---~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  509 (660)
                      +++.+.  .|+.....   ..+..+...|++++|..+|+++.+.  .+.+...++.+..+|.+.|++++|...++++.. 
T Consensus       154 ~~~~~~--~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~  229 (291)
T 3mkr_A          154 KKMQDQ--DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK  229 (291)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhh--CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999986  46643221   2233444568999999999999984  566888999999999999999999999998644 


Q ss_pred             -CCCHHHHHHHHHHHHHcCChHH-HHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHH
Q 048281          510 -EANPVVWRTLLAASRLHGNTDL-AEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       510 -~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  568 (660)
                       +.++.+|..++..+...|+.++ +.++++++++++|+++.+.    +...+.+.++++..
T Consensus       230 ~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~----d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          230 DSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIK----EYRAKENDFDRLVL  286 (291)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHH----HHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHH----HHHHHHHHHHHHHH
Confidence             4577899999999999999876 6789999999999987543    34444555555443

>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=6.4e-15  Score=156.52  Aligned_cols=410  Identities=10%  Similarity=0.029  Sum_probs=286.6

Q ss_pred             CCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHH
Q 048281           96 EPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSAL  175 (660)
Q Consensus        96 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  175 (660)
                      +-+...|..++. +.+.|++++|..+|+++.+.. +-+...|...+..+.+.|+++.|..+|+++++..  |+...|..+
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~   85 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCY   85 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHH
Confidence            347778999998 478999999999999999752 2256678899999999999999999999999864  577777777


Q ss_pred             HHHh-HhcCChHHHHH----HHccCC------CCCchhHHHHHHHHHh---------CCChhHHHHHHHHHHHCCCCCCh
Q 048281          176 VNTY-LKCQFMEEALK----VFEELP------LRDVVLWNAMVNGYAQ---------IGEFHKALEVFRRMSKEGIWMSR  235 (660)
Q Consensus       176 i~~~-~~~g~~~~A~~----~~~~~~------~~~~~~~~~li~~~~~---------~~~~~~A~~~~~~m~~~~~~p~~  235 (660)
                      +... ...|+.++|.+    +|+...      ..+...|...+.....         .|+++.|.++|++..+.   |+.
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~  162 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMI  162 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCT
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhh
Confidence            6533 35677766654    666542      2356778888876655         68899999999999872   332


Q ss_pred             ---hhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHh-------cCC------C
Q 048281          236 ---FTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEM-------MEE------K  299 (660)
Q Consensus       236 ---~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~-------~~~------~  299 (660)
                         ..|..........|. .                   +...++.  .+.++++.|..++..       +..      |
T Consensus       163 ~~~~~~~~~~~~e~~~~~-~-------------------~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p  220 (530)
T 2ooe_A          163 NIEQLWRDYNKYEEGINI-H-------------------LAKKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPP  220 (530)
T ss_dssp             THHHHHHHHHHHHHHHCH-H-------------------HHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCC
T ss_pred             hHHHHHHHHHHHHHhhch-h-------------------HHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCC
Confidence               222222111111110 0                   0111110  122344555554443       111      1


Q ss_pred             C--------hhhHHHHHHHHHHc----CCh----HHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc-------ccchH---
Q 048281          300 D--------IFSWNSIMTVHEQC----GNH----DGTLRLFDRMLSAGFQPDLVTFSTVLPACSH-------LAALM---  353 (660)
Q Consensus       300 ~--------~~~~~~li~~~~~~----g~~----~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~-------~~~~~---  353 (660)
                      +        ...|...+......    ++.    .++..+|++..... +-+...|......+..       .|+++   
T Consensus       221 ~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~  299 (530)
T 2ooe_A          221 QNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAK  299 (530)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHH
T ss_pred             CCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhh
Confidence            1        23455555433322    232    37778888888752 2345566666666654       68876   


Q ss_pred             ----HHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC--CC-CH-hHHHHHHHHHHhcCC
Q 048281          354 ----HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS--KK-DV-ASWNIMILGYGMDGQ  425 (660)
Q Consensus       354 ----~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-~~-~~~~~li~~~~~~g~  425 (660)
                          .|..+++..+..-.+.+        ..++..++..+.+.|++++|..+|+++.  .| +. ..|..++..+.+.|+
T Consensus       300 ~~~~~A~~~~~~Al~~~~p~~--------~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  371 (530)
T 2ooe_A          300 LFSDEAANIYERAISTLLKKN--------MLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEG  371 (530)
T ss_dssp             HHHHHHHHHHHHHTTTTCSSC--------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCccc--------HHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcC
Confidence                88999988876322223        8899999999999999999999999876  33 33 589999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHH
Q 048281          426 GKEALDMFSCMCEAKLKPDEVTFVGVLSA-CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELA  504 (660)
Q Consensus       426 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  504 (660)
                      .++|..+|++..+.. +.+...|...... +...|+.++|..+|+...+.  .+.+...|..+++.+.+.|+.++|..+|
T Consensus       372 ~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~  448 (530)
T 2ooe_A          372 IKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLF  448 (530)
T ss_dssp             HHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHH
Confidence            999999999999853 2233333332222 33589999999999999874  3346789999999999999999999999


Q ss_pred             HhCCC----CC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          505 LAMPN----EA--NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       505 ~~~~~----~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      ++...    .|  ....|...+.....+|+.+.+..+++++.+..|++
T Consensus       449 ~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~~  496 (530)
T 2ooe_A          449 ERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  496 (530)
T ss_dssp             HHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHHH
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCchh
Confidence            98643    22  23489999999999999999999999999988853

>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=99.73  E-value=1.8e-16  Score=157.21  Aligned_cols=271  Identities=9%  Similarity=-0.022  Sum_probs=179.9

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc
Q 048281          272 VMNALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSH  348 (660)
Q Consensus       272 ~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  348 (660)
                      .+..+...+...|++++|..+|+++.+   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+..
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~  101 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN  101 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHH
Confidence            344455555555555555555555432   233445555555555555555555555555431 1233344444444444


Q ss_pred             ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHH-HH-HHHhcCCh
Q 048281          349 LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIM-IL-GYGMDGQG  426 (660)
Q Consensus       349 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l-i~-~~~~~g~~  426 (660)
                      .|+++.|...+..+.+......         ..+..+....                  ++......+ .. .+...|++
T Consensus       102 ~~~~~~A~~~~~~~~~~~~~~~---------~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~  154 (327)
T 3cv0_A          102 EHNANAALASLRAWLLSQPQYE---------QLGSVNLQAD------------------VDIDDLNVQSEDFFFAAPNEY  154 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTT---------TC--------------------------------------CCTTSHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCccH---------HHHHHHhHHH------------------HHHHHHHHHHHhHHHHHcccH
Confidence            4455555444444443322211         1111110000                  000001111 22 36777889


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHh
Q 048281          427 KEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALA  506 (660)
Q Consensus       427 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  506 (660)
                      ++|...++++.+.. +.+...+..+...+...|++++|...++.+.+.  .+.+...+..+...|...|++++|...+++
T Consensus       155 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  231 (327)
T 3cv0_A          155 RECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNR  231 (327)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999998864 346778888888999999999999999999873  345678899999999999999999999988


Q ss_pred             CCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC------------CcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          507 MPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG------------HCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       507 ~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      +..  +.+..+|..+..++...|++++|...++++++..|+            ++..+..++.++...|++++|..++++
T Consensus       232 a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          232 ALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             HHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            643  456789999999999999999999999999999998            688999999999999999999999875


Q ss_pred             H
Q 048281          573 M  573 (660)
Q Consensus       573 ~  573 (660)
                      .
T Consensus       312 ~  312 (327)
T 3cv0_A          312 N  312 (327)
T ss_dssp             C
T ss_pred             H
Confidence            4

>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=3.2e-16  Score=158.28  Aligned_cols=293  Identities=12%  Similarity=0.023  Sum_probs=146.4

Q ss_pred             hcCChHHHHH-HHccCCC--C-----CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCch
Q 048281          181 KCQFMEEALK-VFEELPL--R-----DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFK  252 (660)
Q Consensus       181 ~~g~~~~A~~-~~~~~~~--~-----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~  252 (660)
                      -.|++++|.. .|++...  +     +...|..+...+.+.|++++|+..|+++.+..                      
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~----------------------   94 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD----------------------   94 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC----------------------
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC----------------------
Confidence            3456666665 5554331  1     23445566666666666666666666665542                      


Q ss_pred             hHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhh
Q 048281          253 NGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLS  329 (660)
Q Consensus       253 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  329 (660)
                                    +.+..++..+..+|.+.|++++|...|+++.+   .+..+|..+...+...|++++|+..++++.+
T Consensus        95 --------------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  160 (368)
T 1fch_A           95 --------------PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLR  160 (368)
T ss_dssp             --------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --------------CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                          12333444455555555555555555554432   2445566666666666777777777766665


Q ss_pred             cCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC--C
Q 048281          330 AGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS--K  407 (660)
Q Consensus       330 ~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~  407 (660)
                      ..  |+........      +....           ...+         ...+..+...+ ..|++++|...|+++.  .
T Consensus       161 ~~--~~~~~~~~~~------~~~~~-----------~~~~---------~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~  211 (368)
T 1fch_A          161 YT--PAYAHLVTPA------EEGAG-----------GAGL---------GPSKRILGSLL-SDSLFLEVKELFLAAVRLD  211 (368)
T ss_dssp             TS--TTTGGGCC-----------------------------------------CTTHHHH-HHHHHHHHHHHHHHHHHHS
T ss_pred             hC--cCcHHHHHHH------HHHhh-----------hhcc---------cHHHHHHHHHh-hcccHHHHHHHHHHHHHhC
Confidence            42  2221110000      00000           0000         00111111122 4455555555555443  1


Q ss_pred             C---CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHH
Q 048281          408 K---DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHY  484 (660)
Q Consensus       408 ~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  484 (660)
                      |   +..+|..+...|...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.  .+.+...+
T Consensus       212 p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~  288 (368)
T 1fch_A          212 PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSR  288 (368)
T ss_dssp             TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHH
Confidence            1   34455556666666666666666666665542 223455556666666666666666666666552  23345566


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCCC--CCC-----------HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          485 TCVIDMLGRAGQLNEAYELALAMPN--EAN-----------PVVWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       485 ~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      ..+..+|.+.|++++|...++++..  +.+           ..+|..+..+|...|+.++|..++++.++
T Consensus       289 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          289 YNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            6666666666666666666655432  111           56777777777777777777777665443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.71  E-value=4.6e-15  Score=155.40  Aligned_cols=282  Identities=8%  Similarity=-0.063  Sum_probs=158.2

Q ss_pred             CCHHHHHHHHHhcCC--C-ChhhHHHHHHH---HHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHh----cccchH
Q 048281          284 KCVGEALEIFEMMEE--K-DIFSWNSIMTV---HEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACS----HLAALM  353 (660)
Q Consensus       284 ~~~~~A~~~~~~~~~--~-~~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~----~~~~~~  353 (660)
                      +++++|+..|++..+  | ++..+..+...   +...++.++|++.+++..+.. +.+...+..+...+.    ..++.+
T Consensus       152 ~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~  230 (472)
T 4g1t_A          152 NQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEG  230 (472)
T ss_dssp             THHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------C
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHH
Confidence            346666666666542  2 33334333333   334456666777666666542 112233333332222    234556


Q ss_pred             HHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHh--------
Q 048281          354 HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGM--------  422 (660)
Q Consensus       354 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~--------  422 (660)
                      .|.+.++.........         ..++..+...|.+.|++++|...|++..   ..+..+|..+..+|..        
T Consensus       231 ~a~~~~~~al~~~~~~---------~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~  301 (472)
T 4g1t_A          231 EGEKLVEEALEKAPGV---------TDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNL  301 (472)
T ss_dssp             HHHHHHHHHHHHCSSC---------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCccH---------HHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhH
Confidence            6667766666655443         5666677777777777777777777654   2244555555554432        


Q ss_pred             -----------cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh--HHHHHHHH
Q 048281          423 -----------DGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI--EHYTCVID  489 (660)
Q Consensus       423 -----------~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~  489 (660)
                                 .+..++|+..+++..+.. +.+..++..+...+...|++++|...|+++.+. ...+..  ..+..+..
T Consensus       302 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~-~~~~~~~~~~~~~~~~  379 (472)
T 4g1t_A          302 RENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSK-ELTPVAKQLLHLRYGN  379 (472)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHH
Confidence                       223567888888887753 334556777888899999999999999998762 332221  12333333


Q ss_pred             H-HhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHH
Q 048281          490 M-LGRAGQLNEAYELALAMPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVL  567 (660)
Q Consensus       490 ~-~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  567 (660)
                      . +...|+.++|+..|++... .|+...+.         +..+.+..++++.++.+|+++.+|..|+.+|...|++++|+
T Consensus       380 ~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~---------~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~  450 (472)
T 4g1t_A          380 FQLYQMKCEDKAIHHFIEGVKINQKSREKE---------KMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQAD  450 (472)
T ss_dssp             HHHHTSSCHHHHHHHHHHHHHSCCCCHHHH---------HHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC---
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCcccHHHH---------HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            2 3467899999999887532 34433222         22344567788888899999999999999999999999999


Q ss_pred             HHHHHHHhCCCccCCcEEE
Q 048281          568 DIRHTMRQQNVRKNPGCSW  586 (660)
Q Consensus       568 ~~~~~~~~~~~~~~~~~~~  586 (660)
                      +.+++..+.+...+...+|
T Consensus       451 ~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          451 EDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             -------------------
T ss_pred             HHHHHHHhcCCCCCcHhhc
Confidence            9999998876544333333

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.71  E-value=4.9e-16  Score=156.82  Aligned_cols=231  Identities=12%  Similarity=0.036  Sum_probs=195.5

Q ss_pred             CHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHh
Q 048281          335 DLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVA  411 (660)
Q Consensus       335 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~  411 (660)
                      +...+......+.+.|+++.|...++.++......         ..++..+...|.+.|++++|...|+++.   ..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~---------~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  134 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGD---------AEAWQFLGITQAENENEQAAIVALQRCLELQPNNLK  134 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC---------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCC---------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHH
Confidence            34457778888999999999999999999886544         8899999999999999999999999876   34678


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-----------HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDE-----------VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT  480 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~  480 (660)
                      +|..+..+|...|++++|+..|+++.+.  .|+.           ..+..+...+...|++++|..+++++.+.....++
T Consensus       135 ~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~  212 (365)
T 4eqf_A          135 ALMALAVSYTNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMID  212 (365)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCC
T ss_pred             HHHHHHHHHHccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccC
Confidence            9999999999999999999999999985  3332           22334577889999999999999999884222236


Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ..++..+..+|.+.|++++|.+.++++..  +.+..+|..++.+|...|++++|+..+++++++.|+++.++..++.+|.
T Consensus       213 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  292 (365)
T 4eqf_A          213 PDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCI  292 (365)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Confidence            88999999999999999999999998654  4578899999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhC
Q 048281          559 AGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       559 ~~g~~~~a~~~~~~~~~~  576 (660)
                      ..|++++|...++++.+.
T Consensus       293 ~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          293 NLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             HHTCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHh
Confidence            999999999999999764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.70  E-value=1.7e-15  Score=146.66  Aligned_cols=246  Identities=11%  Similarity=0.023  Sum_probs=200.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHhhcCCCCCH--HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHH
Q 048281          308 MTVHEQCGNHDGTLRLFDRMLSAGFQPDL--VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNAL  385 (660)
Q Consensus       308 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  385 (660)
                      |+-....|++..|+..++.....  .|+.  .....+.+++...|+++.|...++.    .        .+++...+..+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~--------~~~~~~a~~~l   71 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----S--------SAPELQAVRMF   71 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----T--------SCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----c--------CChhHHHHHHH
Confidence            34556789999999998876543  4544  3445667899999999998865432    1        12237788899


Q ss_pred             HHHHHhcCCHHHHHHHHhcCC----CC-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC
Q 048281          386 MDMYTKCGSMRDAQMVFTKMS----KK-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGF  460 (660)
Q Consensus       386 i~~~~~~g~~~~A~~~~~~~~----~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  460 (660)
                      ...+...|+.++|.+.++++.    .| +...+..+...+.+.|++++|++.+++      +.+...+..+...+.+.|+
T Consensus        72 a~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~  145 (291)
T 3mkr_A           72 AEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDR  145 (291)
T ss_dssp             HHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTC
T ss_pred             HHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCC
Confidence            999999999999999999864    24 566788888999999999999999997      4677888889999999999


Q ss_pred             HHHHHHHHHHhHHhcCCCCChHH---HHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHH
Q 048281          461 LSQGREFLPLMESRYGVVPTIEH---YTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIA  535 (660)
Q Consensus       461 ~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~  535 (660)
                      +++|.+.++.+.+.   .|+...   ...++..+...|++++|..+|+++..  +.++..|+.+..++...|++++|+..
T Consensus       146 ~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~  222 (291)
T 3mkr_A          146 LDLARKELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGV  222 (291)
T ss_dssp             HHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999874   354321   12344555566999999999998754  56788999999999999999999999


Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHhCCChHH-HHHHHHHHHhC
Q 048281          536 AQRVFQLEPGHCGNYVLMSNIYVAGGKYEE-VLDIRHTMRQQ  576 (660)
Q Consensus       536 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~  576 (660)
                      ++++++++|+++.++..++.++...|+.++ +.++++++.+.
T Consensus       223 l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          223 LQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999986 57899988774

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=2.4e-14  Score=149.89  Aligned_cols=380  Identities=10%  Similarity=-0.055  Sum_probs=223.1

Q ss_pred             cccHHHHHHHHhhhCCHHHHHHHHHHHHHh-----C--CCC-ChhHHHHHHHHhHhcCChHHHHHHHccCC-------CC
Q 048281          134 KYTFPCLIKCCCDVMAVLEVKKIHGLVFKL-----G--LDL-DVYIGSALVNTYLKCQFMEEALKVFEELP-------LR  198 (660)
Q Consensus       134 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g--~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~  198 (660)
                      ...|+.+...+...|++++|.+.+++.++.     +  ..| ...+|+.+..+|...|++++|...+++..       .+
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            345666666666666666666666655442     1  122 34577888888888999988888876543       11


Q ss_pred             ----CchhHHHHHHHHHh--CCChhHHHHHHHHHHHCCCCCCh-hhHHHHHHH---HHccCCchhHHHHHHHHHHhCCCC
Q 048281          199 ----DVVLWNAMVNGYAQ--IGEFHKALEVFRRMSKEGIWMSR-FTVTGVLSA---LIMMGFFKNGRVVHGIVVKMGYDS  268 (660)
Q Consensus       199 ----~~~~~~~li~~~~~--~~~~~~A~~~~~~m~~~~~~p~~-~t~~~ll~~---~~~~~~~~~a~~~~~~~~~~g~~~  268 (660)
                          ...++..+..++..  .+++++|++.|++..+.  .|+. ..+..+..+   +...++.+.|...++..++.. +.
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~  207 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PD  207 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SS
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Cc
Confidence                23455555555544  45789999999999874  3543 334333333   445678888999998888775 33


Q ss_pred             CchHHHHHHHHHHc----CCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCH-HHHH
Q 048281          269 GVPVMNALIDMYGK----GKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL-VTFS  340 (660)
Q Consensus       269 ~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~  340 (660)
                      +..++..+...+..    .+++++|.+.+++...   .+..++..+...|...|++++|+..+++..+.  .|+. ..+.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHH
Confidence            45555555544443    4677889998887643   45678888999999999999999999998876  4543 3444


Q ss_pred             HHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHH
Q 048281          341 TVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMI  417 (660)
Q Consensus       341 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li  417 (660)
                      .+...+...+....         ..               ............+..+.|...|+...   ..+..+|..+.
T Consensus       286 ~lg~~y~~~~~~~~---------~~---------------~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg  341 (472)
T 4g1t_A          286 QIGCCYRAKVFQVM---------NL---------------RENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILA  341 (472)
T ss_dssp             HHHHHHHHHHHHHH---------HC---------------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHH
T ss_pred             HHHHHHHHHHHHhh---------hH---------------HHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHH
Confidence            43333321111000         00               00001111112234567777777654   34567889999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHH-HHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKLKPDEV--TFVGVLS-ACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA  494 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  494 (660)
                      ..|...|++++|+..|++..+....|...  .+..+.. .....|+.++|+..|.+..+   +.|+........      
T Consensus       342 ~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~~------  412 (472)
T 4g1t_A          342 SLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKMK------  412 (472)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHHH------
T ss_pred             HHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHHH------
Confidence            99999999999999999999864333221  2222222 34578999999999999876   445543322222      


Q ss_pred             CCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHH
Q 048281          495 GQLNEAYELALAMP--NEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMS  554 (660)
Q Consensus       495 g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  554 (660)
                         ..+.+++++..  .+.++.+|..+..+|...|++++|++.|++++++.|.+|.+...+|
T Consensus       413 ---~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          413 ---DKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             ---HHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             ---HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence               22333333321  2456789999999999999999999999999999998887766554

>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=2.8e-14  Score=141.24  Aligned_cols=229  Identities=10%  Similarity=-0.007  Sum_probs=112.4

Q ss_pred             chhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHH
Q 048281          200 VVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDM  279 (660)
Q Consensus       200 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  279 (660)
                      ...|..+...+...|++++|+++|+++.+... .+...+..+...+...|+++.|...++.+.+.. +            
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~------------   86 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-P------------   86 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T------------
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-c------------
Confidence            34455666667777777777777777665321 233344444444444444444444444444332 1            


Q ss_pred             HHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHH-HHHHH-------------HH-
Q 048281          280 YGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLV-TFSTV-------------LP-  344 (660)
Q Consensus       280 ~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~l-------------l~-  344 (660)
                                         .+..+|..+...+...|++++|.+.++++.+..  |+.. .+..+             .. 
T Consensus        87 -------------------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (327)
T 3cv0_A           87 -------------------KDIAVHAALAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSED  145 (327)
T ss_dssp             -------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC--------------------
T ss_pred             -------------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHh
Confidence                               234455556666666666666666666665542  2221 11111             02 


Q ss_pred             -HHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHH
Q 048281          345 -ACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGY  420 (660)
Q Consensus       345 -~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~  420 (660)
                       .+...|+++.|...+..+.+.....         ..++..+...|.+.|++++|.+.++++.   ..+..+|..+...+
T Consensus       146 ~~~~~~~~~~~A~~~~~~~~~~~~~~---------~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  216 (327)
T 3cv0_A          146 FFFAAPNEYRECRTLLHAALEMNPND---------AQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATL  216 (327)
T ss_dssp             CCTTSHHHHHHHHHHHHHHHHHSTTC---------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhhCCCC---------HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence             2455566666666666655544332         4455555555555555555555555433   12334444455555


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 048281          421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       421 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                      ...|++++|+..++++.+.. +.+..++..+...+...|++++|.+.++.+.+
T Consensus       217 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  268 (327)
T 3cv0_A          217 ANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIY  268 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            55555555555555544431 22333444444444444455555444444443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.64  E-value=8.8e-17  Score=171.19  Aligned_cols=131  Identities=12%  Similarity=0.142  Sum_probs=117.8

Q ss_pred             ChhHHHHHHHHhHcCCChhHHHHHHcc------CCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHH
Q 048281           66 SPLSITSLINMYSKCCQMKYALFVFNN------LSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPC  139 (660)
Q Consensus        66 ~~~~~~~ll~~~~~~g~~~~A~~~~~~------~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  139 (660)
                      -..+||+||++||+.|++++|.++|++      .+..||+++||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            346899999999999999999999963      13689999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhCC-HHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC
Q 048281          140 LIKCCCDVMA-VLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP  196 (660)
Q Consensus       140 ll~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  196 (660)
                      +|.++++.|+ .+.|.+++++|.+.|+.||..+|++++..+.+.+-++.+.+++..+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~  263 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFS  263 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccC
Confidence            9999999998 57899999999999999999999999988877766666666655544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.64  E-value=2.2e-16  Score=168.16  Aligned_cols=125  Identities=15%  Similarity=0.154  Sum_probs=112.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC-------CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS-------KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGV  451 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  451 (660)
                      ..+||+||++|++.|++++|.++|++|.       .||+++||+||.+|++.|+.++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            5689999999999999999999997753       689999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCC-HHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHH
Q 048281          452 LSACSHSGF-LSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELA  504 (660)
Q Consensus       452 l~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  504 (660)
                      |.++++.|+ .++|.++|++|.++ |+.||..+|++++....+.+-++...++.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~  259 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVK  259 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGC
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhC
Confidence            999999997 47899999999996 99999999999998777765555544443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.63  E-value=9.6e-15  Score=135.03  Aligned_cols=193  Identities=15%  Similarity=-0.008  Sum_probs=159.3

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048281          378 DVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA  454 (660)
Q Consensus       378 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  454 (660)
                      +...+..+...+.+.|++++|...|++..   ..+...|..+...+.+.|++++|+..|++..+.. +.+...+..+..+
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~   82 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEA   82 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            37788899999999999999999999865   3467899999999999999999999999999863 3356678888889


Q ss_pred             Hhcc-----------CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHH
Q 048281          455 CSHS-----------GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAA  522 (660)
Q Consensus       455 ~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~  522 (660)
                      +...           |++++|...++.+.+.  .+.+...+..+..+|...|++++|+..|++... ..++..|..+..+
T Consensus        83 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la~~  160 (217)
T 2pl2_A           83 YVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALAEL  160 (217)
T ss_dssp             HHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_pred             HHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHHHH
Confidence            9999           9999999999999873  344578899999999999999999999988532 2678899999999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                      +...|++++|+..++++++++|+++..+..++.++...|++++|...+++.
T Consensus       161 ~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          161 YLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999998865

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.62  E-value=4.1e-14  Score=134.74  Aligned_cols=187  Identities=11%  Similarity=0.003  Sum_probs=148.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC------CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK------KD----VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTF  448 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~------~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  448 (660)
                      ..++..+...|...|++++|...|++..+      ++    ..+|..+...|...|++++|+..|+++.+.  .|+..  
T Consensus        38 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~--  113 (258)
T 3uq3_A           38 ITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTAD--  113 (258)
T ss_dssp             THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH--
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CchhH--
Confidence            44445555555555555555555554431      11    467788888889999999999999998884  45533  


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc
Q 048281          449 VGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLH  526 (660)
Q Consensus       449 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~  526 (660)
                           .+...|++++|...++.+..  ..+.+...+..+...|...|++++|...++++..  +.+..+|..+..++...
T Consensus       114 -----~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~  186 (258)
T 3uq3_A          114 -----ILTKLRNAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKL  186 (258)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             -----HHHHHhHHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh
Confidence                 35556788999999999876  3344567888899999999999999999988643  45678899999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          527 GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       527 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |++++|+..++++++..|+++..+..++.+|...|++++|...+++..+.
T Consensus       187 ~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          187 MSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999998764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.61  E-value=2.6e-13  Score=140.38  Aligned_cols=372  Identities=10%  Similarity=-0.011  Sum_probs=216.5

Q ss_pred             HHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCCh---HHHHHHHccCCCCCchhHHHHHHHHHhCC--
Q 048281          140 LIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFM---EEALKVFEELPLRDVVLWNAMVNGYAQIG--  214 (660)
Q Consensus       140 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~~--  214 (660)
                      +...+.+.|++++|.++++...+.|   +...+..|...|...|+.   ++|...|++..+.+...+..|...+...+  
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            5566677888999999998888876   334445566666667777   88998888887667777777777565555  


Q ss_pred             ---ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhH---HHHHHHHHHhCCCCCchHHHHHHHHHHcCCC---
Q 048281          215 ---EFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNG---RVVHGIVVKMGYDSGVPVMNALIDMYGKGKC---  285 (660)
Q Consensus       215 ---~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a---~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~---  285 (660)
                         ++++|++.|++..+.|...   .+..+...+...+....+   .+.+......|   +......|...|...+.   
T Consensus        86 ~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~  159 (452)
T 3e4b_A           86 TEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQ  159 (452)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGG
T ss_pred             CCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCccc
Confidence               6788999999988865422   555566666555443333   33333333333   34455666666666663   


Q ss_pred             -HHHHHHHHHhcCCCChhhHHHHHHHHHHcC---ChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHH
Q 048281          286 -VGEALEIFEMMEEKDIFSWNSIMTVHEQCG---NHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGY  361 (660)
Q Consensus       286 -~~~A~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  361 (660)
                       .+.+..+++.....++.++..+...|...|   +.++|++.|++..+.|. ++...                       
T Consensus       160 ~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~-----------------------  215 (452)
T 3e4b_A          160 HLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQR-----------------------  215 (452)
T ss_dssp             GHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHH-----------------------
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHH-----------------------
Confidence             444555555555556667777777777777   66677777766666552 22222                       


Q ss_pred             HHHhCccCCCCCCCCcchhHHHHHHHHHHhc----CCHHHHHHHHhcCCCCCHhHHHHHHHH-H--HhcCChHHHHHHHH
Q 048281          362 IVVNGLAKNGSCKDIDDVFMNNALMDMYTKC----GSMRDAQMVFTKMSKKDVASWNIMILG-Y--GMDGQGKEALDMFS  434 (660)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~  434 (660)
                                          +..|..+|...    ++.++|...|++....+...+..+... |  ...+++++|+.+|+
T Consensus       216 --------------------~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~  275 (452)
T 3e4b_A          216 --------------------VDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLD  275 (452)
T ss_dssp             --------------------HHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHH
T ss_pred             --------------------HHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence                                22333333322    455666666665552244555555555 3  34677888888888


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccC-----CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh----cCCHHHHHHHHH
Q 048281          435 CMCEAKLKPDEVTFVGVLSACSHSG-----FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR----AGQLNEAYELAL  505 (660)
Q Consensus       435 ~m~~~g~~p~~~~~~~ll~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~  505 (660)
                      +..+.|   +...+..+...|. .|     ++++|..+|+...     .-+...+..|..+|..    ..+.++|...|+
T Consensus       276 ~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~  346 (452)
T 3e4b_A          276 NGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLL  346 (452)
T ss_dssp             HHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHH
Confidence            887766   4555555555555 44     8888888888764     3456677777777765    348888888888


Q ss_pred             hCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH--hCCChHHHHHHHHHHHh
Q 048281          506 AMPNEANPVVWRTLLAASRL----HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV--AGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       506 ~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~  575 (660)
                      +.....++.....|...|..    ..+.++|...|+++.+..+.  .....+..+..  ..+...+|..+.++.++
T Consensus       347 ~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~--~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          347 TAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP--EANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH--HHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            87666666677777777653    45788888888888876543  33334444432  23456677777776644

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.60  E-value=8.6e-14  Score=133.98  Aligned_cols=240  Identities=11%  Similarity=-0.089  Sum_probs=177.9

Q ss_pred             cCChHHHHHHHHHHhhcCCC--C-CHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHH
Q 048281          314 CGNHDGTLRLFDRMLSAGFQ--P-DLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYT  390 (660)
Q Consensus       314 ~g~~~~a~~~~~~m~~~g~~--p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  390 (660)
                      .|++++|+..|+++.+....  | +...+..+...+...|+++.|...+..++......         ..++..+...|.
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~---------~~~~~~la~~~~   88 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDM---------PEVFNYLGIYLT   88 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCC---------HHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCc---------HHHHHHHHHHHH
Confidence            35566666666666654211  1 23455556666666777777777777766654433         667788888888


Q ss_pred             hcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 048281          391 KCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREF  467 (660)
Q Consensus       391 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~  467 (660)
                      ..|++++|.+.|++..   ..+..+|..+...|...|++++|+..|+++.+.  .|+.......+..+...|++++|...
T Consensus        89 ~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~  166 (275)
T 1xnf_A           89 QAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEV  166 (275)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHH
Confidence            8888888888888765   346778899999999999999999999999985  56655555555566777999999999


Q ss_pred             HHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCC-C-----CHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          468 LPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNE-A-----NPVVWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       468 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      ++.....  .+++...+ .++..+...++.++|.+.+++.... |     +...|..+...|...|++++|...++++++
T Consensus       167 ~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  243 (275)
T 1xnf_A          167 LKQHFEK--SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  243 (275)
T ss_dssp             HHHHHHH--SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhc--CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9888773  33444444 4777788889999999999886652 2     257889999999999999999999999999


Q ss_pred             cCCCCcchHHHHHHHHHhCCChHHHHHHH
Q 048281          542 LEPGHCGNYVLMSNIYVAGGKYEEVLDIR  570 (660)
Q Consensus       542 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  570 (660)
                      .+|++..   ..+.++...|++++|++.+
T Consensus       244 ~~p~~~~---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          244 NNVHNFV---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TCCTTCH---HHHHHHHHHHHHHHC----
T ss_pred             CCchhHH---HHHHHHHHHHHHHhhHHHH
Confidence            9997744   4477888899999988776

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.59  E-value=5.6e-14  Score=133.77  Aligned_cols=240  Identities=8%  Similarity=-0.092  Sum_probs=186.6

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhH
Q 048281          302 FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFM  381 (660)
Q Consensus       302 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  381 (660)
                      ..|..+...+...|++++|+..|++..+..  .+...+..+...+...|+++.|...+..+..........  ......+
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~--~~~~~~~   81 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRAD--YKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCC--HHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccc--hHHHHHH
Confidence            345666677777777777777777777665  566677777777777777777777777776654322100  0000467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC--CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSK--KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSG  459 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  459 (660)
                      +..+...|.+.|++++|...|++...  ++       ...+...|++++|+..++++.... +.+...+..+...+...|
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEHRT-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCch-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhc
Confidence            88899999999999999999998763  34       245667788999999999999853 234567778888999999


Q ss_pred             CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 048281          460 FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQ  537 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~  537 (660)
                      ++++|...++.+.+.  .+.+...+..+..+|.+.|++++|...++++..  +.+...|..+..++...|++++|...++
T Consensus       154 ~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            999999999999873  445678899999999999999999999998653  4567899999999999999999999999


Q ss_pred             HHHhcC------CCCcchHHHHHH
Q 048281          538 RVFQLE------PGHCGNYVLMSN  555 (660)
Q Consensus       538 ~~~~~~------p~~~~~~~~l~~  555 (660)
                      +++++.      |++...+..+..
T Consensus       232 ~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          232 AARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHHHhChhhcCCCchHHHHHHHHH
Confidence            999998      877666555544

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.55  E-value=6.8e-13  Score=123.25  Aligned_cols=197  Identities=12%  Similarity=0.015  Sum_probs=174.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048281          378 DVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA  454 (660)
Q Consensus       378 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  454 (660)
                      +..++..+...|...|++++|.+.|+++.   ..+...|..+...|...|++++|...++++.+.. +.+..++..+...
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            47788999999999999999999999875   3467899999999999999999999999999863 4467788888999


Q ss_pred             Hhcc-CCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChH
Q 048281          455 CSHS-GFLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTD  530 (660)
Q Consensus       455 ~~~~-g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~  530 (660)
                      +... |++++|...++.+.+ .+..|+ ...+..+..+|...|++++|...++++..  +.+...+..+...+...|+++
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 999999999999987 234443 57889999999999999999999988654  446788999999999999999


Q ss_pred             HHHHHHHHHHhcCC-CCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          531 LAEIAAQRVFQLEP-GHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       531 ~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +|...++++++..| +++..+..++.++...|+.++|..+++.+.+.
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            99999999999999 89889999999999999999999999998764

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.54  E-value=2.9e-13  Score=130.10  Aligned_cols=244  Identities=11%  Similarity=-0.034  Sum_probs=134.6

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCH--HHHHHHHHHH
Q 048281          272 VMNALIDMYGKGKCVGEALEIFEMMEE---KDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDL--VTFSTVLPAC  346 (660)
Q Consensus       272 ~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~ll~~~  346 (660)
                      .+......+...|++++|+..|++..+   .+...|..+...+...|++++|+..+++..+.+..|+.  ..+..+...+
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            444566677777777777777777643   24456777777777777777777777777663212221  2244555555


Q ss_pred             hcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhc
Q 048281          347 SHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMD  423 (660)
Q Consensus       347 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  423 (660)
                      ...|+++.|...++.+.+.....         ..++..+...|...|++++|...|++..+   .+...|..+..     
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~~~---------~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~-----  150 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDTTR---------LDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQ-----  150 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTC---------THHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHH-----
T ss_pred             HHcccHHHHHHHHHHHHhcCccc---------HHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHH-----
Confidence            55555555555555555543332         34455555555555555555555554432   13334444441     


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC---HHHH
Q 048281          424 GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ---LNEA  500 (660)
Q Consensus       424 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A  500 (660)
                                                    .+...+++++|...++.+.+.  .+.+...+..+..++...|+   +++|
T Consensus       151 ------------------------------~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A  198 (272)
T 3u4t_A          151 ------------------------------AYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLA  198 (272)
T ss_dssp             ------------------------------HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTT
T ss_pred             ------------------------------HHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHH
Confidence                                          222223444444444444431  12223344444444444444   3334


Q ss_pred             HHHHHhCCC----CCC------HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCC
Q 048281          501 YELALAMPN----EAN------PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGG  561 (660)
Q Consensus       501 ~~~~~~~~~----~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  561 (660)
                      ...++++..    .|+      ..+|..+...|...|++++|...++++++++|+++.+...+..+....+
T Consensus       199 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          199 KPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            444433221    122      2467778888999999999999999999999999887777766655443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.54  E-value=5.7e-13  Score=137.79  Aligned_cols=345  Identities=9%  Similarity=-0.029  Sum_probs=231.7

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCc---hhHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 048281          205 AMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFF---KNGRVVHGIVVKMGYDSGVPVMNALIDMYG  281 (660)
Q Consensus       205 ~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  281 (660)
                      .+...+.+.|++++|+++|++..+.|-   ...+..+-..+...|+.   ++|...+....+.    +...+..|...+.
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   33344444555667777   8899998888755    4555666666455


Q ss_pred             cCC-----CHHHHHHHHHhcCCC-ChhhHHHHHHHHHHcCChH---HHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccch
Q 048281          282 KGK-----CVGEALEIFEMMEEK-DIFSWNSIMTVHEQCGNHD---GTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAAL  352 (660)
Q Consensus       282 ~~~-----~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~g~~~---~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  352 (660)
                      ..+     ++++|...|++..++ +..++..|...|...+..+   ++.+.+....+.|.   ......+...+...+.+
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCc
Confidence            544     778999999887654 5568888888888776543   45566666555553   33344455555555645


Q ss_pred             HHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcC---CHHHHHHHHhcCCC---CCHhHHHHHHHHHHhc---
Q 048281          353 MHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCG---SMRDAQMVFTKMSK---KDVASWNIMILGYGMD---  423 (660)
Q Consensus       353 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~---  423 (660)
                      +.+........+.-...+        +..+..|..+|.+.|   +.++|.+.|++..+   ++...+..+...|...   
T Consensus       158 ~~~~~~a~~~~~~a~~~~--------~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~  229 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTT--------DICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLG  229 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTC--------TTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGS
T ss_pred             ccCHHHHHHHHHHHHcCC--------HHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCC
Confidence            444444333333333333        558888999999999   88999999987652   3444557777777655   


Q ss_pred             -CChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-H--hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC----
Q 048281          424 -GQGKEALDMFSCMCEAKLKPDEVTFVGVLSA-C--SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG----  495 (660)
Q Consensus       424 -g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----  495 (660)
                       +++++|+.+|++.. .|   +...+..+... +  ...+++++|..+|+...+. |   +...+..|..+|. .|    
T Consensus       230 ~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~  300 (452)
T 3e4b_A          230 TPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVP  300 (452)
T ss_dssp             SCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSC
T ss_pred             CCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCC
Confidence             68999999999987 43   44455555554 3  4688999999999999873 4   6677788888887 55    


Q ss_pred             -CHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHh----CCChHHH
Q 048281          496 -QLNEAYELALAMPNEANPVVWRTLLAASRL----HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVA----GGKYEEV  566 (660)
Q Consensus       496 -~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a  566 (660)
                       ++++|.+.|++.. +.++..+..|...|..    ..+.++|...|+++.+  ++++.....|+.+|..    ..+.++|
T Consensus       301 ~d~~~A~~~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~--~g~~~A~~~Lg~~y~~G~g~~~d~~~A  377 (452)
T 3e4b_A          301 ADAKAAEAHFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAAR--NGQNSADFAIAQLFSQGKGTKPDPLNA  377 (452)
T ss_dssp             CCHHHHHHHHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHT--TTCTTHHHHHHHHHHSCTTBCCCHHHH
T ss_pred             CCHHHHHHHHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHh--hChHHHHHHHHHHHHhCCCCCCCHHHH
Confidence             9999999999988 7788888888877766    3489999999999877  4567789999999986    4589999


Q ss_pred             HHHHHHHHhCCCc
Q 048281          567 LDIRHTMRQQNVR  579 (660)
Q Consensus       567 ~~~~~~~~~~~~~  579 (660)
                      ..++++..+.|..
T Consensus       378 ~~~~~~A~~~g~~  390 (452)
T 3e4b_A          378 YVFSQLAKAQDTP  390 (452)
T ss_dssp             HHHHHHHHTTCCH
T ss_pred             HHHHHHHHHCCCH
Confidence            9999999888753

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.54  E-value=5.6e-13  Score=126.43  Aligned_cols=197  Identities=8%  Similarity=-0.079  Sum_probs=174.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ...+..+...|...|++++|...|+++.   ..+...|..+...|...|++++|++.++++.+.. +.+...+..+...+
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            5678888999999999999999999876   3467889999999999999999999999999864 34677888888999


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLA  532 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A  532 (660)
                      ...|++++|.++++.+.+ .+..| +...+..+..+|...|++++|.+.++++..  +.+...+..+...+...|++++|
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            999999999999999976 23445 457888999999999999999999998653  45678899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          533 EIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       533 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ...++++++..|+++..+..++.++...|++++|.++++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999999999999999999999999999999999999997753

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.53  E-value=2e-13  Score=128.63  Aligned_cols=196  Identities=13%  Similarity=0.091  Sum_probs=158.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ...+..+...+...|++++|...|+++.   ..+...|..+...+...|++++|+..++++.+.. +.+...+..+...+
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  101 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVY  101 (243)
T ss_dssp             -------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHH
Confidence            6677888889999999999999999875   3467889999999999999999999999999863 44677888888999


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAE  533 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~  533 (660)
                      ...|++++|.+.++.+.+.  .+.+...+..+...|.+.|++++|...++++..  +.+...+..+...+...|++++|+
T Consensus       102 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999873  445678899999999999999999999998653  456789999999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          534 IAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       534 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ..++++++..|+++..+..++.+|...|++++|.+.++++.+..
T Consensus       180 ~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          180 SQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            99999999999999999999999999999999999999997743

>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=99.52  E-value=1.2e-12  Score=131.01  Aligned_cols=246  Identities=7%  Similarity=-0.005  Sum_probs=197.9

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCC-HHHHHHHHHHHhcccc-hHHHHHHHHHHHHhCccCCCCCCCCcc
Q 048281          301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPD-LVTFSTVLPACSHLAA-LMHGRQIHGYIVVNGLAKNGSCKDIDD  378 (660)
Q Consensus       301 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~  378 (660)
                      ...|+.+...+.+.|++++|+..+++..+.  .|+ ...|..+..++...|+ +++|...++.++......         
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~---------  165 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKN---------  165 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTC---------
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCC---------
Confidence            346777788888888888888888888875  444 4566777777888886 888888888888877665         


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ..+|..+..+|.+.|++++|+..|+++.   ..+...|..+..++.+.|++++|+..|+++++.. +-+...|+.+..++
T Consensus       166 ~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l  244 (382)
T 2h6f_A          166 YQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVI  244 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            7889999999999999999999999876   4577899999999999999999999999999864 33567888888888


Q ss_pred             hc-cCCHHHH-----HHHHHHhHHhcCCCCChHHHHHHHHHHhhcC--CHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHc
Q 048281          456 SH-SGFLSQG-----REFLPLMESRYGVVPTIEHYTCVIDMLGRAG--QLNEAYELALAMPN-EANPVVWRTLLAASRLH  526 (660)
Q Consensus       456 ~~-~g~~~~a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~  526 (660)
                      .. .|..++|     +..++.+++.  .+-+...|..+..+|...|  ++++|.+.+.++.. +.+...+..++..|...
T Consensus       245 ~~l~~~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~  322 (382)
T 2h6f_A          245 SNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDM  322 (382)
T ss_dssp             HHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHH
T ss_pred             HHhcCcchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHH
Confidence            88 6665777     5888888762  3345678888999999888  68999999888733 34567888899999887


Q ss_pred             C---------ChHHHHHHHHHH-HhcCCCCcchHHHHHHHHHhC
Q 048281          527 G---------NTDLAEIAAQRV-FQLEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       527 g---------~~~~A~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  560 (660)
                      |         ..++|+.+++++ .+++|.....|..++..+...
T Consensus       323 ~~~~~~~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          323 LENQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHTTCSSHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             hcccccchHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence            4         258999999999 899999988888887766543

>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=99.52  E-value=5e-12  Score=121.50  Aligned_cols=189  Identities=10%  Similarity=0.011  Sum_probs=132.9

Q ss_pred             HHHHHHHHHHh----cCCHHHHHHHHhcCCC-CCHhHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 048281          381 MNNALMDMYTK----CGSMRDAQMVFTKMSK-KDVASWNIMILGYGM----DGQGKEALDMFSCMCEAKLKPDEVTFVGV  451 (660)
Q Consensus       381 ~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  451 (660)
                      .+..+...|..    .+++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus        40 a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  116 (273)
T 1ouv_A           40 GCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASL  116 (273)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHH
Confidence            34445555555    5666666666655442 245566666666766    777777777777777754   55666666


Q ss_pred             HHHHhc----cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 048281          452 LSACSH----SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR----AGQLNEAYELALAMPNEANPVVWRTLLAAS  523 (660)
Q Consensus       452 l~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~  523 (660)
                      ...+..    .+++++|...++...+. +   +...+..+...|..    .+++++|...+++.....++..+..+...|
T Consensus       117 g~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~  192 (273)
T 1ouv_A          117 GGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMY  192 (273)
T ss_dssp             HHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            667776    77778888877777763 3   45566677777776    778888888877765555667777788888


Q ss_pred             HH----cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHh----CCChHHHHHHHHHHHhCCC
Q 048281          524 RL----HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVA----GGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       524 ~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  578 (660)
                      ..    .+++++|+..++++.+..|  +..+..++.+|..    .+++++|.+.+++..+.|.
T Consensus       193 ~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          193 HHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             HHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            88    8888888888888887755  5677788888887    8888888888888776553

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.52  E-value=2.3e-13  Score=128.28  Aligned_cols=178  Identities=13%  Similarity=0.022  Sum_probs=136.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ...+..+...|.+.|++++|...|+++.   ..+...|..+...+...|++++|+..++++.+.. +.+...+..+...+
T Consensus        57 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~  135 (243)
T 2q7f_A           57 AIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVL  135 (243)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3444555556666666666666666544   2356677778888888888888888888888763 44667777788888


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAE  533 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~  533 (660)
                      ...|++++|...++++.+.  .+.+...+..+...|.+.|++++|.+.++++..  +.+..+|..+..+|...|++++|.
T Consensus       136 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  213 (243)
T 2q7f_A          136 VKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKAL  213 (243)
T ss_dssp             HHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHH
T ss_pred             HHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHH
Confidence            8889999999999988773  345677888889999999999999999987643  456778999999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHh
Q 048281          534 IAAQRVFQLEPGHCGNYVLMSNIYVA  559 (660)
Q Consensus       534 ~~~~~~~~~~p~~~~~~~~l~~~~~~  559 (660)
                      ..+++++++.|+++..+..++.+...
T Consensus       214 ~~~~~~~~~~p~~~~~~~~~~~l~~~  239 (243)
T 2q7f_A          214 EMLDKAIDIQPDHMLALHAKKLLGHH  239 (243)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHTC----
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHhh
Confidence            99999999999998877776655443

>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=99.51  E-value=2e-12  Score=122.62  Aligned_cols=204  Identities=12%  Similarity=-0.006  Sum_probs=148.5

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchh
Q 048281          301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVF  380 (660)
Q Consensus       301 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  380 (660)
                      ...|..+...+...|++++|...|+++.+.. +.+                                           ..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~-------------------------------------------~~   72 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSS-------------------------------------------AD   72 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTC-------------------------------------------HH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCh-------------------------------------------HH
Confidence            4556677777777777777777777766542 112                                           33


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHh
Q 048281          381 MNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACS  456 (660)
Q Consensus       381 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~  456 (660)
                      ++..+...|...|++++|.+.|+++.   ..+...|..+...|...|++++|+..++++...+..| +...+..+...+.
T Consensus        73 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~  152 (252)
T 2ho1_A           73 AHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSL  152 (252)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHH
Confidence            44455555556666666666665543   2355667777777888888888888888877633344 3456677777888


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHH
Q 048281          457 HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEI  534 (660)
Q Consensus       457 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~  534 (660)
                      ..|++++|...++.+.+.  .+.+...+..+...|...|++++|...++++..  +.+...+..+...+...|+.++|..
T Consensus       153 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~  230 (252)
T 2ho1_A          153 QMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAAS  230 (252)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHH
Confidence            888888888888888763  334577888888999999999999999888643  4567788888899999999999999


Q ss_pred             HHHHHHhcCCCCcchH
Q 048281          535 AAQRVFQLEPGHCGNY  550 (660)
Q Consensus       535 ~~~~~~~~~p~~~~~~  550 (660)
                      .++++++..|+++...
T Consensus       231 ~~~~~~~~~p~~~~~~  246 (252)
T 2ho1_A          231 YGLQLKRLYPGSLEYQ  246 (252)
T ss_dssp             HHHHHHHHCTTSHHHH
T ss_pred             HHHHHHHHCCCCHHHH
Confidence            9999999999886544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.51  E-value=1.3e-12  Score=117.27  Aligned_cols=166  Identities=13%  Similarity=0.053  Sum_probs=133.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHH
Q 048281          409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVI  488 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  488 (660)
                      +...|..+...|.+.|++++|+..|++.++.. +-+...+..+..++...|++++|...+..+..  ..+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVV--LDTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCchhHHHHHHHH
Confidence            45677778888888888888888888887753 33556777777788888888888888888876  3444566777778


Q ss_pred             HHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHH
Q 048281          489 DMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  566 (660)
                      ..+...++++.|...+.+...  +.+...+..+..++...|++++|+..|+++++++|+++.++..++.+|.+.|++++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            888888888888888877543  456778888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCC
Q 048281          567 LDIRHTMRQQN  577 (660)
Q Consensus       567 ~~~~~~~~~~~  577 (660)
                      .+.+++..+..
T Consensus       161 ~~~~~~al~~~  171 (184)
T 3vtx_A          161 VKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhCC
Confidence            99999887643

>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=99.50  E-value=8e-12  Score=120.06  Aligned_cols=226  Identities=11%  Similarity=-0.065  Sum_probs=169.6

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc----ccchHHHHHHHHHHHHhCccCCCCCCCC
Q 048281          301 IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSH----LAALMHGRQIHGYIVVNGLAKNGSCKDI  376 (660)
Q Consensus       301 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  376 (660)
                      ..++..+...+...|++++|+..|++..+.   .+...+..+...+..    .+++++|...+....+.+   +      
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~------   73 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---Y------   73 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C------
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---C------
Confidence            344555555566666666666666666552   233344445555555    666666666666666554   2      


Q ss_pred             cchhHHHHHHHHHHh----cCCHHHHHHHHhcCCC-CCHhHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHH
Q 048281          377 DDVFMNNALMDMYTK----CGSMRDAQMVFTKMSK-KDVASWNIMILGYGM----DGQGKEALDMFSCMCEAKLKPDEVT  447 (660)
Q Consensus       377 ~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~  447 (660)
                        ...+..+...|..    .+++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.+   +...
T Consensus        74 --~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a  148 (273)
T 1ouv_A           74 --SNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDG  148 (273)
T ss_dssp             --HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             --HHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHH
Confidence              5667777777777    8888888888877653 366788888888888    899999999999999865   5566


Q ss_pred             HHHHHHHHhc----cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHH
Q 048281          448 FVGVLSACSH----SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR----AGQLNEAYELALAMPNEANPVVWRTL  519 (660)
Q Consensus       448 ~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l  519 (660)
                      +..+...+..    .+++++|...++...+. +   +...+..+..+|..    .+++++|...+++.....+...+..+
T Consensus       149 ~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l  224 (273)
T 1ouv_A          149 CTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNL  224 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHH
Confidence            7777777777    89999999999998873 3   46778889999999    99999999999987655567888889


Q ss_pred             HHHHHH----cCChHHHHHHHHHHHhcCCCCc
Q 048281          520 LAASRL----HGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       520 ~~~~~~----~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      ...|..    .+++++|...++++.++.|+++
T Consensus       225 ~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a  256 (273)
T 1ouv_A          225 GAMQYNGEGVTRNEKQAIENFKKGCKLGAKGA  256 (273)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHHcCCHHH
Confidence            999998    9999999999999999988653

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.50  E-value=4.5e-12  Score=117.65  Aligned_cols=173  Identities=12%  Similarity=-0.034  Sum_probs=132.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhc-CChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMD-GQGKEALDMFSCMCEAKLKPD-EVTFVGVLS  453 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~  453 (660)
                      ..++..+...|...|++++|.+.|+++.   ..+..+|..+...+... |++++|+..++++.+.+..|+ ...+..+..
T Consensus        42 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  121 (225)
T 2vq2_A           42 ELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGI  121 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHH
Confidence            4455556666666677777776666554   23566777888888888 888889888888887333343 466777778


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--C-CCHHHHHHHHHHHHHcCChH
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--E-ANPVVWRTLLAASRLHGNTD  530 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~~l~~~~~~~g~~~  530 (660)
                      ++...|++++|...++.+.+.  .+.+...+..+..+|.+.|++++|.+.++++..  + .+...+..+...+...|+.+
T Consensus       122 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (225)
T 2vq2_A          122 CSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQ  199 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHH
Confidence            888899999999999988873  334577888899999999999999999987644  4 56777888888889999999


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHH
Q 048281          531 LAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       531 ~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      .|...++.+.+..|+++.....+
T Consensus       200 ~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          200 AAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHh
Confidence            99999999999999887655433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.48  E-value=2.3e-12  Score=123.71  Aligned_cols=220  Identities=7%  Similarity=-0.030  Sum_probs=164.5

Q ss_pred             HhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CC----HhHHHHHHHH
Q 048281          346 CSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK--KD----VASWNIMILG  419 (660)
Q Consensus       346 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~  419 (660)
                      +...|+++.|...+..+.+..+..         ...+..+...|...|++++|...|++..+  ++    ..+|..+...
T Consensus        13 ~~~~~~~~~A~~~~~~~l~~~p~~---------~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A           13 LFKNNNYAEAIEVFNKLEAKKYNS---------PYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             HHTTTCHHHHHHHHHHHHHTTCCC---------STTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCc---------HHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            344444444444444444433222         44556666677777777777777766543  12    2357888899


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHH
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNE  499 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  499 (660)
                      +...|++++|+..|++..+.. +.+...+..+...+...|++++|...++++.+  -.+.+...+..+...+...+++++
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR--PTTTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC--SSCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhh--cCCCcHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999863 33557888899999999999999999999976  244456777778834445569999


Q ss_pred             HHHHHHhCCC--CCCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhcC---CCC-----cchHHHHHHHHHhCCChHHH
Q 048281          500 AYELALAMPN--EANPVVWRTLLAASRLHGN---TDLAEIAAQRVFQLE---PGH-----CGNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       500 A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~---p~~-----~~~~~~l~~~~~~~g~~~~a  566 (660)
                      |.+.++++..  +.+...+..+..++...|+   +++|...++++++..   |+.     ...|..++.+|...|++++|
T Consensus       161 A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          161 ADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999998654  4457788889999999998   889999999999874   442     25788899999999999999


Q ss_pred             HHHHHHHHhCC
Q 048281          567 LDIRHTMRQQN  577 (660)
Q Consensus       567 ~~~~~~~~~~~  577 (660)
                      .+.+++..+..
T Consensus       241 ~~~~~~al~~~  251 (272)
T 3u4t_A          241 DAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhcC
Confidence            99999998743

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.48  E-value=3.4e-12  Score=117.80  Aligned_cols=190  Identities=14%  Similarity=0.022  Sum_probs=93.0

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHH
Q 048281          304 WNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNN  383 (660)
Q Consensus       304 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  383 (660)
                      +..+...+.+.|++++|+..|++..+.. +.+...+..+...+...|++++|...++.+++..+..         ...+.
T Consensus         8 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~---------~~a~~   77 (217)
T 2pl2_A            8 PLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRY---------LGGYM   77 (217)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---------HHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc---------HHHHH
Confidence            3334444444444444444444444321 1122333334444444444444444444444443322         44555


Q ss_pred             HHHHHHHhc-----------CCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 048281          384 ALMDMYTKC-----------GSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFV  449 (660)
Q Consensus       384 ~li~~~~~~-----------g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  449 (660)
                      .+..+|.+.           |++++|...|++..   ..+...|..+..+|...|++++|+..|++..+..  .+...+.
T Consensus        78 ~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~  155 (217)
T 2pl2_A           78 VLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHH
T ss_pred             HHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHH
Confidence            555555555           66666666666554   2245566666666666666666666666666654  4555666


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 048281          450 GVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAM  507 (660)
Q Consensus       450 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  507 (660)
                      .+..++...|++++|...|+.+.+.  .+.+...+..+..++.+.|++++|...+++.
T Consensus       156 ~la~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          156 ALAELYLSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666666666666666552  2334455566666666666666666665543

>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=99.48  E-value=1.3e-12  Score=130.84  Aligned_cols=226  Identities=8%  Similarity=0.020  Sum_probs=193.8

Q ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCC-HHHHHHHHhcCC---CCCHhH
Q 048281          337 VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGS-MRDAQMVFTKMS---KKDVAS  412 (660)
Q Consensus       337 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~---~~~~~~  412 (660)
                      ..|..+...+...|+++.|...++.++......         ..+|+.+..++...|+ +++|+..|+++.   ..+...
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~---------~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a  168 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELNAAN---------YTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQV  168 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTC---------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhCccC---------HHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHH
Confidence            356666677888899999999999999987765         8899999999999997 999999999876   347789


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHh
Q 048281          413 WNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLG  492 (660)
Q Consensus       413 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  492 (660)
                      |+.+..++...|++++|+..|+++++.. +-+...|..+..++...|++++|+..++.+++.  -+-+...|+.+..+|.
T Consensus       169 ~~~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~  245 (382)
T 2h6f_A          169 WHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVIS  245 (382)
T ss_dssp             HHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999863 346678888999999999999999999999973  4456789999999999


Q ss_pred             h-cCCHHHH-----HHHHHhCCC--CCCHHHHHHHHHHHHHcC--ChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCC-
Q 048281          493 R-AGQLNEA-----YELALAMPN--EANPVVWRTLLAASRLHG--NTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGG-  561 (660)
Q Consensus       493 ~-~g~~~~A-----~~~~~~~~~--~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-  561 (660)
                      + .|..++|     ++.+++...  +.+...|..+...+...|  ++++|+..++++ +.+|+++..+..++.+|.+.| 
T Consensus       246 ~l~~~~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~  324 (382)
T 2h6f_A          246 NTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLE  324 (382)
T ss_dssp             HTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HhcCcchHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhc
Confidence            9 6665777     467776543  456789999999999888  689999999998 889999999999999999874 


Q ss_pred             --------ChHHHHHHHHHH-Hh
Q 048281          562 --------KYEEVLDIRHTM-RQ  575 (660)
Q Consensus       562 --------~~~~a~~~~~~~-~~  575 (660)
                              .+++|+++++++ .+
T Consensus       325 ~~~~~~~~~~~~A~~~~~~l~~~  347 (382)
T 2h6f_A          325 NQCDNKEDILNKALELCEILAKE  347 (382)
T ss_dssp             TTCSSHHHHHHHHHHHHHHHHHT
T ss_pred             ccccchHHHHHHHHHHHHHHHHH
Confidence                    358999999998 55

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.48  E-value=8.4e-13  Score=135.36  Aligned_cols=265  Identities=12%  Similarity=-0.005  Sum_probs=179.3

Q ss_pred             HHHHHHHcCChHHHHHHHHHHhhcCCCCCH-----HHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhH
Q 048281          307 IMTVHEQCGNHDGTLRLFDRMLSAGFQPDL-----VTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFM  381 (660)
Q Consensus       307 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  381 (660)
                      +...+...|++++|+..|++..+.+  |+.     ..+..+...+...|+++.|...++.+........   .......+
T Consensus        54 ~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~---~~~~~~~~  128 (411)
T 4a1s_A           54 EGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMN---DRLGEAKS  128 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc---CchHHHHH
Confidence            4444555555555555555555542  221     2344444555555666666665555543310000   00001556


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCC---------CHhHHHHHHHHHHhcCC-----------------hHHHHHHHHH
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSKK---------DVASWNIMILGYGMDGQ-----------------GKEALDMFSC  435 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~-----------------~~~A~~~~~~  435 (660)
                      +..+...|...|++++|...|++....         ...++..+...|...|+                 +++|+..+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            777777888888888888877765421         23467778888888888                 8888888887


Q ss_pred             HHHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC----hHHHHHHHHHHhhcCCHHHHHHHHHh
Q 048281          436 MCEA----KLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT----IEHYTCVIDMLGRAGQLNEAYELALA  506 (660)
Q Consensus       436 m~~~----g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~  506 (660)
                      ..+.    +-.| ...++..+...+...|++++|...++++.+...-.++    ...+..+..+|...|++++|...+++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKR  288 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            6642    1111 2246777778888999999999999988763211122    23778889999999999999999887


Q ss_pred             CCC----C----CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------cchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          507 MPN----E----ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH------CGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       507 ~~~----~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      ...    .    ....++..+...+...|++++|...++++++..+..      ...+..++.+|...|++++|.+.+++
T Consensus       289 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  368 (411)
T 4a1s_A          289 TLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQ  368 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            543    1    124678889999999999999999999998874432      34788999999999999999999998


Q ss_pred             HHhC
Q 048281          573 MRQQ  576 (660)
Q Consensus       573 ~~~~  576 (660)
                      ..+.
T Consensus       369 al~~  372 (411)
T 4a1s_A          369 HLQL  372 (411)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8663

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.47  E-value=1.5e-12  Score=133.03  Aligned_cols=197  Identities=11%  Similarity=-0.002  Sum_probs=134.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----HhHHHHHHHHHHhcCC--------------------hHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK-----KD----VASWNIMILGYGMDGQ--------------------GKEA  429 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A  429 (660)
                      ..++..+...|...|++++|...+++...     ++    ..++..+...|...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            44556666667777777777776665541     11    3366677777777777                    7777


Q ss_pred             HHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC----hHHHHHHHHHHhhcCCHHHH
Q 048281          430 LDMFSCMCEA----KLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT----IEHYTCVIDMLGRAGQLNEA  500 (660)
Q Consensus       430 ~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A  500 (660)
                      +..+++....    +-.| ...++..+...+...|++++|...++++.+...-.++    ...+..+...|...|++++|
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            7777776542    1111 1235666677788888888888888887652211122    23677788888888888888


Q ss_pred             HHHHHhCCC----CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------cchHHHHHHHHHhCCChHHH
Q 048281          501 YELALAMPN----EAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH------CGNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       501 ~~~~~~~~~----~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a  566 (660)
                      ...+++...    .++    ..++..+...|...|++++|...+++++++.+..      +..+..++.+|...|++++|
T Consensus       247 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  326 (406)
T 3sf4_A          247 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQA  326 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            888876532    111    4567778888888888888888888888764332      45677888888888888888


Q ss_pred             HHHHHHHHh
Q 048281          567 LDIRHTMRQ  575 (660)
Q Consensus       567 ~~~~~~~~~  575 (660)
                      .+.+++..+
T Consensus       327 ~~~~~~al~  335 (406)
T 3sf4_A          327 MHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888887754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.47  E-value=2.4e-12  Score=127.59  Aligned_cols=264  Identities=11%  Similarity=0.027  Sum_probs=175.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHhhcCCCCC-----HHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHH
Q 048281          308 MTVHEQCGNHDGTLRLFDRMLSAGFQPD-----LVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMN  382 (660)
Q Consensus       308 i~~~~~~g~~~~a~~~~~~m~~~g~~p~-----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  382 (660)
                      ...+...|++++|...|+++.+..  |+     ...+..+...+...|+++.|...+...........   ..+....++
T Consensus        12 g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~---~~~~~~~~~   86 (338)
T 3ro2_A           12 GERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIG---DQLGEAKAS   86 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT---CHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccc---ccHHHHHHH
Confidence            344445555555555555554432  22     12344444445555555555555554433211000   000014566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCC-----CC----HhHHHHHHHHHHhcCC--------------------hHHHHHHH
Q 048281          383 NALMDMYTKCGSMRDAQMVFTKMSK-----KD----VASWNIMILGYGMDGQ--------------------GKEALDMF  433 (660)
Q Consensus       383 ~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~  433 (660)
                      ..+...|...|++++|...+++..+     ++    ..++..+...|...|+                    +++|...+
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  166 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLY  166 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHH
Confidence            7777788888888888887776541     22    3377778888888888                    88888888


Q ss_pred             HHHHHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC----hHHHHHHHHHHhhcCCHHHHHHHH
Q 048281          434 SCMCEA----KLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT----IEHYTCVIDMLGRAGQLNEAYELA  504 (660)
Q Consensus       434 ~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~  504 (660)
                      ++....    +-.| ...++..+...+...|++++|...++++.+...-.++    ...+..+...|...|++++|...+
T Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  246 (338)
T 3ro2_A          167 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  246 (338)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            876542    1111 1346677777888999999999999988753111122    247888889999999999999998


Q ss_pred             HhCCC----CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------cchHHHHHHHHHhCCChHHHHHHH
Q 048281          505 LAMPN----EAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH------CGNYVLMSNIYVAGGKYEEVLDIR  570 (660)
Q Consensus       505 ~~~~~----~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~  570 (660)
                      ++...    .++    ..++..+...+...|++++|...++++++..|..      ..++..++.+|...|++++|...+
T Consensus       247 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  326 (338)
T 3ro2_A          247 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFA  326 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            87542    122    4577888899999999999999999998874432      347888999999999999999999


Q ss_pred             HHHHhC
Q 048281          571 HTMRQQ  576 (660)
Q Consensus       571 ~~~~~~  576 (660)
                      ++..+.
T Consensus       327 ~~a~~~  332 (338)
T 3ro2_A          327 EKHLEI  332 (338)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            998764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.45  E-value=6.4e-13  Score=138.31  Aligned_cols=190  Identities=11%  Similarity=0.009  Sum_probs=171.7

Q ss_pred             hhHHHHHHHHHHhcCCH-HHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSM-RDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA  454 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~-~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  454 (660)
                      ...+..+...|...|++ ++|++.|++..   ..+...|..+..+|...|++++|+..|++..+.  .|+...+..+...
T Consensus       102 a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~  179 (474)
T 4abn_A          102 AQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMV  179 (474)
T ss_dssp             HHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHH
Confidence            78899999999999999 99999999876   346789999999999999999999999999985  5788888889999


Q ss_pred             Hhcc---------CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc--------CCHHHHHHHHHhCCC-C----CC
Q 048281          455 CSHS---------GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA--------GQLNEAYELALAMPN-E----AN  512 (660)
Q Consensus       455 ~~~~---------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~~-~----~~  512 (660)
                      +...         |++++|...++++.+.  .+.+...|..+..+|...        |++++|.+.|++... .    .+
T Consensus       180 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  257 (474)
T 4abn_A          180 LRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSN  257 (474)
T ss_dssp             HTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGC
T ss_pred             HHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccC
Confidence            9999         9999999999999873  445678899999999999        999999999998654 3    47


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHH
Q 048281          513 PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       513 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      ...|..+..+|...|++++|+..|+++++++|+++..+..++.++...|++++|.+.+.+
T Consensus       258 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          258 PDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            889999999999999999999999999999999999999999999999999999976543

>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=99.45  E-value=7.1e-10  Score=118.48  Aligned_cols=415  Identities=8%  Similarity=0.002  Sum_probs=267.4

Q ss_pred             CCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCC---HHHHHHHHHHHHHhCC-CCChh
Q 048281           95 CEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMA---VLEVKKIHGLVFKLGL-DLDVY  170 (660)
Q Consensus        95 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~---~~~a~~~~~~~~~~g~-~~~~~  170 (660)
                      .+-|..+|..++..+.+.+.++.+..+|+++... .+.+...|..-+..-.+.++   ++.+.++|++.+...+ +|++.
T Consensus        62 np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~  140 (679)
T 4e6h_A           62 QPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLS  140 (679)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHH
T ss_pred             CcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHH
Confidence            3457888888888888888888888899888875 33345566677777777777   8888888888887642 36777


Q ss_pred             HHHHHHHHhHhcCCh--------HHHHHHHccCC------CC-CchhHHHHHHHHH---------hCCChhHHHHHHHHH
Q 048281          171 IGSALVNTYLKCQFM--------EEALKVFEELP------LR-DVVLWNAMVNGYA---------QIGEFHKALEVFRRM  226 (660)
Q Consensus       171 ~~~~li~~~~~~g~~--------~~A~~~~~~~~------~~-~~~~~~~li~~~~---------~~~~~~~A~~~~~~m  226 (660)
                      .|...+....+.++.        +.+.++|+...      .+ +...|...+.-..         .+++++.+.++|+..
T Consensus       141 LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~ra  220 (679)
T 4e6h_A          141 LWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTL  220 (679)
T ss_dssp             HHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHH
Confidence            777777665554443        23345665421      22 3456777776543         234466777888877


Q ss_pred             HHCCCCCC--hhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHh-------cC
Q 048281          227 SKEGIWMS--RFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEM-------ME  297 (660)
Q Consensus       227 ~~~~~~p~--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~-------~~  297 (660)
                      +.  ++..  ..+|..........+ ...+.+++.+.                     ...++.|...+.+       +.
T Consensus       221 L~--iP~~~~~~~w~~Y~~fe~~~~-~~~a~~~~~e~---------------------~~~y~~Ar~~~~e~~~~~~~l~  276 (679)
T 4e6h_A          221 LC--QPMDCLESMWQRYTQWEQDVN-QLTARRHIGEL---------------------SAQYMNARSLYQDWLNITKGLK  276 (679)
T ss_dssp             TT--SCCSSHHHHHHHHHHHHHHHC-TTTHHHHHHHH---------------------HHHHHHHHHHHHHHHHHTTTCC
T ss_pred             Hh--CccHHHHHHHHHHHHHHHhcC-cchHHHHHHHh---------------------hHHHHHHHHHHHHHHHHHHhHh
Confidence            64  2211  122221111111111 11122221110                     0122223333322       11


Q ss_pred             C--------------C--C------hhhHHHHHHHHHHcC-------ChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc
Q 048281          298 E--------------K--D------IFSWNSIMTVHEQCG-------NHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSH  348 (660)
Q Consensus       298 ~--------------~--~------~~~~~~li~~~~~~g-------~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  348 (660)
                      +              |  +      ...|...+.---..+       ..+.+..+|++.... ++-+...|.....-+..
T Consensus       277 r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~  355 (679)
T 4e6h_A          277 RNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGE  355 (679)
T ss_dssp             CCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHH
T ss_pred             hccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHh
Confidence            0              0  0      123444444332222       123455677777765 23355566666666777


Q ss_pred             ccchHHHH-HHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-------------CC-----
Q 048281          349 LAALMHGR-QIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-------------KD-----  409 (660)
Q Consensus       349 ~~~~~~a~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------------~~-----  409 (660)
                      .|+.+.|. .+++..+...+. +        ..++...+...-+.|+++.|.++|+++..             |+     
T Consensus       356 ~~~~~~a~r~il~rAi~~~P~-s--------~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~  426 (679)
T 4e6h_A          356 KNTDSTVITKYLKLGQQCIPN-S--------AVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAI  426 (679)
T ss_dssp             HSCCTTHHHHHHHHHHHHCTT-C--------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             cCcHHHHHHHHHHHHHHhCCC-C--------HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhh
Confidence            78888886 999988875443 2        67788888889999999999999988753             21     


Q ss_pred             -------HhHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhc-cCCHHHHHHHHHHhHHhcCCCCC
Q 048281          410 -------VASWNIMILGYGMDGQGKEALDMFSCMCEA-KLKPDEVTFVGVLSACSH-SGFLSQGREFLPLMESRYGVVPT  480 (660)
Q Consensus       410 -------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~~~~~~  480 (660)
                             ...|...+....+.|+.+.|..+|.++.+. + .+....|...+..-.+ .++.+.|..+|+...+.  .+.+
T Consensus       427 ~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~--~p~~  503 (679)
T 4e6h_A          427 NQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKY--FATD  503 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--HTTC
T ss_pred             hhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCc
Confidence                   236888888888889999999999999886 2 2223344333322223 35699999999999985  4446


Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN-EA----NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      ...+...++.....|+.+.|..+|++... .|    ....|...+..-...|+.+.+.++.+++.+..|+++
T Consensus       504 ~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          504 GEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc
Confidence            66778899999999999999999999665 23    346899999999999999999999999999999875

>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=2.2e-12  Score=131.89  Aligned_cols=170  Identities=11%  Similarity=0.002  Sum_probs=127.4

Q ss_pred             HHHHHHHHhcCCC-----C----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCC
Q 048281          395 MRDAQMVFTKMSK-----K----DVASWNIMILGYGMDGQGKEALDMFSCMCEAKL-KPD----EVTFVGVLSACSHSGF  460 (660)
Q Consensus       395 ~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~  460 (660)
                      +++|.+.+++...     .    ...+|..+...|...|++++|+..+++..+... .++    ..++..+...+...|+
T Consensus       163 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  242 (406)
T 3sf4_A          163 LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  242 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            6666666654431     1    234788889999999999999999999875311 122    2367778888999999


Q ss_pred             HHHHHHHHHHhHHhcCCCCC----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCC----HHHHHHHHHHHHHcCC
Q 048281          461 LSQGREFLPLMESRYGVVPT----IEHYTCVIDMLGRAGQLNEAYELALAMPN----EAN----PVVWRTLLAASRLHGN  528 (660)
Q Consensus       461 ~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~~l~~~~~~~g~  528 (660)
                      +++|...++++.+...-.++    ..++..+...|...|++++|.+.+++...    .++    ..++..+...|...|+
T Consensus       243 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          243 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999998752111112    46788899999999999999999987543    122    4578889999999999


Q ss_pred             hHHHHHHHHHHHhcCC------CCcchHHHHHHHHHhCCChH
Q 048281          529 TDLAEIAAQRVFQLEP------GHCGNYVLMSNIYVAGGKYE  564 (660)
Q Consensus       529 ~~~A~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~  564 (660)
                      +++|...+++++++.+      ....++..++.++...|+..
T Consensus       323 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          323 HDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            9999999999988732      23456778888888887654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.42  E-value=5.9e-12  Score=112.88  Aligned_cols=166  Identities=12%  Similarity=-0.005  Sum_probs=146.8

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      +.+|..+...|.+.|++++|.+.|++..   ..+..+|..+..+|.+.|++++|+..+.+..... +.+...+..+...+
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~   83 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSAN   83 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHH
Confidence            7899999999999999999999999876   3477899999999999999999999999998863 34556677777888


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAE  533 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~  533 (660)
                      ...++++.|...+..+.+  ..+.+...+..+..+|.+.|++++|++.|++...  +.+..+|..+..+|...|++++|+
T Consensus        84 ~~~~~~~~a~~~~~~a~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           84 FMIDEKQAAIDALQRAIA--LNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999987  3455678899999999999999999999998654  557789999999999999999999


Q ss_pred             HHHHHHHhcCCCCc
Q 048281          534 IAAQRVFQLEPGHC  547 (660)
Q Consensus       534 ~~~~~~~~~~p~~~  547 (660)
                      ..|+++++++|+++
T Consensus       162 ~~~~~al~~~p~~a  175 (184)
T 3vtx_A          162 KYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHTTHHHH
T ss_pred             HHHHHHHhCCccCH
Confidence            99999999999764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.41  E-value=5.9e-12  Score=120.97  Aligned_cols=237  Identities=8%  Similarity=-0.112  Sum_probs=163.5

Q ss_pred             CCCHHHHHHHHHhcCCC-------ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHH
Q 048281          283 GKCVGEALEIFEMMEEK-------DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHG  355 (660)
Q Consensus       283 ~~~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  355 (660)
                      .|++++|+..|+++.+.       +..+|..+...+...|++++|+..|++..+.. +.+...+..+...+...|+++.|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            45666666666665542       33456677777777777777777777777653 23456677777777777888888


Q ss_pred             HHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCCHhHHHHHHHHHHhcCChHHHHHHH
Q 048281          356 RQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS--KKDVASWNIMILGYGMDGQGKEALDMF  433 (660)
Q Consensus       356 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~  433 (660)
                      ...++.++......         ..++..+...|.+.|++++|...|+++.  .|+...+...+..+...|++++|+..+
T Consensus        97 ~~~~~~al~~~~~~---------~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  167 (275)
T 1xnf_A           97 YEAFDSVLELDPTY---------NYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVL  167 (275)
T ss_dssp             HHHHHHHHHHCTTC---------THHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHhcCccc---------cHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHH
Confidence            88877777765433         6777888888888888888888888775  333333334444556678999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-----hHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 048281          434 SCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-----IEHYTCVIDMLGRAGQLNEAYELALAMP  508 (660)
Q Consensus       434 ~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~  508 (660)
                      ++..... +++...+. ++..+...++.++|...+..+.+   ..|+     ...+..+...|.+.|++++|...++++.
T Consensus       168 ~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  242 (275)
T 1xnf_A          168 KQHFEKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADAT---DNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAV  242 (275)
T ss_dssp             HHHHHHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCC---SHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhc---ccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8887753 34444443 66677777888899988888754   2222     5778889999999999999999998865


Q ss_pred             C-CCCHHHHHHHHHHHHHcCChHHHHHHH
Q 048281          509 N-EANPVVWRTLLAASRLHGNTDLAEIAA  536 (660)
Q Consensus       509 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  536 (660)
                      . .|+.  +.....++...|++++|++.+
T Consensus       243 ~~~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          243 ANNVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TTCCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             hCCchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            4 3322  344466777788888887776

>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=99.37  E-value=4e-09  Score=112.70  Aligned_cols=419  Identities=8%  Similarity=-0.043  Sum_probs=201.2

Q ss_pred             CCCchhhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCC---hhHHHHHHccCC-C---CCCcc
Q 048281           28 HPFTLATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQ---MKYALFVFNNLS-C---EPNVF  100 (660)
Q Consensus        28 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~---~~~A~~~~~~~~-~---~~~~~  100 (660)
                      .|.+..+|..++..+...+.+..+..+|+.++.. .+.+...|...+..-.+.|+   ++.+..+|++.. .   .|++.
T Consensus        62 np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~  140 (679)
T 4e6h_A           62 QPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLS  140 (679)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHH
T ss_pred             CcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHH
Confidence            3556667777777777777777777777777766 34455667777777667676   777777777521 1   26666


Q ss_pred             cHHHHHHHHHcCCCh--------hHHHHHHHHHHH-CCC-CCCc-ccHHHHHHHHh---------hhCCHHHHHHHHHHH
Q 048281          101 TYNAMISGFYSNDFA--------FKGLDFFNHMRQ-LGV-LPDK-YTFPCLIKCCC---------DVMAVLEVKKIHGLV  160 (660)
Q Consensus       101 ~~~~li~~~~~~~~~--------~~a~~~~~~m~~-~~~-~p~~-~t~~~ll~~~~---------~~~~~~~a~~~~~~~  160 (660)
                      .|...+.-..+.++.        +...++|+.... .|. .|+. ..|...+....         ..++++.+..+|+.+
T Consensus       141 LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~ra  220 (679)
T 4e6h_A          141 LWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTL  220 (679)
T ss_dssp             HHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHH
Confidence            676666554443332        223356655443 344 4433 34544444332         233456666777666


Q ss_pred             HHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHH--CCCC------
Q 048281          161 FKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSK--EGIW------  232 (660)
Q Consensus       161 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~--~~~~------  232 (660)
                      +......-..+|......--..+.. .+.+++.+                 ....++.|...+.++..  .++.      
T Consensus       221 L~iP~~~~~~~w~~Y~~fe~~~~~~-~a~~~~~e-----------------~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~  282 (679)
T 4e6h_A          221 LCQPMDCLESMWQRYTQWEQDVNQL-TARRHIGE-----------------LSAQYMNARSLYQDWLNITKGLKRNLPIT  282 (679)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHHHCTT-THHHHHHH-----------------HHHHHHHHHHHHHHHHHHTTTCCCCCCSS
T ss_pred             HhCccHHHHHHHHHHHHHHHhcCcc-hHHHHHHH-----------------hhHHHHHHHHHHHHHHHHHHhHhhccccc
Confidence            6421111112222111110000000 00000000                 00111222222222111  0000      


Q ss_pred             ---------C-----Ch---hhHHHHHHHHHccC-------CchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHH
Q 048281          233 ---------M-----SR---FTVTGVLSALIMMG-------FFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGE  288 (660)
Q Consensus       233 ---------p-----~~---~t~~~ll~~~~~~~-------~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~  288 (660)
                               |     +.   ..|...+.---..+       ..+.+..+|+.++..- +-...+|-..+..+.+.|+.++
T Consensus       283 ~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~  361 (679)
T 4e6h_A          283 LNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDST  361 (679)
T ss_dssp             STTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTT
T ss_pred             cccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHH
Confidence                     0     00   11222222111111       0112233444444432 2244455555555555555555


Q ss_pred             HH-HHHHhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCC---------CCC------------HHHHHHHH
Q 048281          289 AL-EIFEMMEE--K-DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGF---------QPD------------LVTFSTVL  343 (660)
Q Consensus       289 A~-~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~---------~p~------------~~t~~~ll  343 (660)
                      |. ++|+....  | +...|-..+...-+.|++++|.++|+.+.+...         .|+            ...|...+
T Consensus       362 a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~  441 (679)
T 4e6h_A          362 VITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYM  441 (679)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHH
Confidence            54 55554432  1 333344455555555566666666655554210         121            12455555


Q ss_pred             HHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcC-CHHHHHHHHhcCC---CCCHhHHHHHHHH
Q 048281          344 PACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCG-SMRDAQMVFTKMS---KKDVASWNIMILG  419 (660)
Q Consensus       344 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~  419 (660)
                      ....+.|+.+.|+.++..+.+......        ..+|...+..-.+.+ +.+.|.++|+...   ..+...|...+..
T Consensus       442 ~~erR~~~l~~AR~vf~~A~~~~~~~~--------~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~f  513 (679)
T 4e6h_A          442 NTMKRIQGLAASRKIFGKCRRLKKLVT--------PDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDF  513 (679)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHTGGGSC--------THHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhcCCCC--------hHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHH
Confidence            555566677777777777766511111        333433333333433 3677777777655   2355566666666


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKP--DEVTFVGVLSACSHSGFLSQGREFLPLMESR  474 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  474 (660)
                      ....|+.+.|..+|++.+.....+  ....|...+.--.+.|+.+.+..+.+.+.+.
T Consensus       514 e~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~  570 (679)
T 4e6h_A          514 LIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK  570 (679)
T ss_dssp             HHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            666677777777777776653211  2245666666666667777777777777663

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.37  E-value=6.9e-12  Score=128.48  Aligned_cols=205  Identities=10%  Similarity=-0.029  Sum_probs=145.3

Q ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCC-----------------HHHHHH
Q 048281          338 TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGS-----------------MRDAQM  400 (660)
Q Consensus       338 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-----------------~~~A~~  400 (660)
                      .+..+...+...|+++.|...+..+........   .......++..+...|...|+                 +++|.+
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~  204 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLG---DRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVE  204 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT---CHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhh---chHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHH
Confidence            344444445555555555555554443311000   000015577888888999999                 888888


Q ss_pred             HHhcCCC-----C----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCCHHHHHH
Q 048281          401 VFTKMSK-----K----DVASWNIMILGYGMDGQGKEALDMFSCMCEAKL-KPD----EVTFVGVLSACSHSGFLSQGRE  466 (660)
Q Consensus       401 ~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~~~~a~~  466 (660)
                      .+++..+     .    ...+|..+...|...|++++|+..+++..+... .++    ..++..+...+...|++++|..
T Consensus       205 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  284 (411)
T 4a1s_A          205 FYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAE  284 (411)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHH
Confidence            8876542     1    234788889999999999999999999876421 112    2367788889999999999999


Q ss_pred             HHHHhHHhcCCCC----ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCC----HHHHHHHHHHHHHcCChHHHHH
Q 048281          467 FLPLMESRYGVVP----TIEHYTCVIDMLGRAGQLNEAYELALAMPN----EAN----PVVWRTLLAASRLHGNTDLAEI  534 (660)
Q Consensus       467 ~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~~l~~~~~~~g~~~~A~~  534 (660)
                      .++++.+...-..    ...++..+..+|...|++++|...+++...    .++    ..++..+..+|...|++++|..
T Consensus       285 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  364 (411)
T 4a1s_A          285 HYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALK  364 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHH
Confidence            9998876321111    146788899999999999999999987643    112    3478888999999999999999


Q ss_pred             HHHHHHhcCCC
Q 048281          535 AAQRVFQLEPG  545 (660)
Q Consensus       535 ~~~~~~~~~p~  545 (660)
                      .+++++++.+.
T Consensus       365 ~~~~al~~~~~  375 (411)
T 4a1s_A          365 YAEQHLQLAXX  375 (411)
T ss_dssp             HHHHHHHHCCH
T ss_pred             HHHHHHHHHhh
Confidence            99999998653

>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=99.36  E-value=1.3e-11  Score=133.63  Aligned_cols=162  Identities=13%  Similarity=0.066  Sum_probs=130.3

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVI  488 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  488 (660)
                      ..+|+.|...|.+.|++++|+..|++.++.  .| +...+..+..++.+.|++++|++.|+++++.  -+-+...|..+.
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg   84 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            456777777888888888888888888774  44 3567777778888888888888888888762  233467788888


Q ss_pred             HHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHH
Q 048281          489 DMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  566 (660)
                      .+|.+.|++++|++.|++...  +.+...|..+..+|...|++++|+..|+++++++|+++..+..++.+|...|+|++|
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHH
Confidence            888888888888888887543  456778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 048281          567 LDIRHTMRQ  575 (660)
Q Consensus       567 ~~~~~~~~~  575 (660)
                      .+.++++.+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888887643

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.35  E-value=1.6e-10  Score=117.12  Aligned_cols=164  Identities=11%  Similarity=0.031  Sum_probs=102.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CCC
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK-----KD----VASWNIMILGYGMDGQGKEALDMFSCMCEA----KL-KPD  444 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~p~  444 (660)
                      ..+++.+...|...|++++|...|++..+     ++    ..++..+..+|...|++++|+..+++..+.    +. +..
T Consensus       184 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~  263 (383)
T 3ulq_A          184 LQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSL  263 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhH
Confidence            34566677777777777777777765541     11    136677777788888888888888777762    22 223


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCCChHHHHHHHHHHhhcCC---HHHHHHHHHhCCCCCC-HHHHH
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRY---GVVPTIEHYTCVIDMLGRAGQ---LNEAYELALAMPNEAN-PVVWR  517 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~  517 (660)
                      ..++..+...+...|++++|...+++..+..   +.+.....+..+...|...|+   +++|..++++....++ ...+.
T Consensus       264 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~  343 (383)
T 3ulq_A          264 PQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAI  343 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            4566667777777888888888777766521   111112334556666777777   6677777766643222 23455


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          518 TLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       518 ~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      .+...|...|++++|...+++++++
T Consensus       344 ~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          344 DVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            5666666666666666666666654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.34  E-value=2.4e-11  Score=120.37  Aligned_cols=151  Identities=11%  Similarity=-0.011  Sum_probs=111.9

Q ss_pred             HHHHHHHHhcCCC-----C----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCC
Q 048281          395 MRDAQMVFTKMSK-----K----DVASWNIMILGYGMDGQGKEALDMFSCMCEAKL-KPD----EVTFVGVLSACSHSGF  460 (660)
Q Consensus       395 ~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~  460 (660)
                      +++|.+.+++...     +    ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|+
T Consensus       159 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  238 (338)
T 3ro2_A          159 LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  238 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC
Confidence            6666666654421     1    234778888999999999999999999875311 111    2367778888999999


Q ss_pred             HHHHHHHHHHhHHhcCCCCC----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCC----HHHHHHHHHHHHHcCC
Q 048281          461 LSQGREFLPLMESRYGVVPT----IEHYTCVIDMLGRAGQLNEAYELALAMPN----EAN----PVVWRTLLAASRLHGN  528 (660)
Q Consensus       461 ~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~~l~~~~~~~g~  528 (660)
                      +++|...+++..+...-.++    ..++..+...|...|++++|...+++...    .++    ..++..+...|...|+
T Consensus       239 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (338)
T 3ro2_A          239 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGN  318 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999988753111112    46788899999999999999999987643    112    3477889999999999


Q ss_pred             hHHHHHHHHHHHhcCCC
Q 048281          529 TDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       529 ~~~A~~~~~~~~~~~p~  545 (660)
                      +++|...+++++++.+.
T Consensus       319 ~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          319 HDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHHHC---
T ss_pred             hHHHHHHHHHHHHHHHh
Confidence            99999999999998654

>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=1.9e-10  Score=112.48  Aligned_cols=218  Identities=11%  Similarity=0.008  Sum_probs=165.6

Q ss_pred             HHHHHHHHHHhhcCCCCCHHHHHHHHHHHh-------cccch-------HHHHHHHHHHHHh-CccCCCCCCCCcchhHH
Q 048281          318 DGTLRLFDRMLSAGFQPDLVTFSTVLPACS-------HLAAL-------MHGRQIHGYIVVN-GLAKNGSCKDIDDVFMN  382 (660)
Q Consensus       318 ~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~-------~~~~~-------~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~  382 (660)
                      ++|..+|++..... +-+...|......+.       ..|++       ++|..+++..+.. .+..         ..+|
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~---------~~~~  102 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKN---------MLLY  102 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTC---------HHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCccc---------HHHH
Confidence            56777777777641 223345555554443       34665       8888888888873 4332         7789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCC--C-CHh-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-hc
Q 048281          383 NALMDMYTKCGSMRDAQMVFTKMSK--K-DVA-SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC-SH  457 (660)
Q Consensus       383 ~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~-~~  457 (660)
                      ..++..+.+.|++++|..+|++..+  | +.. .|..++..+.+.|++++|..+|++..+.. +++...|....... ..
T Consensus       103 ~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~  181 (308)
T 2ond_A          103 FAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYC  181 (308)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHH
Confidence            9999999999999999999998763  3 344 89999999999999999999999999864 33444554433332 23


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CC--CHHHHHHHHHHHHHcCChHH
Q 048281          458 SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN----EA--NPVVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~--~~~~~~~l~~~~~~~g~~~~  531 (660)
                      .|+.++|..+|+.+.+.  .+.+...|..++..+.+.|++++|..+|++...    +|  ....|..++......|+.+.
T Consensus       182 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~  259 (308)
T 2ond_A          182 SKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLAS  259 (308)
T ss_dssp             SCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            69999999999999874  334678889999999999999999999988644    33  45689999999999999999


Q ss_pred             HHHHHHHHHhcCCCCcc
Q 048281          532 AEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~~  548 (660)
                      |..+++++++..|+++.
T Consensus       260 a~~~~~~a~~~~p~~~~  276 (308)
T 2ond_A          260 ILKVEKRRFTAFREEYE  276 (308)
T ss_dssp             HHHHHHHHHHHTTTTTS
T ss_pred             HHHHHHHHHHHcccccc
Confidence            99999999999998654

>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=99.34  E-value=3.5e-11  Score=107.66  Aligned_cols=162  Identities=14%  Similarity=-0.002  Sum_probs=92.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ...+..+...+...|++++|...|+++.+   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34455555666666666666666665542   234455555555555555555555555555431 22333444444444


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIA  535 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  535 (660)
                      ...|++++|.+.++.+.+.  .                                +.+...+..+...+...|++++|...
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~--------------------------------~~~~~~~~~~a~~~~~~~~~~~A~~~  132 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--N--------------------------------PINFNVRFRLGVALDNLGRFDEAIDS  132 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--C--------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--C--------------------------------cHhHHHHHHHHHHHHHcCcHHHHHHH
Confidence            4444444444444444431  1                                23455666666666667777777777


Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          536 AQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       536 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ++++++..|+++..+..++.++...|++++|.+.++++.+
T Consensus       133 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          133 FKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7777777776666777777777777777777777776654

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.32  E-value=4e-11  Score=111.63  Aligned_cols=187  Identities=11%  Similarity=-0.049  Sum_probs=98.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---C-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---K-KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLS  453 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~  453 (660)
                      +..+......|.+.|++++|...|++..   . ++...+..+..++...|++++|+..|++..+.  .| +...+..+..
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~   84 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKSA   84 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHHH
Confidence            4555556666666666666666666543   2 44455555556666666666666666666553  23 2344555555


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCCh-------HHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC---HHHHHHHHHH
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVVPTI-------EHYTCVIDMLGRAGQLNEAYELALAMPN-EAN---PVVWRTLLAA  522 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~---~~~~~~l~~~  522 (660)
                      ++...|++++|...++++.+.  .+.+.       ..|..+...+...|++++|.+.|++... .|+   ...|..+..+
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            566666666666666666542  12222       3355555555555666666665555433 222   3344445544


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |...     +...++++..+.+.++..|..  ......+.+++|...+++..+.
T Consensus       163 ~~~~-----~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          163 FYNN-----GADVLRKATPLASSNKEKYAS--EKAKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHH-----HHHHHHHHGGGTTTCHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHH-----HHHHHHHHHhcccCCHHHHHH--HHHHHHHHHHHHHHHHHHHhhc
Confidence            4332     233344444444443333222  2223344458898888888764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.32  E-value=1.3e-10  Score=113.63  Aligned_cols=212  Identities=7%  Similarity=-0.012  Sum_probs=172.6

Q ss_pred             HHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHh-------cCCH-------HHHHHHHhcCCC---C-CHhHHH
Q 048281          353 MHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTK-------CGSM-------RDAQMVFTKMSK---K-DVASWN  414 (660)
Q Consensus       353 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~-------~~A~~~~~~~~~---~-~~~~~~  414 (660)
                      +.|..+++.++...+..         +.+|..++..+..       .|++       ++|..+|++..+   | +...|.
T Consensus        33 ~~a~~~~~~al~~~p~~---------~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~  103 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHH---------PDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYF  103 (308)
T ss_dssp             HHHHHHHHHHHHHHTTC---------HHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCCC---------HHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHH
Confidence            56777888887765444         7788888887763       5886       899999998653   3 567899


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-H-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHh
Q 048281          415 IMILGYGMDGQGKEALDMFSCMCEAKLKPDE-V-TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLG  492 (660)
Q Consensus       415 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  492 (660)
                      .++..+.+.|++++|..+|+++++.  .|+. . .|..+...+.+.|++++|..+|+.+.+.  .+++...|...+....
T Consensus       104 ~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~  179 (308)
T 2ond_A          104 AYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEY  179 (308)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHH
Confidence            9999999999999999999999984  5653 3 7888899999999999999999999872  3345566655544432


Q ss_pred             -hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CCC-CcchHHHHHHHHHhCCChHH
Q 048281          493 -RAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL---EPG-HCGNYVLMSNIYVAGGKYEE  565 (660)
Q Consensus       493 -~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~  565 (660)
                       ..|+.++|..+|++...  +.+...|..++..+...|+.++|..+|+++++.   .|+ ....|..++..+.+.|++++
T Consensus       180 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~  259 (308)
T 2ond_A          180 YCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLAS  259 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence             37999999999998754  457889999999999999999999999999995   443 56688889999999999999


Q ss_pred             HHHHHHHHHhCC
Q 048281          566 VLDIRHTMRQQN  577 (660)
Q Consensus       566 a~~~~~~~~~~~  577 (660)
                      |..+++++.+..
T Consensus       260 a~~~~~~a~~~~  271 (308)
T 2ond_A          260 ILKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHc
Confidence            999999997754

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.31  E-value=2.2e-11  Score=123.38  Aligned_cols=228  Identities=6%  Similarity=-0.054  Sum_probs=168.3

Q ss_pred             HHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----C-----CHhHH
Q 048281          344 PACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-----K-----DVASW  413 (660)
Q Consensus       344 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~-----~~~~~  413 (660)
                      ..+...|+++.|...+......-....   .+.....++..+...|...|+++.|...+++..+     +     ...++
T Consensus       111 ~~~~~~g~~~~A~~~~~~al~~~~~~~---~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  187 (383)
T 3ulq_A          111 MYELDQREYLSAIKFFKKAESKLIFVK---DRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCH  187 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCC---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCC---CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHH
Confidence            345566777777777776655411110   0000157888999999999999999988887641     1     13578


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---CC-CCChHHH
Q 048281          414 NIMILGYGMDGQGKEALDMFSCMCEAKLK-PD----EVTFVGVLSACSHSGFLSQGREFLPLMESRY---GV-VPTIEHY  484 (660)
Q Consensus       414 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~-~~~~~~~  484 (660)
                      +.+...|...|++++|+..+++..+.... ++    ..++..+...+...|++++|...+++..+-.   +. +....++
T Consensus       188 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  267 (383)
T 3ulq_A          188 SLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAY  267 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHH
Confidence            88999999999999999999998864111 12    2477788889999999999999999987611   23 3345778


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCCC----CCCH---HHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCCCcchHHHHH
Q 048281          485 TCVIDMLGRAGQLNEAYELALAMPN----EANP---VVWRTLLAASRLHGN---TDLAEIAAQRVFQLEPGHCGNYVLMS  554 (660)
Q Consensus       485 ~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~---~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~  554 (660)
                      ..+..+|.+.|++++|...+++...    .+++   ..+..+...+...|+   .++|+..+++. ...|.....+..++
T Consensus       268 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la  346 (383)
T 3ulq_A          268 FLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHH
Confidence            9999999999999999999987543    1122   235667778888888   77777777775 33444456788999


Q ss_pred             HHHHhCCChHHHHHHHHHHHh
Q 048281          555 NIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       555 ~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .+|...|++++|...+++..+
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998854

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.30  E-value=6.7e-12  Score=122.97  Aligned_cols=197  Identities=15%  Similarity=0.100  Sum_probs=142.8

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-------C----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHc------CC
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK-------K----DVASWNIMILGYGMDGQGKEALDMFSCMCEA------KL  441 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~  441 (660)
                      ..++..+...|...|++++|...|++...       +    ...+|..+...|...|++++|+..++++.+.      +-
T Consensus        69 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  148 (311)
T 3nf1_A           69 ATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKD  148 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCC
Confidence            56778899999999999999999987652       1    3457888999999999999999999998864      22


Q ss_pred             CC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc-----C-CCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-----
Q 048281          442 KP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRY-----G-VVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-----  509 (660)
Q Consensus       442 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----  509 (660)
                      .| ....+..+...+...|++++|.++++.+.+..     + .+.....+..+..+|...|++++|.+.++++..     
T Consensus       149 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  228 (311)
T 3nf1_A          149 HPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHER  228 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            23 33567778888999999999999999987631     1 222346788899999999999999999987642     


Q ss_pred             -----CC-------CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          510 -----EA-------NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       510 -----~~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                           .+       ....+..+...+...+.+.++...++++....|..+.++..++.+|.+.|++++|.+++++..+
T Consensus       229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          229 EFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                 01       1122333334455666777888888888888888889999999999999999999999998865

>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=99.29  E-value=1.6e-10  Score=103.21  Aligned_cols=136  Identities=15%  Similarity=0.079  Sum_probs=105.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048281          378 DVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA  454 (660)
Q Consensus       378 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  454 (660)
                      +..++..+...|...|++++|...++++.   ..+...|..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus        41 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~  119 (186)
T 3as5_A           41 DVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVA  119 (186)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHH
Confidence            47788999999999999999999999875   3467889999999999999999999999999863 4456677777777


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEI  534 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  534 (660)
                      +...|++++|..+++.+.+.  .                                +.+...+..+...+...|++++|..
T Consensus       120 ~~~~~~~~~A~~~~~~~~~~--~--------------------------------~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A          120 LDNLGRFDEAIDSFKIALGL--R--------------------------------PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--C--------------------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHHhc--C--------------------------------ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            88888888888888877652  1                                1234455666666666777777777


Q ss_pred             HHHHHHhcCCCCcc
Q 048281          535 AAQRVFQLEPGHCG  548 (660)
Q Consensus       535 ~~~~~~~~~p~~~~  548 (660)
                      .++++++..|+++.
T Consensus       166 ~~~~~~~~~~~~~~  179 (186)
T 3as5_A          166 HFKKANELDEGASV  179 (186)
T ss_dssp             HHHHHHHHHHCCCG
T ss_pred             HHHHHHHcCCCchh
Confidence            77777776666543

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.27  E-value=1.9e-10  Score=106.96  Aligned_cols=153  Identities=9%  Similarity=-0.023  Sum_probs=120.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHH
Q 048281          409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVI  488 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  488 (660)
                      |+..|......+...|++++|+..|++..+....++...+..+..++...|++++|+..++.+.+  ..+.+...+..+.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~   83 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK--KNYNLANAYIGKS   83 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH--hCcchHHHHHHHH
Confidence            55677778888888888888888888888865336777777777788888888888888888876  2333567788888


Q ss_pred             HHHhhcCCHHHHHHHHHhCCC--CCCH-------HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--CcchHHHHHHHH
Q 048281          489 DMLGRAGQLNEAYELALAMPN--EANP-------VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG--HCGNYVLMSNIY  557 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~--~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~  557 (660)
                      .+|...|++++|...+++...  +.+.       ..|..+...+...|++++|+..++++++++|+  ++..+..++.+|
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            888888888888888887543  3344       45777778888888888888888888888888  788888888888


Q ss_pred             HhCCCh
Q 048281          558 VAGGKY  563 (660)
Q Consensus       558 ~~~g~~  563 (660)
                      ...|+.
T Consensus       164 ~~~~~~  169 (228)
T 4i17_A          164 YNNGAD  169 (228)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.27  E-value=1.1e-10  Score=121.55  Aligned_cols=178  Identities=8%  Similarity=-0.047  Sum_probs=156.5

Q ss_pred             HHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048281          395 MRDAQMVFTKMS---KKDVASWNIMILGYGMDGQG-KEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPL  470 (660)
Q Consensus       395 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  470 (660)
                      ++++...++...   ..+...|..+...|...|++ ++|+..|++..+.. +-+...|..+..++...|++++|.+.|+.
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            455556665443   34678899999999999999 99999999999863 33577899999999999999999999999


Q ss_pred             hHHhcCCCCChHHHHHHHHHHhhc---------CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc--------CChHH
Q 048281          471 MESRYGVVPTIEHYTCVIDMLGRA---------GQLNEAYELALAMPN--EANPVVWRTLLAASRLH--------GNTDL  531 (660)
Q Consensus       471 ~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~--------g~~~~  531 (660)
                      +.+   ..|+...+..+..+|...         |++++|.+.+++...  +.+...|..+..+|...        |++++
T Consensus       163 al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            975   457788999999999999         999999999998654  45688999999999999        99999


Q ss_pred             HHHHHHHHHhcCC---CCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          532 AEIAAQRVFQLEP---GHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       532 A~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |+..|+++++++|   +++..|..++.+|...|++++|.+.+++..+.
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l  287 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL  287 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999   99999999999999999999999999998774

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.26  E-value=4.5e-09  Score=105.90  Aligned_cols=266  Identities=14%  Similarity=0.018  Sum_probs=178.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHhhcCCCCCHH----HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHH
Q 048281          308 MTVHEQCGNHDGTLRLFDRMLSAGFQPDLV----TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNN  383 (660)
Q Consensus       308 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  383 (660)
                      ...+...|++++|...+++........+..    .+..+...+...|+++.|...+............   ......++.
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~---~~~~~~~~~   97 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDV---WHYALWSLI   97 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC---HHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCc---HHHHHHHHH
Confidence            334455666666666666655543111211    2334444555667777777776666543222110   000023456


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC----------C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--C--CHHHH
Q 048281          384 ALMDMYTKCGSMRDAQMVFTKMSK----------K-DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLK--P--DEVTF  448 (660)
Q Consensus       384 ~li~~~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~~~  448 (660)
                      .+...+...|++++|...+++...          + ....+..+...+...|++++|...+++.......  +  ...++
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            778888999999999988887541          1 1245667888899999999999999998864321  1  23467


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHH-----HHHHHHhhcCCHHHHHHHHHhCCCC-CC-----HHHHH
Q 048281          449 VGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYT-----CVIDMLGRAGQLNEAYELALAMPNE-AN-----PVVWR  517 (660)
Q Consensus       449 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~-~~-----~~~~~  517 (660)
                      ..+...+...|++++|...+++......-......+.     ..+..+...|++++|...+++.... +.     ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            7777888999999999999999876312111111222     2345578999999999999987642 11     23567


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCC------cchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          518 TLLAASRLHGNTDLAEIAAQRVFQLEPGH------CGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       518 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+...+...|++++|...++++++..+..      ...+..++.++...|+.++|...+++....
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            78889999999999999999998763321      236777899999999999999999987553

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.26  E-value=1.7e-11  Score=120.10  Aligned_cols=242  Identities=13%  Similarity=0.057  Sum_probs=149.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHhhc-------CCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCC
Q 048281          303 SWNSIMTVHEQCGNHDGTLRLFDRMLSA-------GFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKD  375 (660)
Q Consensus       303 ~~~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  375 (660)
                      ++..+...+...|++++|..+|+++.+.       ........+..+...+...|+++.|...+..+........+ ...
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~  107 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG-KDH  107 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC-CCC
Confidence            3444555555555555555555554431       11112234455555556666666666666655543100000 000


Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-------C----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHc-----
Q 048281          376 IDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-------K----DVASWNIMILGYGMDGQGKEALDMFSCMCEA-----  439 (660)
Q Consensus       376 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----  439 (660)
                      +....++..+...|...|++++|...|++..+       +    ....+..+...+...|++++|+..++++.+.     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            01167788899999999999999999987652       1    2457888999999999999999999999874     


Q ss_pred             -CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc------CCCCC-------hHHHHHHHHHHhhcCCHHHHHHHH
Q 048281          440 -KLKPD-EVTFVGVLSACSHSGFLSQGREFLPLMESRY------GVVPT-------IEHYTCVIDMLGRAGQLNEAYELA  504 (660)
Q Consensus       440 -g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~  504 (660)
                       +-.|+ ..++..+...+...|++++|...++++.+..      ...+.       ...+..+...+...+.+.+|...+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  267 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWY  267 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Confidence             22332 3467778889999999999999999988621      11111       122233333444555566666666


Q ss_pred             HhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          505 LAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       505 ~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      +....  +....+|..+..+|...|++++|...+++++++.|.
T Consensus       268 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          268 KACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             hhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            66543  234568899999999999999999999999998764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.21  E-value=2.4e-09  Score=108.05  Aligned_cols=164  Identities=10%  Similarity=0.019  Sum_probs=106.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCCH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK-----KD----VASWNIMILGYGMDGQGKEALDMFSCMCEA----KLKPDE  445 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~  445 (660)
                      ..+++.+...|...|++++|.+.|++..+     ++    ..+++.+..+|...|++++|+..+++..+.    +-+...
T Consensus       182 ~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~  261 (378)
T 3q15_A          182 IQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLP  261 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHH
Confidence            45566777777777777777777765441     11    246677778888888888888888887761    212235


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCC---CCChHHHHHHHHHHhhcCC---HHHHHHHHHhCCCCCC-HHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGV---VPTIEHYTCVIDMLGRAGQ---LNEAYELALAMPNEAN-PVVWRT  518 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~  518 (660)
                      .++..+...+.+.|++++|...+++..+...-   +.....+..+...|...|+   +++|+..+++....++ ...+..
T Consensus       262 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~  341 (378)
T 3q15_A          262 KVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            56677777888888888888888887763211   1123445666666777777   7777777777543222 234556


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhc
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      +...|...|++++|...++++++.
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            666677777777777777766553

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.21  E-value=3.3e-10  Score=114.46  Aligned_cols=226  Identities=9%  Similarity=-0.029  Sum_probs=162.7

Q ss_pred             HhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----C-----CHhHHHH
Q 048281          346 CSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-----K-----DVASWNI  415 (660)
Q Consensus       346 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~-----~~~~~~~  415 (660)
                      +...|+++.|...+..+........   .+.....++..+...|...|+++.|...+++...     +     ...+++.
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~~~~~---~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          111 EFDQKEYVEAIGYYREAEKELPFVS---DDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCC---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHhhCC---ChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            4556677777777766654422111   0011156788889999999999998888876541     1     1357888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCCChHHHHHH
Q 048281          416 MILGYGMDGQGKEALDMFSCMCEA----KLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRY---GVVPTIEHYTCV  487 (660)
Q Consensus       416 li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~l  487 (660)
                      +...|...|++++|++.|++..+.    +-.+ ...++..+..++...|++++|...+++..+-.   +.+....++..+
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  267 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHH
Confidence            999999999999999999998763    1111 13467778889999999999999999987611   223336788899


Q ss_pred             HHHHhhcCCHHHHHHHHHhCCC------CCC-HHHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 048281          488 IDMLGRAGQLNEAYELALAMPN------EAN-PVVWRTLLAASRLHGN---TDLAEIAAQRVFQLEPGHCGNYVLMSNIY  557 (660)
Q Consensus       488 ~~~~~~~g~~~~A~~~~~~~~~------~~~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  557 (660)
                      ..+|.+.|++++|...+++...      .+. ...+..+...+...++   .++|+..+++. ...|.....+..++.+|
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y  346 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVF  346 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHH
Confidence            9999999999999999987532      122 3345566666777777   77777777762 22334456778899999


Q ss_pred             HhCCChHHHHHHHHHHHh
Q 048281          558 VAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       558 ~~~g~~~~a~~~~~~~~~  575 (660)
                      ...|++++|...+++..+
T Consensus       347 ~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          347 ESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            999999999999998754

>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=99.15  E-value=4e-10  Score=121.98  Aligned_cols=164  Identities=10%  Similarity=0.032  Sum_probs=145.5

Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHH
Q 048281          377 DDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVL  452 (660)
Q Consensus       377 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll  452 (660)
                      .+...++.|...|.+.|++++|++.|++..   ..+..+|+.+..+|.+.|++++|+..|++.++.  .| +...|..+.
T Consensus         7 ~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg   84 (723)
T 4gyw_A            7 THADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            347889999999999999999999999876   346789999999999999999999999999985  45 467899999


Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChH
Q 048281          453 SACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTD  530 (660)
Q Consensus       453 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~  530 (660)
                      .++...|++++|++.|+++++.  -+-+...|..+..+|...|++++|++.|++...  +.+...|..++.++...|+++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            9999999999999999999872  334578999999999999999999999998654  456789999999999999999


Q ss_pred             HHHHHHHHHHhcCC
Q 048281          531 LAEIAAQRVFQLEP  544 (660)
Q Consensus       531 ~A~~~~~~~~~~~p  544 (660)
                      +|.+.+++++++.|
T Consensus       163 ~A~~~~~kal~l~~  176 (723)
T 4gyw_A          163 DYDERMKKLVSIVA  176 (723)
T ss_dssp             THHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCh
Confidence            99999999988644

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.13  E-value=2.4e-09  Score=101.83  Aligned_cols=205  Identities=12%  Similarity=0.017  Sum_probs=131.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-C---HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC-HHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK--K-D---VASWNIMILGYGMDGQGKEALDMFSCMCEAKL-KPD-EVTFVG  450 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~~~~~  450 (660)
                      ...+..+...+.+.|++++|...|+++.+  | +   ...+..+..+|.+.|++++|+..|++..+... .|. ...+..
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            55556666667777777777777776652  2 2   44566666677777777777777777766421 111 234444


Q ss_pred             HHHHHhc--------cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 048281          451 VLSACSH--------SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAA  522 (660)
Q Consensus       451 ll~~~~~--------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~  522 (660)
                      +..++..        .|++++|...|+.+.+..  +.+......+.......+++               ...+..+...
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la~~  157 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKL---------------ARKQYEAARL  157 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHH---------------HHHHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHH---------------HHHHHHHHHH
Confidence            5555555        667777777777766531  11222222211111111000               1124677889


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCC---cchHHHHHHHHHhC----------CChHHHHHHHHHHHhCCCccCCcEEEEEE
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGH---CGNYVLMSNIYVAG----------GKYEEVLDIRHTMRQQNVRKNPGCSWIEL  589 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  589 (660)
                      |...|++++|+..|+++++..|++   +..+..++.+|...          |++++|...++++.+..            
T Consensus       158 ~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~------------  225 (261)
T 3qky_A          158 YERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF------------  225 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC------------
T ss_pred             HHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC------------
Confidence            999999999999999999999985   45788999999877          99999999999987742            


Q ss_pred             CCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHc
Q 048281          590 KDGLHTFISSDRSHPEAKSIYAELHSLTARLREH  623 (660)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~  623 (660)
                                 +.+|........+..+...+.+.
T Consensus       226 -----------p~~~~~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          226 -----------PDSPLLRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             -----------TTCTHHHHHHHHHHHHHHHHHHH
T ss_pred             -----------CCChHHHHHHHHHHHHHHHHHHh
Confidence                       24666677777777776666553

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.12  E-value=1.5e-09  Score=118.11  Aligned_cols=169  Identities=9%  Similarity=-0.090  Sum_probs=143.6

Q ss_pred             HhcCCHHHHHHHHhcCC-----------CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 048281          390 TKCGSMRDAQMVFTKMS-----------KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS  458 (660)
Q Consensus       390 ~~~g~~~~A~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  458 (660)
                      ...|++++|++.|++..           ..+...|..+...|.+.|++++|+..|+++.+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            77899999999998875           3466788999999999999999999999999853 33567888888899999


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHH
Q 048281          459 GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAA  536 (660)
Q Consensus       459 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~  536 (660)
                      |++++|...|+++.+.  .+.+...+..+..+|.+.|++++ .+.|++...  +.+...|..+..++...|++++|+..|
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999873  33456888999999999999999 999988653  456789999999999999999999999


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHhCCC
Q 048281          537 QRVFQLEPGHCGNYVLMSNIYVAGGK  562 (660)
Q Consensus       537 ~~~~~~~p~~~~~~~~l~~~~~~~g~  562 (660)
                      +++++++|+++.++..++.++...|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            99999999999999999999877666

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.08  E-value=7.1e-08  Score=97.02  Aligned_cols=262  Identities=11%  Similarity=-0.035  Sum_probs=150.0

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCChh----hHHHHHHHHHccCCchhHHHHHHHHHHhCCC-CC----chHHHHHHH
Q 048281          208 NGYAQIGEFHKALEVFRRMSKEGIWMSRF----TVTGVLSALIMMGFFKNGRVVHGIVVKMGYD-SG----VPVMNALID  278 (660)
Q Consensus       208 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~li~  278 (660)
                      ..+...|++++|...+++........+..    .+..+...+...|+++.|...+....+.... .+    ..++..+..
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            34445566666666666655533211111    2334444555566666666666655443211 11    123455667


Q ss_pred             HHHcCCCHHHHHHHHHhcCC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCC--C--CHHHHHHHH
Q 048281          279 MYGKGKCVGEALEIFEMMEE-------K----DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQ--P--DLVTFSTVL  343 (660)
Q Consensus       279 ~~~~~~~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~--p--~~~t~~~ll  343 (660)
                      .+...|++++|...+++..+       +    ....+..+...+...|++++|...+++..+....  +  ...++..+.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            77777888777777766532       1    1234566777788888888888888887654221  1  224566667


Q ss_pred             HHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHH--HHHHHHHHhcCCHHHHHHHHhcCCCCC-------HhHHH
Q 048281          344 PACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMN--NALMDMYTKCGSMRDAQMVFTKMSKKD-------VASWN  414 (660)
Q Consensus       344 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~  414 (660)
                      ..+...|+++.|...++...........    .......  ...+..+...|+.++|...+++...+.       ...+.
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~----~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENLLGNGKY----HSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCC----CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhccCc----chhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            7788889999999888887665322210    0001111  123345778888888888888776432       12455


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 048281          415 IMILGYGMDGQGKEALDMFSCMCEA----KLKPDE-VTFVGVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       415 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                      .+...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...++....
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6667777777777777777776542    111111 1333444455566666666666665543

>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=99.07  E-value=1.3e-09  Score=104.81  Aligned_cols=228  Identities=15%  Similarity=0.116  Sum_probs=145.0

Q ss_pred             hcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-------C----CHhHHHH
Q 048281          347 SHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-------K----DVASWNI  415 (660)
Q Consensus       347 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~  415 (660)
                      ...|+++.|...++..+..-....+. ..+....++..+...|...|++++|...|++...       +    ...+|..
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGH-DHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCS-SSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            45678888888888876653222110 1122356777888888888888888888876541       1    2346777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc-----C-CCCChH
Q 048281          416 MILGYGMDGQGKEALDMFSCMCEA------KLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRY-----G-VVPTIE  482 (660)
Q Consensus       416 li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~-~~~~~~  482 (660)
                      +...|...|++++|+..++++...      .-.| ...++..+...+...|++++|..+++++.+..     + .+....
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            888888888888888888887764      1112 24566777778888888888888888877620     1 122345


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC----------C-CCHHHHHHHHHHHHHcCCh------HHHHHHHHHHHhcCCC
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN----------E-ANPVVWRTLLAASRLHGNT------DLAEIAAQRVFQLEPG  545 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~~l~~~~~~~g~~------~~A~~~~~~~~~~~p~  545 (660)
                      ++..+..+|.+.|++++|...++++..          . .....|..+...+...+..      ..+...++......|.
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPT  250 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHH
Confidence            677788888888888888888876532          1 1222344333333333322      2222222222222344


Q ss_pred             CcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          546 HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       546 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .+..+..++.+|...|++++|..++++..+
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            556888999999999999999999998765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.05  E-value=2.4e-10  Score=98.21  Aligned_cols=141  Identities=8%  Similarity=-0.059  Sum_probs=101.9

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKLKPD-EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ  496 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  496 (660)
                      ..+...|++++|+..+++....  .|+ ...+..+...|.+.|++++|++.|+++++.  -+-+...|..+..+|.+.|+
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCc
Confidence            3444556677777777766542  232 234455666777777777777777777762  33456777888888888888


Q ss_pred             HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHH-HHHHHhcCCCCcchHHHHHHHHHhCCC
Q 048281          497 LNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIA-AQRVFQLEPGHCGNYVLMSNIYVAGGK  562 (660)
Q Consensus       497 ~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~p~~~~~~~~l~~~~~~~g~  562 (660)
                      +++|...|++...  +.++.+|..+...|...|++++|... ++++++++|+++.+|.....++...|+
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            8888888877543  44677889999999999998776654 589999999999999999999888875

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.03  E-value=3.8e-09  Score=88.46  Aligned_cols=123  Identities=18%  Similarity=0.212  Sum_probs=71.9

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCC
Q 048281          451 VLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGN  528 (660)
Q Consensus       451 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~  528 (660)
                      +...+...|++++|..+++.+.+.  .+.+...+..+...+...|++++|...++++..  +.+...|..+...+...|+
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   84 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGD   84 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcC
Confidence            333444444444444444444431  122334444445555555555555555544322  2344556666666777777


Q ss_pred             hHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          529 TDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       529 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      +++|...++++++..|.++..+..++.++...|++++|...++++.+
T Consensus        85 ~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           85 YDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            77777777777777777777777777777777777777777777654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.03  E-value=1.7e-08  Score=93.39  Aligned_cols=181  Identities=8%  Similarity=-0.079  Sum_probs=118.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH----HH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK--KD----VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEV----TF  448 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~~  448 (660)
                      ...+..+...+.+.|++++|...|+++..  |+    ...+..+..+|.+.|++++|+..|+++.+.  .|+..    .+
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~   81 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVM   81 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHH
Confidence            45566667778888888888888887652  32    246677778888888888888888888775  33321    33


Q ss_pred             HHHHHHHhc------------------cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCC
Q 048281          449 VGVLSACSH------------------SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNE  510 (660)
Q Consensus       449 ~~ll~~~~~------------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  510 (660)
                      ..+..++..                  .|+.++|...|+.+++.  .+-+...+.+......-.+..             
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~-------------  146 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRL-------------  146 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHH-------------
Confidence            333334432                  34556666666665542  111222221111100000000             


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc---chHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          511 ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC---GNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       511 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                        ......+...+...|++++|+..|+++++..|+++   ..+..++.+|.+.|++++|.+.++.+...+.
T Consensus       147 --~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          147 --AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             --HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence              01123466788999999999999999999999876   5788999999999999999999999987654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.01  E-value=2.7e-09  Score=103.25  Aligned_cols=194  Identities=9%  Similarity=-0.006  Sum_probs=140.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HHH
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSK-----KD----VASWNIMILGYGMDGQGKEALDMFSCMCEAKLK-PD----EVT  447 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~  447 (660)
                      |......|...|++++|...|.+...     .+    ..+|+.+..+|...|++++|+..+++..+.... .+    ..+
T Consensus        40 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~  119 (292)
T 1qqe_A           40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (292)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34445677889999999988886642     11    468899999999999999999999998863211 11    347


Q ss_pred             HHHHHHHHhcc-CCHHHHHHHHHHhHHhcCCCCC----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC---CH-----
Q 048281          448 FVGVLSACSHS-GFLSQGREFLPLMESRYGVVPT----IEHYTCVIDMLGRAGQLNEAYELALAMPN-EA---NP-----  513 (660)
Q Consensus       448 ~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~---~~-----  513 (660)
                      +..+...|... |++++|+..|++..+-..-..+    ..++..+...|.+.|++++|+..|++... .|   ..     
T Consensus       120 ~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  199 (292)
T 1qqe_A          120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (292)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHH
Confidence            78888899996 9999999999998863111111    35688899999999999999999988543 12   21     


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch-----HHHHHHHHH--hCCChHHHHHHHHHHHh
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN-----YVLMSNIYV--AGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~~~a~~~~~~~~~  575 (660)
                      ..|..+..++...|++++|+..++++++++|+....     +..++..+.  ..+++++|+..++++..
T Consensus       200 ~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            157788889999999999999999999999976543     344556664  45678888888766543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.01  E-value=5.1e-09  Score=99.54  Aligned_cols=166  Identities=10%  Similarity=-0.026  Sum_probs=117.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C----CHhHHHHHHHHHHh--------cCChHHHHHHHHHHHHcCCCCC
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK--K----DVASWNIMILGYGM--------DGQGKEALDMFSCMCEAKLKPD  444 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~----~~~~~~~li~~~~~--------~g~~~~A~~~~~~m~~~g~~p~  444 (660)
                      ...+..+..+|.+.|++++|...|++..+  |    ...++..+..++..        .|++++|+..|+++++.  .|+
T Consensus        52 ~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~  129 (261)
T 3qky_A           52 ADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPN  129 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcC
Confidence            56788899999999999999999998763  3    23467788888888        99999999999999986  454


Q ss_pred             HH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC----HHHHHH
Q 048281          445 EV-TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN----PVVWRT  518 (660)
Q Consensus       445 ~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~----~~~~~~  518 (660)
                      .. ....              ...+..+...     -...+..+...|.+.|++++|...|+++.. .|+    ...+..
T Consensus       130 ~~~~~~a--------------~~~~~~~~~~-----~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~  190 (261)
T 3qky_A          130 HELVDDA--------------TQKIRELRAK-----LARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVG  190 (261)
T ss_dssp             CTTHHHH--------------HHHHHHHHHH-----HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHH
T ss_pred             chhHHHH--------------HHHHHHHHHH-----HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHH
Confidence            32 2211              1111111110     112356678888899999999999887643 232    456777


Q ss_pred             HHHHHHHc----------CChHHHHHHHHHHHhcCCCCcc---hHHHHHHHHHhCCChHH
Q 048281          519 LLAASRLH----------GNTDLAEIAAQRVFQLEPGHCG---NYVLMSNIYVAGGKYEE  565 (660)
Q Consensus       519 l~~~~~~~----------g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~  565 (660)
                      +..+|...          |++++|+..++++++..|+++.   +...+..++.+.+++++
T Consensus       191 l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          191 AMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHHHHhhh
Confidence            88888766          8899999999999999999864   34445555555544443

>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=8.6e-09  Score=86.21  Aligned_cols=131  Identities=18%  Similarity=0.185  Sum_probs=105.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDML  491 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  491 (660)
                      .|..+...+...|++++|+.+++++.+.. +.+...+..+...+...|++++|..+++.+.+.  .+.+...+..+...+
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            56677788888888888888888888753 345667777778888888999999988888763  344567788888888


Q ss_pred             hhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          492 GRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       492 ~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      ...|++++|.+.++++..  +.+...+..++..+...|++++|...++++++..|+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            899999999988887643  346778888899999999999999999999988875

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.99  E-value=5.7e-09  Score=100.97  Aligned_cols=214  Identities=8%  Similarity=-0.082  Sum_probs=134.1

Q ss_pred             CHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHH
Q 048281          285 CVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVV  364 (660)
Q Consensus       285 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  364 (660)
                      ++++|...|++.           ...|...|++++|...|.+..+...               +.|+...+         
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~---------------~~~~~~~~---------   76 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQK---------------KAGNEDEA---------   76 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHH---------------HTTCHHHH---------
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHH---------------HhCCHHHH---------
Confidence            477887776653           6677788888888888877654210               00000000         


Q ss_pred             hCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----HhHHHHHHHHHHhc-CChHHHHHHHH
Q 048281          365 NGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-----KD----VASWNIMILGYGMD-GQGKEALDMFS  434 (660)
Q Consensus       365 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~-g~~~~A~~~~~  434 (660)
                                    ..+++.+..+|.+.|++++|...|++..+     .+    ..+|+.+...|... |++++|+..|+
T Consensus        77 --------------a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~  142 (292)
T 1qqe_A           77 --------------GNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYE  142 (292)
T ss_dssp             --------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             --------------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHH
Confidence                          33445555555555555555555554431     11    24677788888885 88888888888


Q ss_pred             HHHHcCCCC-C----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC-CCh-----HHHHHHHHHHhhcCCHHHHHHH
Q 048281          435 CMCEAKLKP-D----EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVV-PTI-----EHYTCVIDMLGRAGQLNEAYEL  503 (660)
Q Consensus       435 ~m~~~g~~p-~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~-----~~~~~l~~~~~~~g~~~~A~~~  503 (660)
                      +..+..... +    ..++..+...+...|++++|+..|+.+.+. ... +..     ..|..+..++...|++++|...
T Consensus       143 ~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  221 (292)
T 1qqe_A          143 LAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS-SMGNRLSQWSLKDYFLKKGLCQLAATDAVAAART  221 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-HhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            887631110 1    345777788888889999999999888763 222 221     1567778888888999999999


Q ss_pred             HHhCCC-CCCH------HHHHHHHHHHH--HcCChHHHHHHHHHHHhcCCCCcc
Q 048281          504 ALAMPN-EANP------VVWRTLLAASR--LHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       504 ~~~~~~-~~~~------~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                      +++... .|+.      ..+..++.++.  ..+++++|+..|+++.+++|....
T Consensus       222 ~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~  275 (292)
T 1qqe_A          222 LQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKIT  275 (292)
T ss_dssp             HHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHH
T ss_pred             HHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHH
Confidence            888654 2321      12344555554  345688888888887777775533

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.98  E-value=6.6e-08  Score=91.57  Aligned_cols=163  Identities=6%  Similarity=-0.051  Sum_probs=87.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-----ChH
Q 048281          409 DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVP-----TIE  482 (660)
Q Consensus       409 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~  482 (660)
                      +..++..+..++...|++++|++++.+.+..|..+ +...+..++..+.+.|+.+.|.+.++.|.+   ..|     +..
T Consensus        99 ~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~---~~~d~~~~~d~  175 (310)
T 3mv2_B           99 SPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN---AIEDTVSGDNE  175 (310)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCccccccchH
Confidence            33444455556666666666666666655443211 334445555566666666666666666644   233     233


Q ss_pred             HHHHHHHH--HhhcC--CHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc----------CCCCc
Q 048281          483 HYTCVIDM--LGRAG--QLNEAYELALAMPNE-ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL----------EPGHC  547 (660)
Q Consensus       483 ~~~~l~~~--~~~~g--~~~~A~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----------~p~~~  547 (660)
                      +...|+.+  ....|  +.++|..+|+++... |+..+-..++.++.+.|++++|+..++.+.+.          +|+++
T Consensus       176 ~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~  255 (310)
T 3mv2_B          176 MILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKP  255 (310)
T ss_dssp             HHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHH
T ss_pred             HHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCH
Confidence            34444433  22223  666666666665442 33222233333566666666666666665554          36666


Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          548 GNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       548 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .++..++.+....|+  +|.++++++.+.
T Consensus       256 ~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          256 TFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            666566555555665  666666666553

>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=98.98  E-value=4.5e-08  Score=89.52  Aligned_cols=172  Identities=9%  Similarity=-0.043  Sum_probs=144.4

Q ss_pred             HHHHHhcCC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC----CHHHHHHHHHHhH
Q 048281          398 AQMVFTKMS-KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSG----FLSQGREFLPLME  472 (660)
Q Consensus       398 A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g----~~~~a~~~~~~~~  472 (660)
                      |.+.|++.. ..+..++..+...|...+++++|+.+|++..+.|   +...+..+...|.. +    +.++|.++|+...
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            444454443 3577888899999999999999999999999876   56677777777777 6    8999999999997


Q ss_pred             HhcCCCCChHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHH----cCChHHHHHHHHHHH
Q 048281          473 SRYGVVPTIEHYTCVIDMLGR----AGQLNEAYELALAMPNEAN----PVVWRTLLAASRL----HGNTDLAEIAAQRVF  540 (660)
Q Consensus       473 ~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~----~g~~~~A~~~~~~~~  540 (660)
                      +. +   +...+..|..+|..    .+++++|.+.|++.....+    +..+..|...|..    .++.++|+..|+++.
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 EA-G---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HT-T---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HC-C---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            73 3   56788888889987    8999999999999776444    7899999999998    889999999999999


Q ss_pred             hcCCCCcchHHHHHHHHHhC-C-----ChHHHHHHHHHHHhCCC
Q 048281          541 QLEPGHCGNYVLMSNIYVAG-G-----KYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       541 ~~~p~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~~  578 (660)
                      ++ |+++..+..|+.+|... |     ++++|..++++..+.|.
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 67788999999999865 3     89999999999988764

>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=1e-08  Score=98.75  Aligned_cols=175  Identities=6%  Similarity=-0.081  Sum_probs=140.3

Q ss_pred             HHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc
Q 048281          396 RDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRY  475 (660)
Q Consensus       396 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  475 (660)
                      +.....+......+...+..+...+.+.|++++|+..|++..+.. +-+...+..+...+...|++++|...++.+..  
T Consensus       103 ~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~--  179 (287)
T 3qou_A          103 EAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPL--  179 (287)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG--
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCch--
Confidence            344444555444556677788888999999999999999999863 33556788888899999999999999999865  


Q ss_pred             CCCCChHHHHH-HHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--cchH
Q 048281          476 GVVPTIEHYTC-VIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH--CGNY  550 (660)
Q Consensus       476 ~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~  550 (660)
                       ..|+...... ....+.+.++.++|...+++...  +.+...+..+..++...|++++|+..++++++.+|++  +..+
T Consensus       180 -~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~  258 (287)
T 3qou_A          180 -QDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTR  258 (287)
T ss_dssp             -GGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHH
T ss_pred             -hhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHH
Confidence             3455443333 33336677888888888887543  5578899999999999999999999999999999988  7889


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHH
Q 048281          551 VLMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       551 ~~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      ..++.+|...|+.++|...+++..
T Consensus       259 ~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          259 XTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHH
Confidence            999999999999999999888754

>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=98.96  E-value=9.8e-10  Score=94.33  Aligned_cols=122  Identities=13%  Similarity=0.006  Sum_probs=102.2

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcC
Q 048281          451 VLSACSHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHG  527 (660)
Q Consensus       451 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g  527 (660)
                      |...+...|++++|+..+.....   ..| +...+..+..+|.+.|++++|.+.|++...  +.++.+|..+..+|...|
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            34456677899999999998754   333 345567889999999999999999998654  567889999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHH-HHHHHh
Q 048281          528 NTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDI-RHTMRQ  575 (660)
Q Consensus       528 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~  575 (660)
                      ++++|+..|+++++++|+++.++..++.+|.+.|++++|.+. +++..+
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            999999999999999999999999999999999999887765 577766

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.95  E-value=1.7e-08  Score=96.79  Aligned_cols=204  Identities=13%  Similarity=0.038  Sum_probs=131.6

Q ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-------C--
Q 048281          338 TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-------K--  408 (660)
Q Consensus       338 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~--  408 (660)
                      ++..+...+...|+++.|...+..+........+ ...+....++..+...|...|++++|...|++...       +  
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  123 (283)
T 3edt_B           45 MLNILALVYRDQNKYKEAAHLLNDALAIREKTLG-KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFH  123 (283)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCC
Confidence            4444445555555555555555555433100000 00001167888999999999999999999987652       1  


Q ss_pred             --CHhHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc----
Q 048281          409 --DVASWNIMILGYGMDGQGKEALDMFSCMCEA------KLKP-DEVTFVGVLSACSHSGFLSQGREFLPLMESRY----  475 (660)
Q Consensus       409 --~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----  475 (660)
                        ...+|..+...|...|++++|+..++++.+.      +-.| ...++..+...+...|++++|..+++++.+..    
T Consensus       124 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~  203 (283)
T 3edt_B          124 PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKE  203 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence              2457888999999999999999999999875      1123 34577788889999999999999999988621    


Q ss_pred             --CCCC-ChHHHHHHHHHHhhc------CCHHHHHHHHHhCCCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 048281          476 --GVVP-TIEHYTCVIDMLGRA------GQLNEAYELALAMPNE--ANPVVWRTLLAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       476 --~~~~-~~~~~~~l~~~~~~~------g~~~~A~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                        ...+ ....+..+...+...      ..+.++...++.....  ....++..+...|...|++++|...++++++.
T Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          204 FGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             SSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence              1122 223444444444332      2345555555555432  23457888999999999999999999998875

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.93  E-value=1.7e-07  Score=88.78  Aligned_cols=241  Identities=8%  Similarity=-0.017  Sum_probs=162.3

Q ss_pred             HHHcCCCHHHHHHHHHhcCCCCh-hhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHH
Q 048281          279 MYGKGKCVGEALEIFEMMEEKDI-FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQ  357 (660)
Q Consensus       279 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  357 (660)
                      -..-.|++..++.-...+...+. ..-.-+.++|...|++...         ..-.|....+..+...+ ..+    +..
T Consensus        22 n~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~~   87 (310)
T 3mv2_B           22 QNYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NIE   87 (310)
T ss_dssp             HHHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CCH
T ss_pred             HHHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HHH
Confidence            34446777777775555543222 2223345777777776532         11234433433333333 221    444


Q ss_pred             HHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CCHhHHHHHHHHHHhcCChHHHHHH
Q 048281          358 IHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK-----KDVASWNIMILGYGMDGQGKEALDM  432 (660)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~  432 (660)
                      .++..+..+ .++        ......+..++...|++++|++++.+...     .+...+..++..+.+.|+.+.|.+.
T Consensus        88 ~l~~l~~~~-~~~--------~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~  158 (310)
T 3mv2_B           88 ELENLLKDK-QNS--------PYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTI  158 (310)
T ss_dssp             HHHHTTTTS-CCC--------HHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHhcC-CCC--------cHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            555444433 222        44556888899999999999999998742     2456788889999999999999999


Q ss_pred             HHHHHHcCCCC-----CHHHHHHHHHHH--hccC--CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHH
Q 048281          433 FSCMCEAKLKP-----DEVTFVGVLSAC--SHSG--FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYEL  503 (660)
Q Consensus       433 ~~~m~~~g~~p-----~~~~~~~ll~~~--~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  503 (660)
                      +++|.+.  .|     +..+...+..++  ...|  +.++|..+|+++...   .|+......+..++.+.|++++|.+.
T Consensus       159 l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~  233 (310)
T 3mv2_B          159 FDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGI  233 (310)
T ss_dssp             HHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHH
Confidence            9999884  67     366667777663  3334  899999999998653   35533444455589999999999999


Q ss_pred             HHhCCC------------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch
Q 048281          504 ALAMPN------------EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN  549 (660)
Q Consensus       504 ~~~~~~------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  549 (660)
                      ++.+..            +.++.+...++......|+  .|.++++++.+..|++|..
T Consensus       234 L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i  289 (310)
T 3mv2_B          234 VELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFI  289 (310)
T ss_dssp             HHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHH
T ss_pred             HHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHH
Confidence            986543            3456677677777777787  8899999999999998753

>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=98.89  E-value=1.4e-08  Score=108.45  Aligned_cols=160  Identities=10%  Similarity=0.004  Sum_probs=126.0

Q ss_pred             cCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048281          392 CGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFL  468 (660)
Q Consensus       392 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  468 (660)
                      .|++++|.+.|++..+   .+...|..+...|...|++++|+..|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4788999999998763   357889999999999999999999999999863 335678888889999999999999999


Q ss_pred             HHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc---CChHHHHHHHHHHHhcC
Q 048281          469 PLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLH---GNTDLAEIAAQRVFQLE  543 (660)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  543 (660)
                      +++.+.  .+.+...+..+..+|.+.|++++|.+.+++...  +.+...+..+..++...   |+.++|...++++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            999873  344678899999999999999999999998643  45678899999999999   99999999999999999


Q ss_pred             CCCcchHHHHH
Q 048281          544 PGHCGNYVLMS  554 (660)
Q Consensus       544 p~~~~~~~~l~  554 (660)
                      |.+...+..++
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            99888887776

>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=98.88  E-value=1e-08  Score=90.73  Aligned_cols=155  Identities=10%  Similarity=-0.064  Sum_probs=93.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 048281          382 NNALMDMYTKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS  458 (660)
Q Consensus       382 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  458 (660)
                      +..+...+.+.|++++|...|++..+   .+...|..+...+...|++++|+..+++....  .|+...+          
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~----------   76 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYK----------   76 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHH----------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHH----------
Confidence            44455555666666666666665542   24455555555666666666666666555443  2222211          


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH-HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHH
Q 048281          459 GFLSQGREFLPLMESRYGVVPTIEHYTCVIDM-LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIA  535 (660)
Q Consensus       459 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~  535 (660)
                                                ..+... +...+...+|...+++...  +.+...+..+..++...|++++|+..
T Consensus        77 --------------------------~~~~~~~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~  130 (176)
T 2r5s_A           77 --------------------------SLIAKLELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALEL  130 (176)
T ss_dssp             --------------------------HHHHHHHHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             --------------------------HHHHHHHHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHH
Confidence                                      111101 0111111223444444322  34577888888888888888999988


Q ss_pred             HHHHHhcCCCC--cchHHHHHHHHHhCCChHHHHHHHHHHH
Q 048281          536 AQRVFQLEPGH--CGNYVLMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       536 ~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      ++++++.+|+.  +..+..++.++...|+.++|...+++..
T Consensus       131 ~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          131 LWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            98888888764  4578888888988999988888887764

>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=98.88  E-value=5.9e-09  Score=89.11  Aligned_cols=97  Identities=13%  Similarity=0.016  Sum_probs=86.4

Q ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 048281          480 TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIY  557 (660)
Q Consensus       480 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  557 (660)
                      +...+..+...+.+.|++++|...|++...  +.+...|..+..+|...|++++|+..|+++++++|+++..+..++.+|
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            446677788889999999999999988643  557889999999999999999999999999999999999999999999


Q ss_pred             HhCCChHHHHHHHHHHHhC
Q 048281          558 VAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       558 ~~~g~~~~a~~~~~~~~~~  576 (660)
                      ...|++++|...+++..+.
T Consensus       100 ~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999998764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.88  E-value=9.5e-09  Score=87.68  Aligned_cols=101  Identities=10%  Similarity=-0.074  Sum_probs=89.1

Q ss_pred             CCCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          477 VVPT-IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       477 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      +.|+ ...+..+...+.+.|++++|...|+++..  +.++..|..+..+|...|++++|+..|+++++++|+++..|..+
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            3443 45677888889999999999999988654  55788999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCChHHHHHHHHHHHhCC
Q 048281          554 SNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       554 ~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      +.+|...|++++|...+++..+..
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            999999999999999999998753

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.87  E-value=4.1e-08  Score=89.50  Aligned_cols=164  Identities=7%  Similarity=-0.045  Sum_probs=126.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-CHhHHHH----------------HHHHHHhcCChHHHHHHHHHHHHc
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK--K-DVASWNI----------------MILGYGMDGQGKEALDMFSCMCEA  439 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~----------------li~~~~~~g~~~~A~~~~~~m~~~  439 (660)
                      ...+......+...|++++|...|++...  | +...|..                +..+|.+.|++++|+..|++.++.
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   83 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK   83 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            33444556677889999999999998763  2 3456666                889999999999999999999986


Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC--HHHHHHHHHhCCCCCCH--HH
Q 048281          440 KLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ--LNEAYELALAMPNEANP--VV  515 (660)
Q Consensus       440 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~--~~  515 (660)
                      . +-+...+..+..++...|++++|...|+++.+.  -+.+...+..+..+|...|.  .+.+...++.... |++  ..
T Consensus        84 ~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~a  159 (208)
T 3urz_A           84 A-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS-PTKMQYA  159 (208)
T ss_dssp             C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C-CCHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC-CCchhHH
Confidence            3 335678888889999999999999999999873  34467888888888876654  4556667776653 333  34


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          516 WRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       516 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      +.....++...|++++|+..|++++++.|++
T Consensus       160 ~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          160 RYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            5556777788899999999999999999964

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.83  E-value=3.6e-08  Score=81.48  Aligned_cols=94  Identities=11%  Similarity=0.014  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVA  559 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  559 (660)
                      ..+......|.+.|++++|++.|++...  +.+...|..+..++...|++++|+..++++++++|+++..|..++.+|..
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            3455556666666666666666665432  34556666666666666666666666666666666666666666666666


Q ss_pred             CCChHHHHHHHHHHHh
Q 048281          560 GGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       560 ~g~~~~a~~~~~~~~~  575 (660)
                      .|++++|.+.+++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            6666666666666655

>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=98.82  E-value=8.5e-08  Score=104.33  Aligned_cols=189  Identities=12%  Similarity=-0.009  Sum_probs=147.5

Q ss_pred             hcccchHHHHHHHHHHH--------HhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHH
Q 048281          347 SHLAALMHGRQIHGYIV--------VNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNI  415 (660)
Q Consensus       347 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~  415 (660)
                      ...|++++|.+.++.+.        ......         ...+..+...|.+.|++++|...|++..   ..+...|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~---------~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~  472 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSES---------VELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWY  472 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTC---------SHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccc---------hhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHH
Confidence            67788899998888887        332222         7788899999999999999999999876   347789999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC
Q 048281          416 MILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG  495 (660)
Q Consensus       416 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  495 (660)
                      +..+|...|++++|+..|++..+.. +-+...+..+..++...|++++ .+.|+++.+.  .+.+...|..+..+|.+.|
T Consensus       473 lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g  548 (681)
T 2pzi_A          473 RAVAELLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEG  548 (681)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcC
Confidence            9999999999999999999999863 2355778888889999999999 9999999873  3446688999999999999


Q ss_pred             CHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHHcCC-----hHHHHHHHHHHHhcCCCCcc
Q 048281          496 QLNEAYELALAMPN-EAN-PVVWRTLLAASRLHGN-----TDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       496 ~~~~A~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~-----~~~A~~~~~~~~~~~p~~~~  548 (660)
                      ++++|.+.|+++.. .|+ ...|..+..++...++     .+...+..+.+.++.+.++.
T Consensus       549 ~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~  608 (681)
T 2pzi_A          549 DRVGAVRTLDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPR  608 (681)
T ss_dssp             CHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTT
T ss_pred             CHHHHHHHHHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHH
Confidence            99999999999875 444 5688888888876665     23344444444445554444

>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=98.82  E-value=5.2e-08  Score=104.11  Aligned_cols=152  Identities=15%  Similarity=-0.017  Sum_probs=113.0

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHH
Q 048281          423 DGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYE  502 (660)
Q Consensus       423 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  502 (660)
                      .|++++|+..|++..+.. +-+...+..+...+...|++++|.+.++++.+  -.+.+...+..+..+|...|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLA--LHPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            467889999999888752 33467788888889999999999999999876  334457788899999999999999999


Q ss_pred             HHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC---CChHHHHHHHHHHHhCC
Q 048281          503 LALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG---GKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       503 ~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~  577 (660)
                      .+++...  +.+...|..+..++...|++++|...++++++++|+++..+..++.++...   |++++|.+.+++..+.+
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9988643  456778899999999999999999999999999999999999999999999   99999999988875543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.81  E-value=3.7e-08  Score=81.37  Aligned_cols=109  Identities=9%  Similarity=-0.101  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAAS  523 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~  523 (660)
                      ..+......+.+.|++++|++.|+++++  -.+.+...|..+..+|.+.|++++|+..+++...  +.+...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVK--RDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            3455666777788888888888888776  2344667788888888888888888888887543  45678899999999


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 048281          524 RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNI  556 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  556 (660)
                      ...|++++|+..|+++++++|+++.++..|..+
T Consensus        92 ~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            999999999999999999999998888777665

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.78  E-value=4.6e-08  Score=89.14  Aligned_cols=161  Identities=11%  Similarity=-0.015  Sum_probs=123.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHH----------------HHHHHhccCCHHHHHHHHHHhHHh
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPD-EVTFVG----------------VLSACSHSGFLSQGREFLPLMESR  474 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~----------------ll~~~~~~g~~~~a~~~~~~~~~~  474 (660)
                      .+-.....+...|++++|+..|++..+.  .|+ ...+..                +..++...|++++|...|+.+.+.
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   83 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK   83 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3444566778999999999999999985  454 345555                778899999999999999999873


Q ss_pred             cCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCC--hHHHHHHHHHHHhcCCCCcchH
Q 048281          475 YGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGN--TDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       475 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                        .+.+...+..+..+|...|++++|...|++...  +.+...|..+..+|...|+  .+.+...++++....|.. ..+
T Consensus        84 --~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~a~  160 (208)
T 3urz_A           84 --APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQ-YAR  160 (208)
T ss_dssp             --CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHH-HHH
T ss_pred             --CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchh-HHH
Confidence              345678899999999999999999999998654  4567889999988876654  445566666665433322 345


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          551 VLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       551 ~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ..++.++...|++++|+..+++..+..
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            667888888999999999999998743

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.76  E-value=1.3e-06  Score=83.56  Aligned_cols=149  Identities=12%  Similarity=0.113  Sum_probs=81.4

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH--HHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC-----
Q 048281          424 GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLS--QGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ-----  496 (660)
Q Consensus       424 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----  496 (660)
                      +++++++.+++++.+.. +-|...|..-...+.+.|.++  +++++++.+++.  ..-|...|+.-..++.+.|+     
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhh
Confidence            45556666666655542 224444444444444445544  556666666552  23344445444444444444     


Q ss_pred             -HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHH-HHHHHHHHHhcC---CCCcchHHHHHHHHHhCCChHHHHHH
Q 048281          497 -LNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDL-AEIAAQRVFQLE---PGHCGNYVLMSNIYVAGGKYEEVLDI  569 (660)
Q Consensus       497 -~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~  569 (660)
                       ++++++.++++..  +.|...|+-+...+.+.|+... +...+.++++++   |.++.++..++.+|.+.|+.++|.++
T Consensus       201 ~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          201 TIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence             5666666555432  4456666666666666665333 444555555554   55556666667777667777777777


Q ss_pred             HHHHHh
Q 048281          570 RHTMRQ  575 (660)
Q Consensus       570 ~~~~~~  575 (660)
                      ++.+.+
T Consensus       281 ~~~l~~  286 (306)
T 3dra_A          281 YDLLKS  286 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            766654

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.76  E-value=1.5e-07  Score=86.09  Aligned_cols=96  Identities=10%  Similarity=-0.054  Sum_probs=46.3

Q ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc----------
Q 048281          480 TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC----------  547 (660)
Q Consensus       480 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~----------  547 (660)
                      +...+..+..+|.+.|++++|.+.+++...  +.+...|..+..++...|++++|+..++++++..|++.          
T Consensus        36 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  115 (213)
T 1hh8_A           36 HSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQ  115 (213)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBC
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccc
Confidence            334444444444444444444444443221  22344445555555555555555555555555444443          


Q ss_pred             ------chHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          548 ------GNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       548 ------~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                            ..+..++.+|...|++++|.+.+++..+
T Consensus       116 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A          116 FKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             CEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence                  4455555555555555555555555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.75  E-value=9e-08  Score=81.09  Aligned_cols=96  Identities=11%  Similarity=-0.054  Sum_probs=84.2

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ...+..+...+.+.|++++|...|++...  +.+...|..+..++...|++++|+..|+++++++|+++..+..++.+|.
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            35566777888899999999999987643  4577889999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhC
Q 048281          559 AGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       559 ~~g~~~~a~~~~~~~~~~  576 (660)
                      ..|++++|.+.+++..+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999998764

>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=2.8e-07  Score=85.08  Aligned_cols=149  Identities=13%  Similarity=0.010  Sum_probs=106.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC--CC-H---hHHHHHHHHHHh------------------cCChHHHHHHHHH
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSK--KD-V---ASWNIMILGYGM------------------DGQGKEALDMFSC  435 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~------------------~g~~~~A~~~~~~  435 (660)
                      ..+..+..+|.+.|++++|...|+++.+  |+ .   .++..+..++..                  .|+.++|+..|++
T Consensus        42 ~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  121 (225)
T 2yhc_A           42 QVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSK  121 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHH
Confidence            5678889999999999999999998762  32 2   245556666554                  5789999999999


Q ss_pred             HHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC-
Q 048281          436 MCEAKLKPDEV-TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN-  512 (660)
Q Consensus       436 m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-  512 (660)
                      +++.  .|+.. .......          ...+...+.         .....+...|.+.|++++|...|+++.. .|+ 
T Consensus       122 ~l~~--~P~~~~a~~a~~~----------l~~~~~~~~---------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~  180 (225)
T 2yhc_A          122 LVRG--YPNSQYTTDATKR----------LVFLKDRLA---------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDT  180 (225)
T ss_dssp             HHTT--CTTCTTHHHHHHH----------HHHHHHHHH---------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTS
T ss_pred             HHHH--CcCChhHHHHHHH----------HHHHHHHHH---------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCC
Confidence            9985  45543 2211110          011111111         1234567889999999999999998654 233 


Q ss_pred             H---HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch
Q 048281          513 P---VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN  549 (660)
Q Consensus       513 ~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  549 (660)
                      +   ..+..+..++.+.|+.++|+..++++....|++.+.
T Consensus       181 ~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          181 QATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             CccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence            2   468889999999999999999999999988887553

>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=98.74  E-value=3.6e-07  Score=88.92  Aligned_cols=186  Identities=11%  Similarity=0.052  Sum_probs=137.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HH
Q 048281          381 MNNALMDMYTKCGSMRDAQMVFTKMSK-----KD----VASWNIMILGYGMDGQGKEALDMFSCMCEAKL---KPD--EV  446 (660)
Q Consensus       381 ~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~  446 (660)
                      .|......|...|++++|...|.+...     .+    ..+|+.+...|...|++++|+..|++..+.-.   .|.  ..
T Consensus        38 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  117 (307)
T 2ifu_A           38 EYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAM  117 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            445556778889999999988887642     12    35788899999999999999999998875311   121  35


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC----ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCC----HH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVP----TIEHYTCVIDMLGRAGQLNEAYELALAMPN----EAN----PV  514 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~----~~  514 (660)
                      ++..+...|.. |++++|+..|++..+-..-..    ...++..+..+|.+.|++++|+..|++...    .++    ..
T Consensus       118 ~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  196 (307)
T 2ifu_A          118 ALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYK  196 (307)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHH
Confidence            67778888888 999999999999876321111    146788899999999999999999987643    122    23


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch-----HHHHHHHHHhCCChHHHHHH
Q 048281          515 VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN-----YVLMSNIYVAGGKYEEVLDI  569 (660)
Q Consensus       515 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~a~~~  569 (660)
                      .+..++.++...|++++|...+++++ +.|.....     ...++..+ ..|+.+.+.++
T Consensus       197 ~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          197 KCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            66677778888899999999999999 98875432     33445545 56776666553

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.73  E-value=3.5e-06  Score=87.31  Aligned_cols=125  Identities=9%  Similarity=-0.045  Sum_probs=91.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC-SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      ..|...+....+.++.+.|..+|+++ .. ..++...|......- ...++.+.|..+|+...+.++  .+...+...++
T Consensus       287 ~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~--~~~~~~~~yid  362 (493)
T 2uy1_A          287 LLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHP--DSTLLKEEFFL  362 (493)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCT--TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCC--CCHHHHHHHHH
Confidence            45666677776778899999999988 32 123444444322211 123479999999999988532  33456677788


Q ss_pred             HHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          490 MLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      ...+.|+.+.|..+|+++.  .....|...+..-..+|+.+.+..++++..+
T Consensus       363 ~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          363 FLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8888999999999999985  3678888888888888999999998888875

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.73  E-value=1.3e-05  Score=82.95  Aligned_cols=201  Identities=10%  Similarity=0.018  Sum_probs=108.5

Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHH-HHHHHhc
Q 048281          218 KALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEA-LEIFEMM  296 (660)
Q Consensus       218 ~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A-~~~~~~~  296 (660)
                      .+..+|+++... .+.+...|...+..+.+.|+.+.|..+++...+.  +.+...+..    |....+.++. ..+.+..
T Consensus       197 Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~~  269 (493)
T 2uy1_A          197 RMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRKY  269 (493)
T ss_dssp             HHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHHH
Confidence            456677777664 2334556666666677778888888888887777  333333322    2211111111 1111111


Q ss_pred             C------------CCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc-ccchHHHHHHHHHHH
Q 048281          297 E------------EKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSH-LAALMHGRQIHGYIV  363 (660)
Q Consensus       297 ~------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~-~~~~~~a~~~~~~~~  363 (660)
                      .            ......|...+....+.++.+.|..+|++. ... ..+...|......-.. .++.+.|..+++...
T Consensus       270 ~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al  347 (493)
T 2uy1_A          270 SMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGL  347 (493)
T ss_dssp             C----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHH
T ss_pred             HhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            0            001234555666666667777777777777 211 1233333221111111 225777777777776


Q ss_pred             HhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048281          364 VNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMC  437 (660)
Q Consensus       364 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  437 (660)
                      +.... +        +..+...++...+.|+.+.|..+|+++. .....|...+.--...|+.+.+..+++++.
T Consensus       348 ~~~~~-~--------~~~~~~yid~e~~~~~~~~aR~l~er~~-k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          348 LKHPD-S--------TLLKEEFFLFLLRIGDEENARALFKRLE-KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHCTT-C--------HHHHHHHHHHHHHHTCHHHHHHHHHHSC-CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHCCC-C--------HHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            65422 1        4445556666667777777777777763 245556666655555666666666666655

>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=98.72  E-value=1.6e-07  Score=82.92  Aligned_cols=125  Identities=14%  Similarity=0.007  Sum_probs=68.6

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CCHhHHHHHHHH-HHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 048281          378 DVFMNNALMDMYTKCGSMRDAQMVFTKMSK--KDVASWNIMILG-YGMDGQGKEALDMFSCMCEAKLKP-DEVTFVGVLS  453 (660)
Q Consensus       378 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~  453 (660)
                      +...+..+...|.+.|++++|...|++...  |+...+..+... +...+...+|+..+++..+.  .| +...+..+..
T Consensus        39 ~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~  116 (176)
T 2r5s_A           39 RGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELHQQAAESPELKRLEQELAA--NPDNFELACELAV  116 (176)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHHhhcccchHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            377889999999999999999999999873  333333222111 11212223355556555553  23 3444555555


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCC-CChHHHHHHHHHHhhcCCHHHHHHHHH
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVV-PTIEHYTCVIDMLGRAGQLNEAYELAL  505 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~  505 (660)
                      ++...|++++|...|+.+.+. .-. .+...+..+..+|...|+.++|...|+
T Consensus       117 ~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~  168 (176)
T 2r5s_A          117 QYNQVGRDEEALELLWNILKV-NLGAQDGEVKKTFMDILSALGQGNAIASKYR  168 (176)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT-CTTTTTTHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHh-CcccChHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            555556666666655555442 111 113344445555555555555544444

>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=98.71  E-value=1.6e-07  Score=81.75  Aligned_cols=127  Identities=10%  Similarity=-0.057  Sum_probs=92.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASR  524 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~  524 (660)
                      .+..+...+...|++++|...++.+.+.  .+.+...+..+..++...|++++|...+++...  +.+...|..+..++.
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            3444555566666666666666666652  233456666777777777777777777766432  345678888899999


Q ss_pred             HcCChHHHHHHHHHHHhcCCCCcchHHHHHH--HHHhCCChHHHHHHHHHHHh
Q 048281          525 LHGNTDLAEIAAQRVFQLEPGHCGNYVLMSN--IYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       525 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ..|++++|...+++++++.|.++..+..+..  .+...|++++|.+.+.....
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            9999999999999999999998877754444  47888999999999887643

>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=2.2e-07  Score=89.39  Aligned_cols=134  Identities=9%  Similarity=-0.024  Sum_probs=113.1

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHH-
Q 048281          442 KPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTL-  519 (660)
Q Consensus       442 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l-  519 (660)
                      +.+...+..+...+...|++++|...|+.+.+.  .+.+...+..+..+|.+.|++++|...++++.. .|+....... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHH
Confidence            344556777778889999999999999999873  445678899999999999999999999999875 4555433333 


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          520 LAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       520 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ...+...++.+.|+..++++++.+|+++..+..++.+|...|++++|...++++.+..
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~  249 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXD  249 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc
Confidence            3347778889999999999999999999999999999999999999999999998753

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.69  E-value=1.6e-07  Score=78.13  Aligned_cols=116  Identities=9%  Similarity=-0.071  Sum_probs=82.3

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAA  522 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~  522 (660)
                      ...+..+...+...|++++|...++.+.+  ..+.+...+..+..+|...|++++|.+.+++...  +.+...|..+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIK--RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHT--TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            34455555566666666666666666654  2233455666666677777777777777666432  3456788888888


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCC
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGK  562 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  562 (660)
                      +...|++++|+..++++++..|.+...+..++.++...|+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            8999999999999999999999888888888888877664

>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=98.69  E-value=2.2e-06  Score=82.76  Aligned_cols=162  Identities=9%  Similarity=-0.076  Sum_probs=123.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC----hHHH
Q 048281          414 NIMILGYGMDGQGKEALDMFSCMCEAKL-KPDEV----TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT----IEHY  484 (660)
Q Consensus       414 ~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~----~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~  484 (660)
                      ...+..+...|++++|..++++..+... .|+..    .+..+...+...|++++|+..++.+.+...-.++    ..++
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            3346778899999999999999887421 22221    2334556677788999999999999873122223    3368


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCCC--------CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------cch
Q 048281          485 TCVIDMLGRAGQLNEAYELALAMPN--------EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH------CGN  549 (660)
Q Consensus       485 ~~l~~~~~~~g~~~~A~~~~~~~~~--------~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~  549 (660)
                      +.+...|...|++++|...++++..        .+ ...++..++..|...|++++|+..+++++++.+..      +..
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            9999999999999999999987642        11 22478899999999999999999999999874332      567


Q ss_pred             HHHHHHHHHhCCC-hHHHHHHHHHHHh
Q 048281          550 YVLMSNIYVAGGK-YEEVLDIRHTMRQ  575 (660)
Q Consensus       550 ~~~l~~~~~~~g~-~~~a~~~~~~~~~  575 (660)
                      |..++.+|.+.|+ +++|.+.+++...
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            8999999999995 6999999988743

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.69  E-value=1.1e-05  Score=77.29  Aligned_cols=226  Identities=7%  Similarity=-0.005  Sum_probs=166.6

Q ss_pred             ChHHHHHHHHHHhhcCCCCCHHH-HHHHHHHHhccc--chHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHH---
Q 048281          316 NHDGTLRLFDRMLSAGFQPDLVT-FSTVLPACSHLA--ALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMY---  389 (660)
Q Consensus       316 ~~~~a~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~---  389 (660)
                      ..++|+++++.++..  .|+..| ++.--..+...+  +++++...++.++...++.         ..+|+.-...+   
T Consensus        48 ~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~---------y~aW~~R~~iL~~~  116 (306)
T 3dra_A           48 YSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKN---------YQIWNYRQLIIGQI  116 (306)
T ss_dssp             CSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTC---------CHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCccc---------HHHHHHHHHHHHHH
Confidence            345677777777664  454433 343334445555  7777777777777766555         45555544444   


Q ss_pred             -Hhc---CCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC
Q 048281          390 -TKC---GSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGK--EALDMFSCMCEAKLKPDEVTFVGVLSACSHSGF  460 (660)
Q Consensus       390 -~~~---g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  460 (660)
                       ...   +++++++.+++.+.   .++..+|+.-.-.+.+.|.++  ++++.++++++.. .-|...|+.-...+.+.+.
T Consensus       117 ~~~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~  195 (306)
T 3dra_A          117 MELNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKH  195 (306)
T ss_dssp             HHHTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGG
T ss_pred             HHhccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccc
Confidence             444   78899999999876   457789988888888889888  9999999999875 3466677666666666665


Q ss_pred             ------HHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHH-HHHHHHhCCC-----CCCHHHHHHHHHHHHHcCC
Q 048281          461 ------LSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNE-AYELALAMPN-----EANPVVWRTLLAASRLHGN  528 (660)
Q Consensus       461 ------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~  528 (660)
                            ++++++.++.++.  -.+-|...|+-+..++.+.|+..+ +..+.+++..     ..++..+..++.+|.+.|+
T Consensus       196 ~~~~~~~~eEl~~~~~aI~--~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~  273 (306)
T 3dra_A          196 LATDNTIDEELNYVKDKIV--KCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKK  273 (306)
T ss_dssp             GCCHHHHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTC
T ss_pred             cchhhhHHHHHHHHHHHHH--hCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCC
Confidence                  8999999999987  355678889888889988888544 5556666543     3467889999999999999


Q ss_pred             hHHHHHHHHHHHh-cCCCCcchHHHHHH
Q 048281          529 TDLAEIAAQRVFQ-LEPGHCGNYVLMSN  555 (660)
Q Consensus       529 ~~~A~~~~~~~~~-~~p~~~~~~~~l~~  555 (660)
                      .++|+++++.+.+ .+|-....|...+.
T Consensus       274 ~~~A~~~~~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          274 YNESRTVYDLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccChHHHHHHHHHHh
Confidence            9999999999997 79988777665544

>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=98.69  E-value=1.6e-07  Score=82.99  Aligned_cols=120  Identities=7%  Similarity=0.039  Sum_probs=88.1

Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH-HHHcCCh--H
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAA-SRLHGNT--D  530 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~-~~~~g~~--~  530 (660)
                      ...|++++|...++...+.  .+.+...+..+..+|...|++++|...|++...  +.+...|..+..+ +...|++  +
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            3456677777777776652  334556777777777777888888777776543  4466677777777 7788887  8


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          531 LAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       531 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      +|+..++++++.+|+++..+..++.+|...|++++|...++++.+..
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            88888888888888888888888888888888888888888887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.69  E-value=2e-07  Score=76.42  Aligned_cols=114  Identities=18%  Similarity=0.147  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAAS  523 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~  523 (660)
                      ..+..+...+...|++++|.+.++++.+.  .+.+...+..+...+.+.|++++|...++++..  +.+..+|..+...+
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            45555666666677777777777776652  233456667777777777777777777766543  34667888888889


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCC
Q 048281          524 RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGG  561 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  561 (660)
                      ...|++++|...++++++..|+++..+..++.++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            99999999999999999999988888888888776544

>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=98.68  E-value=3.4e-07  Score=83.61  Aligned_cols=146  Identities=10%  Similarity=-0.128  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC
Q 048281          381 MNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGF  460 (660)
Q Consensus       381 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  460 (660)
                      .+..+...+...|++++|...|++...++...|..+...|...|++++|+..|++..+.. +.+...+..+..++...|+
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~   86 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEK   86 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHccc
Confidence            344556666667777777777776666666666666666777777777777776666542 2344555556666666666


Q ss_pred             HHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 048281          461 LSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRV  539 (660)
Q Consensus       461 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  539 (660)
                      +++|.+.++.+.+...-.+...        +...|.           .. +.....|..+..++...|++++|...++++
T Consensus        87 ~~~A~~~~~~al~~~~~~~~~~--------~~~~~~-----------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  147 (213)
T 1hh8_A           87 YDLAIKDLKEALIQLRGNQLID--------YKILGL-----------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLALA  147 (213)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEE--------CGGGTB-----------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCccHHH--------HHHhcc-----------ccCccchHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666655211000000        000000           01 123467888999999999999999999999


Q ss_pred             HhcCCCC
Q 048281          540 FQLEPGH  546 (660)
Q Consensus       540 ~~~~p~~  546 (660)
                      +++.|++
T Consensus       148 l~~~p~~  154 (213)
T 1hh8_A          148 TSMKSEP  154 (213)
T ss_dssp             HTTCCSG
T ss_pred             HHcCccc
Confidence            9999876

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.67  E-value=1.8e-07  Score=77.44  Aligned_cols=117  Identities=7%  Similarity=-0.105  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAA  522 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~  522 (660)
                      ...+..+...+...|++++|...++.+.+.  .+.+...+..+..++...|++++|.+.+++...  +.+...|..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            344555556666677777777777776652  233556677777777777777777777766433  3456788888889


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCCh
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKY  563 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  563 (660)
                      +...|++++|...++++++..|+++..+..++.++...|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999888888999998888775

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.66  E-value=1.5e-07  Score=77.81  Aligned_cols=96  Identities=13%  Similarity=0.050  Sum_probs=82.2

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ...+..+...+.+.|++++|...|++...  +.+...|..+..++...|++++|+..++++++++|+++..+..++.+|.
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            34566777788888888888888887543  4567889999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhC
Q 048281          559 AGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       559 ~~g~~~~a~~~~~~~~~~  576 (660)
                      ..|++++|...+++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            999999999999988764

>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=98.66  E-value=5.1e-08  Score=93.51  Aligned_cols=189  Identities=7%  Similarity=-0.106  Sum_probs=138.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ...+..+...+.+.|++++|...|++..   ..+...|..+..+|.+.|++++|+..+++..+.. +.+...+..+..++
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            6678888999999999999999999875   3478899999999999999999999999998853 33566788888899


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCC---CChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVV---PTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLA  532 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  532 (660)
                      ...|++++|...|+.+.+...-.   .....+..+  ...+...+..    ......+.+..+...+...  ..|+.++|
T Consensus        83 ~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~--~~~~~~~~~~----~~~~~~~~~~~i~~~l~~l--~~~~~~~A  154 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL--RIAKKKRWNS----IEERRIHQESELHSYLTRL--IAAERERE  154 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH--HHHHHHHHHH----HHHTCCCCCCHHHHHHHHH--HHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH--HHHHHHHHHH----HHHHHHhhhHHHHHHHHHH--HHHHHHHH
Confidence            99999999999999987631111   111222221  1222222222    2222334444444444332  36899999


Q ss_pred             HHHHHHHHhcCCCCcchHHHHHHHHHhC-CChHHHHHHHHHHHhC
Q 048281          533 EIAAQRVFQLEPGHCGNYVLMSNIYVAG-GKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       533 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~  576 (660)
                      ++.++++++++|++......+..++.+. +++++|.++|.++.+.
T Consensus       155 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          155 LEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            9999999999998877777777777776 7899999999988653

>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=98.62  E-value=2.1e-07  Score=91.67  Aligned_cols=142  Identities=13%  Similarity=-0.023  Sum_probs=103.6

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      ...|..+...|.+.|++++|+..|++.++..  |+...+           ..+.+.++-.         .....|..+..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~-----------~~~~~~~~~~---------~~~~~~~nla~  204 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSF-----------SNEEAQKAQA---------LRLASHLNLAM  204 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCC-----------CSHHHHHHHH---------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccC-----------ChHHHHHHHH---------HHHHHHHHHHH
Confidence            4466666666667777777777777666542  221100           0011111000         01357788888


Q ss_pred             HHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHH-
Q 048281          490 MLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEV-  566 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-  566 (660)
                      +|.+.|++++|+..+++...  +.+...|..+..+|...|++++|+..|+++++++|+++.++..++.++...|++++| 
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  284 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  284 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            88889999999888887643  457789999999999999999999999999999999999999999999999999999 


Q ss_pred             HHHHHHH
Q 048281          567 LDIRHTM  573 (660)
Q Consensus       567 ~~~~~~~  573 (660)
                      ...++.|
T Consensus       285 ~~~~~~~  291 (336)
T 1p5q_A          285 KKLYANM  291 (336)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4566665

>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=98.62  E-value=3.4e-07  Score=89.07  Aligned_cols=196  Identities=9%  Similarity=-0.019  Sum_probs=146.3

Q ss_pred             ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHH
Q 048281          349 LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKE  428 (660)
Q Consensus       349 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  428 (660)
                      .|++++|.++++...+.....                  .+...++++.|...|..           ....|...|++++
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~------------------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~   54 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTS------------------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQ   54 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCC------------------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHH
T ss_pred             cchHHHHHHHHHHHHHHcccc------------------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHH
Confidence            456667777776665442110                  01114778888887764           4667889999999


Q ss_pred             HHHHHHHHHHcCC---CC--CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCC-ChHHHHHHHHHHhhcCCHHH
Q 048281          429 ALDMFSCMCEAKL---KP--DEVTFVGVLSACSHSGFLSQGREFLPLMESRY---GVVP-TIEHYTCVIDMLGRAGQLNE  499 (660)
Q Consensus       429 A~~~~~~m~~~g~---~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~  499 (660)
                      |...|.+..+...   .+  -..+|..+...|...|++++|+..|++..+-+   +... ...++..+..+|.. |++++
T Consensus        55 A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~  133 (307)
T 2ifu_A           55 AKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSK  133 (307)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHH
Confidence            9999998876321   11  13478888889999999999999999887632   1111 13678889999988 99999


Q ss_pred             HHHHHHhCCC----CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc------chHHHHHHHHHhCCChHH
Q 048281          500 AYELALAMPN----EAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC------GNYVLMSNIYVAGGKYEE  565 (660)
Q Consensus       500 A~~~~~~~~~----~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~  565 (660)
                      |+..|++...    ..+    ..++..+...|...|++++|+..+++++++.|.+.      ..+..++.++...|++++
T Consensus       134 A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~  213 (307)
T 2ifu_A          134 AVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVA  213 (307)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHH
Confidence            9999987643    111    45788899999999999999999999999865443      266778888889999999


Q ss_pred             HHHHHHHHH
Q 048281          566 VLDIRHTMR  574 (660)
Q Consensus       566 a~~~~~~~~  574 (660)
                      |...+++..
T Consensus       214 A~~~~~~al  222 (307)
T 2ifu_A          214 AQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999999987

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.62  E-value=9.5e-07  Score=85.31  Aligned_cols=164  Identities=9%  Similarity=-0.098  Sum_probs=118.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhccCCHHHHHHHHHHhHHhcC--CCCC--hH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDE-----VTFVGVLSACSHSGFLSQGREFLPLMESRYG--VVPT--IE  482 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~--~~  482 (660)
                      .+...+..+...|++++|++.+.+..+.......     ..+..+...+...|++++|...++++.+...  ..+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            3444566777888888888888877765322111     1233344566778899999999888875211  1111  35


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC----CCC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--C----c
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN----EAN-----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG--H----C  547 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~----~  547 (660)
                      +++.+...|...|++++|...+++...    .++     ..++..++..|...|++++|+..+++++++.+.  +    +
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            788889999999999999998877541    122     258888999999999999999999999886432  1    4


Q ss_pred             chHHHHHHHHHhCCChHHH-HHHHHHHHh
Q 048281          548 GNYVLMSNIYVAGGKYEEV-LDIRHTMRQ  575 (660)
Q Consensus       548 ~~~~~l~~~~~~~g~~~~a-~~~~~~~~~  575 (660)
                      .+|..++.+|.+.|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6788999999999999999 777877643

>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=98.59  E-value=2.4e-06  Score=77.83  Aligned_cols=161  Identities=9%  Similarity=-0.109  Sum_probs=133.8

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-CCHhHHHHHHHHHHhcC----ChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK-KDVASWNIMILGYGMDG----QGKEALDMFSCMCEAKLKPDEVTFVGVLS  453 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  453 (660)
                      +..+..|...|...+++++|...|++..+ .+..++..|...|.. +    ++++|+.+|++..+.|   +...+..|..
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~   93 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLAR   93 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            77888899999999999999999998764 477888889888888 6    8999999999998865   5667777777


Q ss_pred             HHhc----cCCHHHHHHHHHHhHHhcCCC-CChHHHHHHHHHHhh----cCCHHHHHHHHHhCCCC-CCHHHHHHHHHHH
Q 048281          454 ACSH----SGFLSQGREFLPLMESRYGVV-PTIEHYTCVIDMLGR----AGQLNEAYELALAMPNE-ANPVVWRTLLAAS  523 (660)
Q Consensus       454 ~~~~----~g~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~~l~~~~  523 (660)
                      .|..    .+++++|..+|+...+. +.. .....+..|..+|..    .+++++|...|++.... +++..+..|...|
T Consensus        94 ~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~a~~~Lg~~y  172 (212)
T 3rjv_A           94 VLVNRQAGATDVAHAITLLQDAARD-SESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGYAEYWAGMMF  172 (212)
T ss_dssp             HHTCGGGSSCCHHHHHHHHHHHTSS-TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTHHHHHHHHHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHc-CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            7777    88999999999999762 321 126788899999988    88999999999987543 6777888888888


Q ss_pred             HHc-C-----ChHHHHHHHHHHHhcCC
Q 048281          524 RLH-G-----NTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       524 ~~~-g-----~~~~A~~~~~~~~~~~p  544 (660)
                      ..- |     +.++|+..|+++.+...
T Consensus       173 ~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          173 QQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            764 3     89999999999988754

>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=2e-07  Score=76.36  Aligned_cols=95  Identities=15%  Similarity=0.017  Sum_probs=82.9

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  560 (660)
                      .+..+...+.+.|++++|...+++...  +.+...|..+..++...|++++|+..++++++++|+++..+..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            355667788899999999999988654  457789999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhCC
Q 048281          561 GKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       561 g~~~~a~~~~~~~~~~~  577 (660)
                      |++++|...+++..+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999987643

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.55  E-value=2.2e-07  Score=79.21  Aligned_cols=102  Identities=10%  Similarity=-0.119  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAAS  523 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~  523 (660)
                      ..+..+...+...|++++|...|+.+..  .-+.+...|..+..+|...|++++|...|++...  +.++..|..+..+|
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCV--LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHH--cCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            4555666778888888888888888876  2344677788888888888999999888887643  45678889999999


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCcch
Q 048281          524 RLHGNTDLAEIAAQRVFQLEPGHCGN  549 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~p~~~~~  549 (660)
                      ...|++++|+..|++++++.|+++..
T Consensus       100 ~~~g~~~~A~~~~~~al~~~p~~~~~  125 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQELIANXPEF  125 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHTTCGGG
T ss_pred             HHcCCHHHHHHHHHHHHHHCcCCCcc
Confidence            99999999999999999999987654

>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=98.54  E-value=4.8e-06  Score=80.32  Aligned_cols=160  Identities=9%  Similarity=-0.069  Sum_probs=122.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCCC---CH------hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HHHH
Q 048281          383 NALMDMYTKCGSMRDAQMVFTKMSKK---DV------ASWNIMILGYGMDGQGKEALDMFSCMCEAKLK-PD----EVTF  448 (660)
Q Consensus       383 ~~li~~~~~~g~~~~A~~~~~~~~~~---~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~  448 (660)
                      ...+..+...|++++|...+++..+.   +.      ..+..+...+...+++++|+..|+++.+.... ++    ..++
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            34467788899999999999886532   11      13345667777888999999999999984322 22    2368


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhc----CCCCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCCC-------CC-CHHH
Q 048281          449 VGVLSACSHSGFLSQGREFLPLMESRY----GVVPT-IEHYTCVIDMLGRAGQLNEAYELALAMPN-------EA-NPVV  515 (660)
Q Consensus       449 ~~ll~~~~~~g~~~~a~~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~-~~~~  515 (660)
                      +.+...|...|++++|..+++++.+..    +..+. ..++..+...|.+.|++++|...+++...       .+ -..+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            888889999999999999999988521    11122 24788999999999999999999887542       11 2568


Q ss_pred             HHHHHHHHHHcCC-hHHHHHHHHHHHhc
Q 048281          516 WRTLLAASRLHGN-TDLAEIAAQRVFQL  542 (660)
Q Consensus       516 ~~~l~~~~~~~g~-~~~A~~~~~~~~~~  542 (660)
                      |..+..++...|+ +++|...+++++.+
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            8999999999995 69999999999875

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.54  E-value=3.2e-07  Score=73.57  Aligned_cols=98  Identities=13%  Similarity=-0.027  Sum_probs=81.7

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--CcchHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG--HCGNYVLMSNI  556 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~  556 (660)
                      ...+..+...+.+.|++++|...+++...  +.+...|..+..++...|++++|+..++++++..|.  ++..+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            45566777778888888888888877543  446778888899999999999999999999999998  88899999999


Q ss_pred             HHhC-CChHHHHHHHHHHHhCCC
Q 048281          557 YVAG-GKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       557 ~~~~-g~~~~a~~~~~~~~~~~~  578 (660)
                      +... |++++|.+.+++..+...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhccc
Confidence            9999 999999999999877543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.53  E-value=1.2e-06  Score=81.87  Aligned_cols=192  Identities=8%  Similarity=-0.130  Sum_probs=121.6

Q ss_pred             cccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHH-------HHHHHhcCCHHHHHHHHhcCCC--C-------C--
Q 048281          348 HLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNAL-------MDMYTKCGSMRDAQMVFTKMSK--K-------D--  409 (660)
Q Consensus       348 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~~~~--~-------~--  409 (660)
                      ..++...|.+.|..+....+..         ...|+.+       ...+.+.++..++...+.+-..  |       +  
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~---------~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~   88 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESA---------CDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIG   88 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTC---------HHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECC
T ss_pred             cCCCHHHHHHHHHHHHHhChhh---------hHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccC
Confidence            4577777777777777776655         6667666       4555555555555554444332  1       1  


Q ss_pred             -------------HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC
Q 048281          410 -------------VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYG  476 (660)
Q Consensus       410 -------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  476 (660)
                                   ...+-.+...+...|++++|.++|..+...  .|+......+...+.+.+++++|+..|+...+. .
T Consensus        89 g~y~~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~  165 (282)
T 4f3v_A           89 GLYGDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P  165 (282)
T ss_dssp             TTTCCCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S
T ss_pred             CcccccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C
Confidence                         112334566677788888888888777664  354444444444677778888888888755431 1


Q ss_pred             CCCC--hHHHHHHHHHHhhcCCHHHHHHHHHhCCCC---C--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch
Q 048281          477 VVPT--IEHYTCVIDMLGRAGQLNEAYELALAMPNE---A--NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN  549 (660)
Q Consensus       477 ~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  549 (660)
                       .|.  ...+..+..++.+.|++++|+..|++....   |  ....+.....++.+.|+.++|...|+++...+|+ +..
T Consensus       166 -d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~  243 (282)
T 4f3v_A          166 -DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKV  243 (282)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHH
T ss_pred             -CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHH
Confidence             111  235667777788888888888888776432   2  2235666777778888888888888888888886 554


Q ss_pred             HHHH
Q 048281          550 YVLM  553 (660)
Q Consensus       550 ~~~l  553 (660)
                      +..|
T Consensus       244 ~~aL  247 (282)
T 4f3v_A          244 AAAL  247 (282)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.53  E-value=1.1e-06  Score=82.09  Aligned_cols=181  Identities=8%  Similarity=-0.050  Sum_probs=140.2

Q ss_pred             hcCCHHHHHHHHhcCCC---CCHhHHHHH-------HHHHHhcCChHHHHHHHHHHHHcCCCCCH---------------
Q 048281          391 KCGSMRDAQMVFTKMSK---KDVASWNIM-------ILGYGMDGQGKEALDMFSCMCEAKLKPDE---------------  445 (660)
Q Consensus       391 ~~g~~~~A~~~~~~~~~---~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~---------------  445 (660)
                      ..++...|.+.|.++..   .....|+.+       ...+...++..+++..++.-..  +.|+.               
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            57999999999998872   356788888       4566666666666666665554  22221               


Q ss_pred             -------HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCH----H
Q 048281          446 -------VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANP----V  514 (660)
Q Consensus       446 -------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~  514 (660)
                             .....+...+...|++++|.+.|+.+..   ..|+......+...+.+.|++++|+..|+.....+++    .
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                   2234456678899999999999998865   2354446677777899999999999999876654433    3


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC--CC-CcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          515 VWRTLLAASRLHGNTDLAEIAAQRVFQLE--PG-HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       515 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+..+..++...|++++|+..|+++....  |. .+.....++.++.+.|+.++|..+|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            78888999999999999999999998643  54 4457889999999999999999999999874

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.52  E-value=6e-07  Score=76.42  Aligned_cols=99  Identities=8%  Similarity=-0.068  Sum_probs=70.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASR  524 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~  524 (660)
                      .+..+...+.+.|++++|...|+.+.+  --+.+...|..+..+|...|++++|...|++...  +.++..|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCI--YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            444555566666777777777776665  2333556667777777777777777777776543  445678888888888


Q ss_pred             HcCChHHHHHHHHHHHhcCCCCc
Q 048281          525 LHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       525 ~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      ..|++++|+..|++++++.|+++
T Consensus       116 ~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCHH
Confidence            88888888888888888888653

>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=98.52  E-value=7.1e-07  Score=74.78  Aligned_cols=98  Identities=10%  Similarity=0.011  Sum_probs=83.0

Q ss_pred             CChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 048281          479 PTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNI  556 (660)
Q Consensus       479 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  556 (660)
                      .+...+..+...+...|++++|...|++...  +.+...|..+..++...|++++|+..++++++++|+++..+..++.+
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            4566777888888888888888888877543  44677888899999999999999999999999999999999999999


Q ss_pred             HHhCCChHHHHHHHHHHHhC
Q 048281          557 YVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       557 ~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |...|++++|...+++..+.
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHH
Confidence            99999999999999988764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.51  E-value=4.8e-07  Score=78.73  Aligned_cols=94  Identities=13%  Similarity=0.080  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHh
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVA  559 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  559 (660)
                      ..+..+...|.+.|++++|+..|++...  +.+...|..+..+|...|++++|+..++++++++|+++..|..++.+|..
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   91 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARFD   91 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            4455555555556666666665555432  23455566666666666666666666666666666666666666666666


Q ss_pred             CCChHHHHHHHHHHHh
Q 048281          560 GGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       560 ~g~~~~a~~~~~~~~~  575 (660)
                      .|++++|...+++..+
T Consensus        92 ~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           92 MADYKGAKEAYEKGIE  107 (164)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHH
Confidence            6666666666666554

>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=98.51  E-value=6.2e-07  Score=79.13  Aligned_cols=127  Identities=10%  Similarity=-0.031  Sum_probs=96.2

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH-HhhcCCH--
Q 048281          421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM-LGRAGQL--  497 (660)
Q Consensus       421 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--  497 (660)
                      ...|++++|+..+++..+.. +.+...+..+...+...|++++|...|+.+.+.  .+.+...+..+..+ |...|++  
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            34577788888888877753 345667777778888888888888888888763  23456677778888 7788888  


Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchH
Q 048281          498 NEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       498 ~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                      ++|...++++..  +.+...|..+...+...|++++|+..++++++..|+++...
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  152 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRT  152 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHH
Confidence            899888887643  44677888999999999999999999999999999886543

>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=98.50  E-value=1.3e-06  Score=70.56  Aligned_cols=108  Identities=10%  Similarity=-0.022  Sum_probs=61.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASR  524 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~  524 (660)
                      .+..+...+...|++++|...++.+...  .+.+...+..+..+|...|++++|...+++...  +.+...|..+..++.
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            3444444555555555555555555542  222444555555555556666666555554322  234556666666777


Q ss_pred             HcCChHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 048281          525 LHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNI  556 (660)
Q Consensus       525 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  556 (660)
                      ..|++++|...++++++..|+++..+..++.+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            77777777777777777777666555555544

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.50  E-value=4.2e-07  Score=75.14  Aligned_cols=94  Identities=5%  Similarity=-0.106  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc-------hHHH
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG-------NYVL  552 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-------~~~~  552 (660)
                      ..+..+...+.+.|++++|++.|++...  +.+...|..+..+|...|++++|+..+++++++.|++..       +|..
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            3566777888888888888888887543  456778888899999999999999999999988776543       5677


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHh
Q 048281          553 MSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       553 l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ++.++...|++++|++.+++..+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            88888889999999999888765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.49  E-value=7.8e-06  Score=78.81  Aligned_cols=163  Identities=8%  Similarity=-0.082  Sum_probs=120.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCH------hHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--H
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSK---KDV------ASWNIMILGYGMDGQGKEALDMFSCMCEAKL---KPD--E  445 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~  445 (660)
                      ..+...+..+...|++++|.+.+....+   ...      ..+..+...+...|++++|+..+++..+...   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3445567778889999999888875431   111      2344566677888999999999999886421   122  3


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC-------CC-C
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-----IEHYTCVIDMLGRAGQLNEAYELALAMPN-------EA-N  512 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~-~  512 (660)
                      .+++.+...|...|++++|...++++.+.....|+     ..++..+...|.+.|++++|...+++...       .. -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            47888888999999999999999998732111222     25888999999999999999999987532       11 1


Q ss_pred             HHHHHHHHHHHHHcCChHHH-HHHHHHHHhc
Q 048281          513 PVVWRTLLAASRLHGNTDLA-EIAAQRVFQL  542 (660)
Q Consensus       513 ~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~~  542 (660)
                      ..+|..+..+|...|++++| ...+++++.+
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            56788899999999999999 7878888764

>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=98.48  E-value=7.9e-07  Score=80.14  Aligned_cols=171  Identities=8%  Similarity=-0.109  Sum_probs=104.4

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH
Q 048281          385 LMDMYTKCGSMRDAQMVFTKMSKK---DVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFL  461 (660)
Q Consensus       385 li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  461 (660)
                      .+......|+++.+.+.|+.....   ....+..+...+...|++++|+..|++..+.  .|+...+...          
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~----------   77 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ----------   77 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH----------
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh----------
Confidence            334444556666666666543321   3456677777788888888888888888774  2221100000          


Q ss_pred             HHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 048281          462 SQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRV  539 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  539 (660)
                       .    ...-..    ......+..+..+|.+.|++++|...+++...  +.+...|..+..+|...|++++|+..|+++
T Consensus        78 -~----~~~~~~----~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~a  148 (198)
T 2fbn_A           78 -I----LLDKKK----NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKA  148 (198)
T ss_dssp             -H----HHHHHH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             -h----HHHHHH----HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence             0    000000    00134677778888888888888888877543  456778999999999999999999999999


Q ss_pred             HhcCCCCcchHHHHHHHHHhCCChHHHH-HHHHHHHhC
Q 048281          540 FQLEPGHCGNYVLMSNIYVAGGKYEEVL-DIRHTMRQQ  576 (660)
Q Consensus       540 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~~  576 (660)
                      +++.|+++..+..++.++...++.+++. ..++.+...
T Consensus       149 l~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          149 ASLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHSTTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             HHHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999888887776 555555443

>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=98.47  E-value=1e-06  Score=72.59  Aligned_cols=111  Identities=8%  Similarity=-0.169  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHH
Q 048281          446 VTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAAS  523 (660)
Q Consensus       446 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~  523 (660)
                      ..+......+...|++++|...|++..+.  .+.+...|..+..+|.+.|++++|+..+++...  +.+...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            34555556667777777777777777652  334566777777778888888888887776543  44677888889999


Q ss_pred             HHcCChHHHHHHHHHHHhcC------CCCcchHHHHHHHHH
Q 048281          524 RLHGNTDLAEIAAQRVFQLE------PGHCGNYVLMSNIYV  558 (660)
Q Consensus       524 ~~~g~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~  558 (660)
                      ...|++++|+..++++++++      |.++.....+..+..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHH
Confidence            99999999999999999988      777766666665543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.46  E-value=7.6e-07  Score=75.27  Aligned_cols=105  Identities=10%  Similarity=-0.074  Sum_probs=78.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASR  524 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~  524 (660)
                      .+..+...+...|++++|...|+.+...  .+.+...|..+..+|.+.|++++|...|++...  +.++..|..+..++.
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            3444555677777888888888777662  334566777778888888888888888877543  456678888899999


Q ss_pred             HcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          525 LHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       525 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      ..|++++|+..+++++++.|+++......
T Consensus        98 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~  126 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARALAAAQPAHEALA  126 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCcchHHHH
Confidence            99999999999999999998887654443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.46  E-value=1.5e-06  Score=75.61  Aligned_cols=108  Identities=13%  Similarity=-0.048  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAA  522 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~  522 (660)
                      ...+..+...+...|++++|+..|+.+.+.  .+.+...|..+..+|.+.|++++|+..+++...  +.+...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            345556666677777777777777777662  233566777788888888888888888877543  4567889999999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCcchHHHHH
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMS  554 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  554 (660)
                      |...|++++|+..|+++++++|+++..+...+
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            99999999999999999999999988665544

>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=98.45  E-value=1.2e-06  Score=70.76  Aligned_cols=98  Identities=13%  Similarity=0.090  Sum_probs=88.4

Q ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 048281          480 TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIY  557 (660)
Q Consensus       480 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  557 (660)
                      ....+..+...+...|++++|...+++...  +.+...|..+...+...|++++|...++++++..|+++..+..++.++
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            345778888999999999999999998643  457888999999999999999999999999999999999999999999


Q ss_pred             HhCCChHHHHHHHHHHHhCC
Q 048281          558 VAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       558 ~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ...|++++|.+.+++..+..
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHhhHHHHHHHHHHHHHcC
Confidence            99999999999999987743

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.43  E-value=1.1e-06  Score=72.95  Aligned_cols=99  Identities=13%  Similarity=0.040  Sum_probs=89.6

Q ss_pred             CCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHH
Q 048281          478 VPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSN  555 (660)
Q Consensus       478 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  555 (660)
                      +.+...+..+...+.+.|++++|...+++...  +.+...|..+...+...|++++|+..++++++..|+++..+..++.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            34567888899999999999999999998643  4577899999999999999999999999999999999999999999


Q ss_pred             HHHhCCChHHHHHHHHHHHhC
Q 048281          556 IYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       556 ~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +|...|++++|.+.+++..+.
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHh
Confidence            999999999999999998764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.42  E-value=1.6e-06  Score=70.90  Aligned_cols=96  Identities=21%  Similarity=0.292  Sum_probs=87.7

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ...+..+...+...|++++|.+.++++..  +.+..+|..+...+...|++++|+..++++++..|+++..+..++.+|.
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            56788899999999999999999988653  4567889999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHhC
Q 048281          559 AGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       559 ~~g~~~~a~~~~~~~~~~  576 (660)
                      ..|++++|...++++.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            999999999999998764

>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=98.40  E-value=5.1e-06  Score=72.01  Aligned_cols=129  Identities=8%  Similarity=-0.091  Sum_probs=90.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      ..|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...++...+.  .+.+...+..+..+
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            456666777777888888888888777653 335666777777777888888888888887762  34456777788888


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHH--HHHHHHcCChHHHHHHHHHHHhc
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTL--LAASRLHGNTDLAEIAAQRVFQL  542 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l--~~~~~~~g~~~~A~~~~~~~~~~  542 (660)
                      |...|++++|...++++..  +.+...+..+  +..+...|++++|+..+.+...+
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  146 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSV  146 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHHH
Confidence            8888888888888877543  3344455333  33367778888888888776553

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.40  E-value=1.9e-06  Score=77.85  Aligned_cols=129  Identities=9%  Similarity=-0.026  Sum_probs=71.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CC-C----H
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRY---GVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN----EA-N----P  513 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~-~----~  513 (660)
                      .+..+...+...|++++|...+++..+..   +..+ ....+..+...|...|++++|.+.+++...    .+ +    .
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            34444444444445555444444443310   1111 123445555555556665555555544321    11 1    2


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCCc----chHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLE--PGHC----GNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ..+..+...+...|++++|+..+++++++.  .+++    ..+..++.++...|++++|.+.+++..+
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            346666777777777777777777777642  1221    2356778888888888888888777644

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.39  E-value=3.2e-06  Score=76.26  Aligned_cols=153  Identities=12%  Similarity=-0.002  Sum_probs=115.7

Q ss_pred             HhcCCHHHHHH---HHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCCH
Q 048281          390 TKCGSMRDAQM---VFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEA----KLKP-DEVTFVGVLSACSHSGFL  461 (660)
Q Consensus       390 ~~~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~  461 (660)
                      ...|++++|.+   .+..-......++..+...+...|++++|...+++..+.    +..| ...++..+...+...|++
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            45789999999   665533345678899999999999999999999998862    2122 235677777889999999


Q ss_pred             HHHHHHHHHhHHhcCCCC-----ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCCH----HHHHHHHHHHHHcCC
Q 048281          462 SQGREFLPLMESRYGVVP-----TIEHYTCVIDMLGRAGQLNEAYELALAMPN----EANP----VVWRTLLAASRLHGN  528 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~----~~~~~l~~~~~~~g~  528 (660)
                      ++|...+++..+...-.+     ....+..+...+...|++++|...+++...    .++.    .++..+...+...|+
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            999999999876321122     235678889999999999999999887542    2222    346788889999999


Q ss_pred             hHHHHHHHHHHHhc
Q 048281          529 TDLAEIAAQRVFQL  542 (660)
Q Consensus       529 ~~~A~~~~~~~~~~  542 (660)
                      +++|...+++++++
T Consensus       163 ~~~A~~~~~~al~~  176 (203)
T 3gw4_A          163 LLEAQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999886

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.37  E-value=3.1e-06  Score=73.36  Aligned_cols=65  Identities=14%  Similarity=0.075  Sum_probs=59.2

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          512 NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +...|..+..+|...|++++|+..++++++++|+++.+|..++.+|...|++++|...+++..+.
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            34678889999999999999999999999999999999999999999999999999999998774

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.35  E-value=4.4e-06  Score=70.82  Aligned_cols=108  Identities=14%  Similarity=-0.067  Sum_probs=63.8

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHH
Q 048281          448 FVGVLSACSHSGFLSQGREFLPLMESRYGVVPT----IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLA  521 (660)
Q Consensus       448 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~  521 (660)
                      +..+...+...|++++|...|+.+.+   ..|+    ...+..+..+|...|++++|...+++...  +.+...|..+..
T Consensus        31 ~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           31 LRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            33333444444444444444444432   1222    34455555555566666666665554322  335667777778


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          522 ASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       522 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ++...|++++|...+++++++.|+++..+..+..+..
T Consensus       108 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            8888888888888888888888887766666655543

>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=98.35  E-value=2.4e-06  Score=71.45  Aligned_cols=100  Identities=11%  Similarity=-0.120  Sum_probs=74.4

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHH
Q 048281          444 DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLA  521 (660)
Q Consensus       444 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~  521 (660)
                      +...+..+...+...|++++|...|+.+.+.  .+.+...+..+..+|...|++++|...+++...  +.+...|..+..
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            4556666666777777777777777777652  233456777777777778888888777776543  446678888888


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCC
Q 048281          522 ASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       522 ~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      ++...|++++|+..+++++++.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            899999999999999999988776

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.33  E-value=4.2e-06  Score=70.93  Aligned_cols=98  Identities=15%  Similarity=0.091  Sum_probs=88.8

Q ss_pred             CChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          479 PTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EAN----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       479 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      .+...+..+...+...|++++|.+.|++... .|+    ...|..+..+|...|++++|+..++++++..|+++..+..+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            3567888899999999999999999998654 455    67889999999999999999999999999999999999999


Q ss_pred             HHHHHhCCChHHHHHHHHHHHhC
Q 048281          554 SNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       554 ~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +.+|...|++++|.+.+++..+.
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHc
Confidence            99999999999999999998764

>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=98.32  E-value=3.1e-06  Score=71.22  Aligned_cols=63  Identities=11%  Similarity=-0.039  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc-------CCCCcchH----HHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQL-------EPGHCGNY----VLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ..|..+..++...|++++|+..+++++++       +|+++..|    ...+.++...|++++|+..|++..+.
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            48999999999999999999999999999       99999999    99999999999999999999998763

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.31  E-value=3.4e-06  Score=69.63  Aligned_cols=91  Identities=19%  Similarity=0.115  Sum_probs=61.5

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCC-CC-CH---HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---cchHHHHHHHH
Q 048281          486 CVIDMLGRAGQLNEAYELALAMPN-EA-NP---VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH---CGNYVLMSNIY  557 (660)
Q Consensus       486 ~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~  557 (660)
                      .+...+...|++++|...|+++.. .| +.   ..+..+..++...|++++|+..++++++..|++   +..+..++.+|
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            345556666777777766665432 22 22   366667777777777777777777777777777   56677777777


Q ss_pred             HhCCChHHHHHHHHHHHhC
Q 048281          558 VAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       558 ~~~g~~~~a~~~~~~~~~~  576 (660)
                      ...|++++|...++++.+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            7777777777777777653

>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=98.30  E-value=6.9e-07  Score=80.57  Aligned_cols=95  Identities=11%  Similarity=-0.067  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCC----------------HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPN--EAN----------------PVVWRTLLAASRLHGNTDLAEIAAQRVFQLE  543 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  543 (660)
                      ..+..+...+.+.|++++|...|++...  +.+                ...|..+..+|...|++++|+..++++++++
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3455566666777777777777765432  112                2688889999999999999999999999999


Q ss_pred             CCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          544 PGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       544 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |+++..+..++.+|...|++++|.+.+++..+.
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            999999999999999999999999999998764

>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=98.30  E-value=5.1e-05  Score=73.35  Aligned_cols=111  Identities=6%  Similarity=-0.032  Sum_probs=60.6

Q ss_pred             HHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC-------HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCh----
Q 048281          463 QGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ-------LNEAYELALAMPN--EANPVVWRTLLAASRLHGNT----  529 (660)
Q Consensus       463 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~----  529 (660)
                      ++++.++.+++.  ..-|...|+....++.+.++       ++++++.++++..  +.|...|+-+-..+.+.|+.    
T Consensus       185 eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~  262 (349)
T 3q7a_A          185 SELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPI  262 (349)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGG
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccc
Confidence            555555555542  23344455555555555544       4555555554332  34556666655555555543    


Q ss_pred             ----------------HHHHHHHHHHHhcC------CCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          530 ----------------DLAEIAAQRVFQLE------PGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       530 ----------------~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                                      .........+....      +.++.+...|+++|.+.|+.++|.++++.+.+
T Consensus       263 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          263 LPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence                            11112222221111      34556777899999999999999999999854

>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=9.8e-06  Score=66.70  Aligned_cols=116  Identities=12%  Similarity=-0.081  Sum_probs=70.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      ..|..+...+...|++++|+..|++..... +.+...+..+...+...|++++|...++.+.+.  .+.+...+..+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHHHHH
Confidence            345555666666666666666666666542 234555666666666667777777777666652  23345566666667


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCh
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNT  529 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~  529 (660)
                      |.+.|++++|...+++...  +.+...+..+..++...|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            7777777777776665432  33455666666666665553

>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=98.28  E-value=0.00036  Score=67.46  Aligned_cols=230  Identities=10%  Similarity=0.059  Sum_probs=157.7

Q ss_pred             HHcCChHHHHHHHHHHhhcCCCCCHH-HHHHHHHHHhccc-chHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHH
Q 048281          312 EQCGNHDGTLRLFDRMLSAGFQPDLV-TFSTVLPACSHLA-ALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMY  389 (660)
Q Consensus       312 ~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~  389 (660)
                      ...+..++|+++++++...  .|+.. .++.--..+...| .++++...++.++...++.         ..+|+.-...+
T Consensus        65 ~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKn---------y~aW~hR~wlL  133 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKS---------YQVWHHRLLLL  133 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCC---------HHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCc---------HHHHHHHHHHH
Confidence            3344556788888887765  45444 3344334444556 4788888888887776655         67777776666


Q ss_pred             Hhc-C-CHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048281          390 TKC-G-SMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGK--------EALDMFSCMCEAKLKPDEVTFVGVLSACS  456 (660)
Q Consensus       390 ~~~-g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  456 (660)
                      .+. + +.++++++++.+.+   +|..+|+.-.-.+.+.|..+        ++++.++++++.. .-|...|+.-...+.
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~  212 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRV  212 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHT
T ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            666 6 78888898888774   46677777666666656665        8999999999874 446677777777777


Q ss_pred             ccCC-------HHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCH--------------------HHHHHHHHhCCC
Q 048281          457 HSGF-------LSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQL--------------------NEAYELALAMPN  509 (660)
Q Consensus       457 ~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~~  509 (660)
                      +.+.       ++++++.+++++.  -.+-|...|+-+-..+.+.|+.                    .+..++..++..
T Consensus       213 ~l~~~~~~~~~~~eELe~~~~aI~--~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  290 (349)
T 3q7a_A          213 SRPGAETSSRSLQDELIYILKSIH--LIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPS  290 (349)
T ss_dssp             TSTTCCCCHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC
T ss_pred             hccccccchHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHh
Confidence            7765       6888999988886  3455677787777777776653                    344444444432


Q ss_pred             --------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHH-hcCCCCcchHHHHHH
Q 048281          510 --------EANPVVWRTLLAASRLHGNTDLAEIAAQRVF-QLEPGHCGNYVLMSN  555 (660)
Q Consensus       510 --------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~p~~~~~~~~l~~  555 (660)
                              .+.+..+..|+..|...|+.++|.++++.+. +.+|-....|...+.
T Consensus       291 ~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~~  345 (349)
T 3q7a_A          291 DPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRRR  345 (349)
T ss_dssp             -CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             cccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHHH
Confidence                    2566788889999999999999999999987 558866555554443

>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=6.2e-06  Score=84.97  Aligned_cols=144  Identities=13%  Similarity=-0.033  Sum_probs=102.0

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      ...|..+...|.+.|++++|+..|++.++.  .|+...+           ..+...+ ...        .....|..+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~-----------~~~~~~~-~~~--------~~~~~~~nla~  325 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGL-----------SEKESKA-SES--------FLLAAFLNLAM  325 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSC-----------CHHHHHH-HHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccC-----------ChHHHHH-HHH--------HHHHHHHHHHH
Confidence            456777777777888888888888877763  2221100           0011100 000        11357788888


Q ss_pred             HHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHH
Q 048281          490 MLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVL  567 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  567 (660)
                      +|.+.|++++|+..++++..  +.+...|..+..+|...|++++|+..|+++++++|++..++..++.++...|+++++.
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999998888654  4567889999999999999999999999999999999999999999999999999886


Q ss_pred             H-HHHHHHh
Q 048281          568 D-IRHTMRQ  575 (660)
Q Consensus       568 ~-~~~~~~~  575 (660)
                      + .++.|..
T Consensus       406 ~~~~~~~f~  414 (457)
T 1kt0_A          406 RRIYANMFK  414 (457)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHHh
Confidence            4 4555543

>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=1.6e-06  Score=89.75  Aligned_cols=116  Identities=10%  Similarity=-0.061  Sum_probs=78.1

Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHH
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~  531 (660)
                      .+.+.|++++|.+.++++.+.  .+.+...|..+..+|.+.|++++|.+.+++...  +.+...|..+..+|...|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            345566677777777666652  233456667777777777777777777766432  3456677777888888888888


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHH--HHhCCChHHHHHHHH
Q 048281          532 AEIAAQRVFQLEPGHCGNYVLMSNI--YVAGGKYEEVLDIRH  571 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~  571 (660)
                      |++.+++++++.|+++..+..++.+  +.+.|++++|.+.++
T Consensus        93 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            8888888888888877777777777  777788888887776

>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=98.22  E-value=4e-06  Score=69.20  Aligned_cols=95  Identities=9%  Similarity=0.073  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------cchHHH
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH-------CGNYVL  552 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~  552 (660)
                      ..+..+...+...|++++|...+++...  +.+...+..+...+...|++++|...++++++..|++       +..+..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            4567777788888888888888877543  4567788888999999999999999999999987765       778899


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhC
Q 048281          553 MSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       553 l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ++.+|...|++++|.+.+++..+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            999999999999999999998774

>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=98.22  E-value=1.4e-05  Score=78.65  Aligned_cols=94  Identities=13%  Similarity=0.007  Sum_probs=56.8

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC--CC-C---------------HhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS--KK-D---------------VASWNIMILGYGMDGQGKEALDMFSCMCEAK  440 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-~---------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  440 (660)
                      ...+..+...|.+.|++++|...|++..  .| +               ...|..+..+|.+.|++++|+..+++.++..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            7889999999999999999999999765  22 2               2455555555555555555555555555432


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 048281          441 LKPDEVTFVGVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       441 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                       +.+...+..+..++...|++++|...|+.+.+
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  258 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  258 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             22333444444444444444444444444443

>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=98.22  E-value=0.00011  Score=70.59  Aligned_cols=179  Identities=10%  Similarity=0.003  Sum_probs=133.3

Q ss_pred             HHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC-HHHHHHHH
Q 048281          395 MRDAQMVFTKMS---KKDVASWNIMILGYGMDGQ--GKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGF-LSQGREFL  468 (660)
Q Consensus       395 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~-~~~a~~~~  468 (660)
                      +++++.+++.+.   .++..+|+.-...+...++  +++++.++.++.+.. +-|...|+.-...+...|. .+++++.+
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   4577889888888888884  899999999999874 4466777776666777787 58999999


Q ss_pred             HHhHHhcCCCCChHHHHHHHHHHhhc--------------CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc------
Q 048281          469 PLMESRYGVVPTIEHYTCVIDMLGRA--------------GQLNEAYELALAMPN--EANPVVWRTLLAASRLH------  526 (660)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~------  526 (660)
                      ..+++.  .+-|...|+....++.+.              +.++++++.+.+...  +.|...|+-+-..+...      
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  455677777776666655              457888888887543  56788888666655554      


Q ss_pred             -----CChHHHHHHHHHHHhcCCCCcchHHHHHHHH---HhCCChHHHHHHHHHHHhC
Q 048281          527 -----GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIY---VAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       527 -----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~---~~~g~~~~a~~~~~~~~~~  576 (660)
                           +.++++++.+++++++.|++.-.+..++.+.   ...|..++....+.++.+.
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence                 4578999999999999999855444443322   2467888999999998763

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.21  E-value=4.8e-06  Score=67.95  Aligned_cols=97  Identities=8%  Similarity=-0.103  Sum_probs=66.8

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc
Q 048281          449 VGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLH  526 (660)
Q Consensus       449 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~  526 (660)
                      ..+...+.+.|++++|...++.+.+.  .+.+...|..+..++.+.|++++|+..+++...  +.+...|..+..++...
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            34445666777777777777777662  334566777777777788888888887777543  34567788888888888


Q ss_pred             CChHHHHHHHHHHHhcCCCCc
Q 048281          527 GNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       527 g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      |++++|+..++++++++|+++
T Consensus        99 g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHC------
T ss_pred             CCHHHHHHHHHHHHHhCcCCC
Confidence            888888888888888888653

>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=98.21  E-value=5.7e-06  Score=68.23  Aligned_cols=108  Identities=6%  Similarity=-0.128  Sum_probs=63.3

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--C---CC----HHHHHH
Q 048281          448 FVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--E---AN----PVVWRT  518 (660)
Q Consensus       448 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~---~~----~~~~~~  518 (660)
                      +..+...+...|++++|...++.+.+.  .+.+...+..+..+|...|++++|...++++..  +   ++    ..+|..
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  223344555555555555555555555554322  1   11    556777


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      +..++...|++++|...++++++..| ++.....+..+..
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            88888888888888888888888877 4555555555443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.20  E-value=5.7e-06  Score=66.04  Aligned_cols=99  Identities=18%  Similarity=0.053  Sum_probs=62.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CC--CHHHHHHHHHH
Q 048281          447 TFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EA--NPVVWRTLLAA  522 (660)
Q Consensus       447 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~--~~~~~~~l~~~  522 (660)
                      .+..+...+...|++++|...++.+.+.  .+.+...+..+..+|...|++++|...+++...  +.  +...|..+..+
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            3444455555666666666666666552  233445566666666666777777666665432  23  46677777777


Q ss_pred             HHHc-CChHHHHHHHHHHHhcCCCCc
Q 048281          523 SRLH-GNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       523 ~~~~-g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      +... |++++|++.++++++..|.++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            7777 888888888888877777653

>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=98.20  E-value=6.6e-06  Score=85.13  Aligned_cols=114  Identities=8%  Similarity=-0.108  Sum_probs=51.2

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHH
Q 048281          421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEA  500 (660)
Q Consensus       421 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  500 (660)
                      .+.|++++|++.|++..+.. +.+...+..+..++.+.|++++|.+.++++.+  -.+.+...+..+..+|.+.|++++|
T Consensus        17 ~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           17 FKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIE--LDKKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            34455555555555555431 12234444455555555555555555555544  1222344555555555555555555


Q ss_pred             HHHHHhCCC--CCCHHHHHHHHHH--HHHcCChHHHHHHHH
Q 048281          501 YELALAMPN--EANPVVWRTLLAA--SRLHGNTDLAEIAAQ  537 (660)
Q Consensus       501 ~~~~~~~~~--~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  537 (660)
                      .+.+++...  +.+...+..+..+  +...|++++|++.++
T Consensus        94 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            555554322  1222333333333  455555555555555

>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=7.2e-06  Score=78.41  Aligned_cols=113  Identities=11%  Similarity=-0.141  Sum_probs=90.6

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHH
Q 048281          444 DEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLA  521 (660)
Q Consensus       444 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~  521 (660)
                      +...+..+...+...|++++|...|+.+.+.  .+.+...|..+..+|.+.|++++|...+++...  +.+...+..+..
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            4566777788888999999999999998873  334678888899999999999999999988654  456778888999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          522 ASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       522 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ++...|++++|+..++++++++|+++..+...++...
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  117 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL  117 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH
Confidence            9999999999999999999998877655554444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.18  E-value=2.1e-05  Score=64.77  Aligned_cols=103  Identities=11%  Similarity=-0.025  Sum_probs=70.0

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCCCh---HHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCC---HHHHHHHHHH
Q 048281          451 VLSACSHSGFLSQGREFLPLMESRYGVVPTI---EHYTCVIDMLGRAGQLNEAYELALAMPN--EAN---PVVWRTLLAA  522 (660)
Q Consensus       451 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~~l~~~  522 (660)
                      +...+...|++++|...|+.+.+.  .+.+.   ..+..+..+|.+.|++++|...++++..  +.+   +..+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            344555667777777777776653  11222   4666677777777777777777766532  223   5567788888


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCcchHHHHHH
Q 048281          523 SRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSN  555 (660)
Q Consensus       523 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  555 (660)
                      +...|++++|...++++++..|+++........
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~  118 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQYPGSDAARVAQER  118 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHH
Confidence            899999999999999999999987655444433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.16  E-value=1.7e-06  Score=70.16  Aligned_cols=82  Identities=16%  Similarity=0.089  Sum_probs=52.5

Q ss_pred             cCCHHHHHHHHHhCCCC----C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHH
Q 048281          494 AGQLNEAYELALAMPNE----A-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       494 ~g~~~~A~~~~~~~~~~----~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  568 (660)
                      .|++++|+..|++....    | +...|..+..+|...|++++|+..+++++++.|+++..+..++.+|...|++++|..
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            45556666666554321    2 234666667777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHh
Q 048281          569 IRHTMRQ  575 (660)
Q Consensus       569 ~~~~~~~  575 (660)
                      .+++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.15  E-value=4.6e-06  Score=72.21  Aligned_cols=76  Identities=20%  Similarity=0.079  Sum_probs=62.4

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc-chHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC-GNYVLMSNI  556 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~  556 (660)
                      ...|..+..+|.+.|++++|+..+++...  +.+...|..+..+|...|++++|+..++++++++|+++ .....+..+
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~  141 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIV  141 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            45788888899999999999998887643  45678999999999999999999999999999999987 434444433

>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=98.12  E-value=0.00065  Score=65.35  Aligned_cols=230  Identities=11%  Similarity=0.042  Sum_probs=155.9

Q ss_pred             HcCChH-HHHHHHHHHhhcCCCCCHHHH-HHHHHHHhccc----------chHHHHHHHHHHHHhCccCCCCCCCCcchh
Q 048281          313 QCGNHD-GTLRLFDRMLSAGFQPDLVTF-STVLPACSHLA----------ALMHGRQIHGYIVVNGLAKNGSCKDIDDVF  380 (660)
Q Consensus       313 ~~g~~~-~a~~~~~~m~~~g~~p~~~t~-~~ll~~~~~~~----------~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  380 (660)
                      +.|.++ +|+.++..+...  .|+..|. +.--..+...+          .++.+..+++.+....+..         ..
T Consensus        41 ~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKn---------y~  109 (331)
T 3dss_A           41 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKS---------YG  109 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTC---------HH
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCC---------HH
Confidence            344443 567777776654  4544332 21111111112          2567788888888776655         78


Q ss_pred             HHHHHHHHHHhcCC--HHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048281          381 MNNALMDMYTKCGS--MRDAQMVFTKMS---KKDVASWNIMILGYGMDGQ-GKEALDMFSCMCEAKLKPDEVTFVGVLSA  454 (660)
Q Consensus       381 ~~~~li~~~~~~g~--~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  454 (660)
                      +|+.-.-.+.+.|+  ++++..+++.+.   ..|..+|+.-.-.+...|. .+++++.+.++++.. +-|...|+.....
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            88888778888884  899999999887   4577899888888888888 589999999999875 3456666665554


Q ss_pred             Hhcc--------------CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc-----------CCHHHHHHHHHhCCC
Q 048281          455 CSHS--------------GFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA-----------GQLNEAYELALAMPN  509 (660)
Q Consensus       455 ~~~~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~  509 (660)
                      +.+.              +.++++++.+..++.  -.+-|...|+-+-..+.+.           +.++++++.++++..
T Consensus       189 l~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~--~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle  266 (331)
T 3dss_A          189 LPQLHPQPDSGPQGRLPENVLLKELELVQNAFF--TDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQE  266 (331)
T ss_dssp             HHHHSCCC------CCCHHHHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhccccccccccchHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHh
Confidence            4433              457889999999887  3455667777665555555           457888888888654


Q ss_pred             -CCCHHHHHHHHHHH-----HHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 048281          510 -EANPVVWRTLLAAS-----RLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIY  557 (660)
Q Consensus       510 -~~~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  557 (660)
                       .|+. .|..+..+.     ...|..++....+.++.+++|....-|..+...+
T Consensus       267 ~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~  319 (331)
T 3dss_A          267 LEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKF  319 (331)
T ss_dssp             HCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             hCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence             4554 454333222     2357788899999999999998766666554433

>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=98.12  E-value=1.1e-05  Score=80.38  Aligned_cols=138  Identities=5%  Similarity=-0.120  Sum_probs=102.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      ..|..+...+.+.|++++|+..|++.++.  .|+..          .....++       ..+  ..+.+...|..+..+
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~~~-------~~~--~~~~~~~~~~nla~~  282 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAEDAD-------GAK--LQPVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCHHH-------HGG--GHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccChHH-------HHH--HHHHHHHHHHHHHHH
Confidence            45677777788888888888888877752  11100          0001111       110  111234678889999


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHH
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  568 (660)
                      |.+.|++++|++.+++...  +.+...|..+..+|...|++++|+..++++++++|+++..+..+..++...++.+++.+
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988654  45678899999999999999999999999999999999999999999998888887765


Q ss_pred             H
Q 048281          569 I  569 (660)
Q Consensus       569 ~  569 (660)
                      .
T Consensus       363 ~  363 (370)
T 1ihg_A          363 A  363 (370)
T ss_dssp             C
T ss_pred             H
Confidence            3

>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=98.12  E-value=1.3e-05  Score=66.06  Aligned_cols=105  Identities=8%  Similarity=-0.119  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh-HHHHHHHHH
Q 048281          412 SWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI-EHYTCVIDM  490 (660)
Q Consensus       412 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~  490 (660)
                      ++..+...+.+.|++++|+..|++.++.. +-+...|..+..+|...|++++|++.++.+++.   .|+. ..+..    
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~----   81 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEV---GRETRADYKL----   81 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHHTTCCHHH----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHh---CcccchhhHH----
Confidence            45555555555666666666666555532 223344445555555555555555555555431   0000 00000    


Q ss_pred             HhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          491 LGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                                           -..+|..+..++...|++++|++.|+++++..|+
T Consensus        82 ---------------------~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           82 ---------------------IAKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             ---------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             ---------------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence                                 0134566677777788888888888888777664

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.11  E-value=2e-05  Score=67.62  Aligned_cols=93  Identities=12%  Similarity=0.026  Sum_probs=58.9

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC----CC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC------Ccc
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN----EA----NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG------HCG  548 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~------~~~  548 (660)
                      .+..+...|...|++++|.+.+++...    .+    ...++..+...+...|++++|...++++++..+.      .+.
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            344444455555555555555444321    01    1345666777778888888888888887765211      134


Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          549 NYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       549 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .+..++.+|...|++++|.+.+++..+
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            677888888888999999888887754

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.10  E-value=4.1e-06  Score=82.48  Aligned_cols=147  Identities=11%  Similarity=-0.001  Sum_probs=81.3

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      ...|..+...+.+.|++++|+..|++.+..  .|+...       +...++.+++...+   .        ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHHH
Confidence            456777788888889999999999988874  455432       22333333333221   1        136778888


Q ss_pred             HHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHH-HhCCChHHH
Q 048281          490 MLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIY-VAGGKYEEV  566 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~a  566 (660)
                      +|.+.|++++|+..+++...  +.+...|..+..+|...|++++|+..|+++++++|+++..+..+..+. ...+..+++
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            88889999999888887643  446778888888999999999999999999999998888888888774 445667777


Q ss_pred             HHHHHHHHhC
Q 048281          567 LDIRHTMRQQ  576 (660)
Q Consensus       567 ~~~~~~~~~~  576 (660)
                      ...+++|...
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            8888877654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.10  E-value=2.2e-06  Score=69.51  Aligned_cols=92  Identities=9%  Similarity=-0.027  Sum_probs=66.8

Q ss_pred             cCCHHHHHHHHHHhHHhcC--CCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHH
Q 048281          458 SGFLSQGREFLPLMESRYG--VVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAE  533 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~  533 (660)
                      .|++++|+..|+++.+. +  -+.+...+..+..+|.+.|++++|...+++...  +.+...+..+..++...|++++|+
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            46677777777777652 2  123346677788888888888888888877543  445778888889999999999999


Q ss_pred             HHHHHHHhcCCCCcchH
Q 048281          534 IAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       534 ~~~~~~~~~~p~~~~~~  550 (660)
                      ..++++++..|+++...
T Consensus        82 ~~~~~al~~~p~~~~~~   98 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQ   98 (117)
T ss_dssp             HHHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHHhCCCcHHHH
Confidence            99999999988886544

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.09  E-value=5e-05  Score=77.75  Aligned_cols=189  Identities=7%  Similarity=-0.128  Sum_probs=139.1

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCC--C---C---------------HhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCC
Q 048281          386 MDMYTKCGSMRDAQMVFTKMSK--K---D---------------VASWNIMILGYGMDGQGKEALDMFSCMCEAK-LKPD  444 (660)
Q Consensus       386 i~~~~~~g~~~~A~~~~~~~~~--~---~---------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~  444 (660)
                      ...+.+.|++++|.+.|..+.+  +   +               ..++..++..|...|++++|.+.+.++...- ..++
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            4567788999999999987652  1   0               1247789999999999999999999887531 1122


Q ss_pred             HH----HHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-------
Q 048281          445 EV----TFVGVLSACSHSGFLSQGREFLPLMESRY---GVVP-TIEHYTCVIDMLGRAGQLNEAYELALAMPN-------  509 (660)
Q Consensus       445 ~~----~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------  509 (660)
                      ..    +.+.+-..+...|+.++|..++.......   +..+ ...++..+...|...|++++|..+++++..       
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    22233334556789999999998876421   2222 246788999999999999999999876421       


Q ss_pred             CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC---CCC----cchHHHHHHHHHhCCChHHHHHHHHHHH
Q 048281          510 EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLE---PGH----CGNYVLMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       510 ~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---p~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      ++ ...++..++..|...|++++|...+++++...   ++.    ...+..++.++...|++++|...+....
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            12 24578889999999999999999999998763   222    2356677888889999999998887664

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.08  E-value=1.2e-05  Score=79.06  Aligned_cols=150  Identities=7%  Similarity=-0.043  Sum_probs=84.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK--KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACS  456 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  456 (660)
                      ...+..+...+.+.|++++|...|++...  |+..       .+...++..++...+.          ...|..+..++.
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            67788889999999999999999998652  2221       1223333444433221          136777888899


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH-HHHcCChHHHH
Q 048281          457 HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAA-SRLHGNTDLAE  533 (660)
Q Consensus       457 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~-~~~~g~~~~A~  533 (660)
                      +.|++++|+..++.+++.  .+.+...|..+..+|...|++++|...|++...  +.+...+..+... ....+..+.+.
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            999999999999999873  345678899999999999999999999999765  3345566666655 34456788899


Q ss_pred             HHHHHHHhcCCCCc
Q 048281          534 IAAQRVFQLEPGHC  547 (660)
Q Consensus       534 ~~~~~~~~~~p~~~  547 (660)
                      ..|++++...|+++
T Consensus       320 ~~~~~~l~~~p~~~  333 (338)
T 2if4_A          320 EMYKGIFKGKDEGG  333 (338)
T ss_dssp             --------------
T ss_pred             HHHHHhhCCCCCCC
Confidence            99999999988765

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.08  E-value=1.6e-05  Score=62.15  Aligned_cols=67  Identities=15%  Similarity=0.231  Sum_probs=61.8

Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          510 EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       510 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +.++..|..+..+|...|++++|+..|+++++++|+++..|..++.+|...|++++|.+.+++..+.
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4567889999999999999999999999999999999999999999999999999999999988664

>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=98.04  E-value=0.00016  Score=76.08  Aligned_cols=171  Identities=8%  Similarity=-0.069  Sum_probs=140.1

Q ss_pred             cCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 048281          392 CGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQ----------GKEALDMFSCMCEAKLKPDEVTFVGVLSACSHS  458 (660)
Q Consensus       392 ~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  458 (660)
                      ....++|.+.++.+.   ..+..+|+.-..++...|+          ++++++.++++.+.. +-+..+|..-...+.+.
T Consensus        42 ~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           42 GELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            334567888888876   3456788887777777777          899999999999864 33566777777778888


Q ss_pred             C--CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC-CHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHc-------
Q 048281          459 G--FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG-QLNEAYELALAMPN--EANPVVWRTLLAASRLH-------  526 (660)
Q Consensus       459 g--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~-------  526 (660)
                      +  +++++++.++.+.+.  .+-+...|+.-..++.+.| .++++++.++++..  +.+...|+.....+...       
T Consensus       121 ~~~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            8  679999999999983  4557788888888888889 89999999999765  45788999988887774       


Q ss_pred             -------CChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHH
Q 048281          527 -------GNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEE  565 (660)
Q Consensus       527 -------g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  565 (660)
                             +.++++++.+.++++.+|++..+|..+..++.+.++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                   457999999999999999999999999999999988655

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.04  E-value=1.5e-06  Score=69.65  Aligned_cols=93  Identities=15%  Similarity=-0.029  Sum_probs=75.0

Q ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------cchHH
Q 048281          480 TIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH------CGNYV  551 (660)
Q Consensus       480 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~  551 (660)
                      +...+..+...+.+.|++++|.+.|++...  +.+...|..+..++...|++++|+..+++++++.|++      ...+.
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            455677788888888999999888887543  4567889999999999999999999999999999988      66777


Q ss_pred             HHHHHHHhCCChHHHHHHHHH
Q 048281          552 LMSNIYVAGGKYEEVLDIRHT  572 (660)
Q Consensus       552 ~l~~~~~~~g~~~~a~~~~~~  572 (660)
                      .++.++...|++++|...+++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHHH
Confidence            888888887777766554443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.00  E-value=2.8e-05  Score=66.71  Aligned_cols=131  Identities=11%  Similarity=0.005  Sum_probs=73.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC----hHH
Q 048281          413 WNIMILGYGMDGQGKEALDMFSCMCEAKLK-PD----EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT----IEH  483 (660)
Q Consensus       413 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~  483 (660)
                      +..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|...++...+...-.++    ...
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            344444455555555555555554432100 11    124444555556666666666666665442111111    345


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCCC----CC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 048281          484 YTCVIDMLGRAGQLNEAYELALAMPN----EA----NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLE  543 (660)
Q Consensus       484 ~~~l~~~~~~~g~~~~A~~~~~~~~~----~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  543 (660)
                      +..+...+...|++++|.+.+++...    ..    ...++..+...+...|++++|...+++++++.
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            56666667777777777776665421    11    13466777888888999999999998887763

>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=4.2e-05  Score=78.68  Aligned_cols=65  Identities=8%  Similarity=-0.022  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          513 PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       513 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ...|..+..+|.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...+++..+..
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            57889999999999999999999999999999999999999999999999999999999998753

>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=97.98  E-value=3.4e-05  Score=76.74  Aligned_cols=114  Identities=6%  Similarity=-0.067  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASR  524 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~  524 (660)
                      ...+..+...+.+.|++++|+..|+++++..   +..      .    .....+++..     ..+.+..+|..+..+|.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~------~----~~~~~~~~~~-----~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGS------R----AAAEDADGAK-----LQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHH------H----HHSCHHHHGG-----GHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcC------c----cccChHHHHH-----HHHHHHHHHHHHHHHHH
Confidence            3445666667777777777777777776520   000      0    0011111111     01235678899999999


Q ss_pred             HcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          525 LHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       525 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +.|++++|+..++++++++|+++.++..++.+|...|++++|...+++..+.
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            9999999999999999999999999999999999999999999999998774

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.96  E-value=2.4e-05  Score=59.66  Aligned_cols=81  Identities=21%  Similarity=0.210  Sum_probs=64.7

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ...+..+...+...|++++|...+++...  +.+...|..+..++...|++++|+..++++++++|+++..+..++.++.
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            45667777778888888888888876533  3466788888889999999999999999999999998888888888876


Q ss_pred             hCC
Q 048281          559 AGG  561 (660)
Q Consensus       559 ~~g  561 (660)
                      ..|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.96  E-value=3.8e-05  Score=78.84  Aligned_cols=123  Identities=11%  Similarity=0.045  Sum_probs=90.1

Q ss_pred             HhccCCHHHHHHHHHHhHHhc--CC---CCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCCC---------CCCH-HHHHH
Q 048281          455 CSHSGFLSQGREFLPLMESRY--GV---VPT-IEHYTCVIDMLGRAGQLNEAYELALAMPN---------EANP-VVWRT  518 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~--~~---~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~-~~~~~  518 (660)
                      +..+|++++|..++++..+..  -+   .|+ ..+++.|..+|...|++++|..++++...         .|+. .+++.
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            445677777777776665421  11   122 35677788888888888888777766421         2333 47888


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhc-----CCCCcc---hHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          519 LLAASRLHGNTDLAEIAAQRVFQL-----EPGHCG---NYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       519 l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      |...|...|++++|+.++++++++     .|++|.   ....+..++.++|++++|..+++++++.-
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999873     777764   44578888999999999999999997643

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.94  E-value=3.1e-05  Score=65.12  Aligned_cols=71  Identities=14%  Similarity=0.028  Sum_probs=50.5

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC--------CCC-CHHHH----HHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMP--------NEA-NPVVW----RTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN  549 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~-~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  549 (660)
                      .|..+..++.+.|++++|+..+++..        ..| +...|    .....++...|++++|+..|+++++++|++...
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            45555555555555555555554422        134 45688    899999999999999999999999999988765


Q ss_pred             HHHH
Q 048281          550 YVLM  553 (660)
Q Consensus       550 ~~~l  553 (660)
                      +.-+
T Consensus       139 ~~~~  142 (159)
T 2hr2_A          139 TPGK  142 (159)
T ss_dssp             CTTH
T ss_pred             HHHH
Confidence            4433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.91  E-value=2e-05  Score=63.50  Aligned_cols=77  Identities=14%  Similarity=0.033  Sum_probs=64.5

Q ss_pred             HHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          500 AYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       500 A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |.+.|++...  +.+...|..+...|...|++++|+..++++++++|+++..+..++.+|...|++++|...+++..+.
T Consensus         4 a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            4 ITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4555554322  4567788899999999999999999999999999999999999999999999999999999988664

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.90  E-value=0.00013  Score=74.46  Aligned_cols=159  Identities=11%  Similarity=0.011  Sum_probs=120.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKLKPD----------------EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT  480 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~  480 (660)
                      ...+.+.|++++|++.|.++.+......                ...+..+...|...|++++|.+++..+....+..++
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            3456788999999999999987532211                124677888999999999999999998764333333


Q ss_pred             h----HHHHHHHHHHhhcCCHHHHHHHHHhCCC-------CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc------
Q 048281          481 I----EHYTCVIDMLGRAGQLNEAYELALAMPN-------EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQL------  542 (660)
Q Consensus       481 ~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------  542 (660)
                      .    .+.+.+...+...|+.++|..+++....       .+ -..++..+...+...|++++|...++++...      
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            2    2344455566678999999998876431       22 2457888999999999999999999998774      


Q ss_pred             CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          543 EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       543 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .|.....+..++.+|...|++++|..++++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            222346788999999999999999999998754

>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=97.82  E-value=1.1e-05  Score=67.80  Aligned_cols=85  Identities=7%  Similarity=-0.033  Sum_probs=67.6

Q ss_pred             hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCC----------hHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC
Q 048281          493 RAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGN----------TDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       493 ~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  560 (660)
                      +.+.+++|.+.+++...  +.+...|..+..++...++          +++|+..|+++++++|+++.+|..++.+|...
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            45556667766666432  4466677777777776665          56999999999999999999999999999987


Q ss_pred             C-----------ChHHHHHHHHHHHhCC
Q 048281          561 G-----------KYEEVLDIRHTMRQQN  577 (660)
Q Consensus       561 g-----------~~~~a~~~~~~~~~~~  577 (660)
                      |           ++++|++.|++..+..
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            5           8999999999998753

>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=97.77  E-value=0.00029  Score=58.74  Aligned_cols=111  Identities=5%  Similarity=-0.142  Sum_probs=67.7

Q ss_pred             CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHH
Q 048281          460 FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRL----HGNTDLAEIA  535 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~  535 (660)
                      ++++|.++|+...+. + .|+..    |..+|...+.+++|.+.|++.....++..+..|...|..    .++.++|...
T Consensus        10 d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A           10 DLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            455555566555552 3 22222    555555555566666666655444566666666666666    5677777777


Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHh----CCChHHHHHHHHHHHhCCC
Q 048281          536 AQRVFQLEPGHCGNYVLMSNIYVA----GGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       536 ~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  578 (660)
                      |+++.+.  .++..+..|+.+|..    .+++++|.+++++..+.|.
T Consensus        84 ~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           84 YSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            7776664  455667777777776    6777777777777766553

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.72  E-value=0.0002  Score=54.57  Aligned_cols=69  Identities=16%  Similarity=0.145  Sum_probs=62.0

Q ss_pred             CCCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          510 EANPVVWRTLLAASRLHGN---TDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       510 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      +.++..+..+..++...++   .++|...++++++++|+++.+...++..+.+.|++++|+..|+++.+...
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            4577888888888876665   79999999999999999999999999999999999999999999988654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.62  E-value=0.00012  Score=75.27  Aligned_cols=115  Identities=13%  Similarity=-0.007  Sum_probs=88.4

Q ss_pred             HHhhcCCHHHHHHHHHhCCC---------CCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhc-----CCCCc---chHH
Q 048281          490 MLGRAGQLNEAYELALAMPN---------EAN-PVVWRTLLAASRLHGNTDLAEIAAQRVFQL-----EPGHC---GNYV  551 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~~~~~~---------~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~---~~~~  551 (660)
                      .+..+|++++|+.++++...         .|+ ..+++.|..+|...|++++|+.+++++++.     .|++|   .++.
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            45688999999988876421         233 357899999999999999999999999874     56665   4678


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHhCCCccCCcEEEEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHH
Q 048281          552 LMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLRE  622 (660)
Q Consensus       552 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~  622 (660)
                      .|+.+|..+|++++|..++++..+--..                  .-...||...+....+.+...++..
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~------------------~lG~~Hp~~~~~~~~l~~~~~e~~~  450 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLV------------------THGPSHPITKDLEAMRMQTEMELRM  450 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHH------------------HTCTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHH------------------HhCCCChHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999988552110                  1125899999988888776655544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.61  E-value=0.00018  Score=57.12  Aligned_cols=66  Identities=9%  Similarity=0.005  Sum_probs=61.5

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          512 NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      +...|..+...+...|++++|+..++++++..|+++..+..++.+|...|++++|.+.+++..+..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            456788899999999999999999999999999999999999999999999999999999998753

>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=97.56  E-value=0.00085  Score=55.79  Aligned_cols=111  Identities=11%  Similarity=-0.044  Sum_probs=93.5

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh----cCCHHH
Q 048281          424 GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR----AGQLNE  499 (660)
Q Consensus       424 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  499 (660)
                      +++++|+.+|++..+.| .|+..    +...|...+.+++|.++|+...+.    -+...+..|..+|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46789999999999987 44444    566677778889999999999873    456788888888888    899999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcC
Q 048281          500 AYELALAMPNEANPVVWRTLLAASRL----HGNTDLAEIAAQRVFQLE  543 (660)
Q Consensus       500 A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  543 (660)
                      |.+.|++.....++..+..|...|..    .++.++|...++++.+..
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            99999987767788899999999998    899999999999998874

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.53  E-value=0.00021  Score=72.18  Aligned_cols=115  Identities=13%  Similarity=0.118  Sum_probs=85.7

Q ss_pred             HHHhhcCCHHHHHHHHHhCCC-------CCC---HHHHHHHHHHHHHcCChHHHHHHHHHHHhc-----CCCCc---chH
Q 048281          489 DMLGRAGQLNEAYELALAMPN-------EAN---PVVWRTLLAASRLHGNTDLAEIAAQRVFQL-----EPGHC---GNY  550 (660)
Q Consensus       489 ~~~~~~g~~~~A~~~~~~~~~-------~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~---~~~  550 (660)
                      .-+.+.|++++|+.++++...       +.+   ..+++.|+.+|...|++++|+.+++++++.     .|++|   ..+
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            334567778888777765421       112   247888889999999999999999998873     45554   467


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhCCCccCCcEEEEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHH
Q 048281          551 VLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLR  621 (660)
Q Consensus       551 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~  621 (660)
                      ..|+.+|..+|++++|..++++..+--.                  ..-...||...+....+.+...+|+
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i~~------------------~~lG~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDIMR------------------VTHGREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH------------------HHTCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHH------------------HhcCCCChHHHHHHHHHHHHHHHHh
Confidence            8899999999999999999998855211                  1112589999999999988877765

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.52  E-value=0.00027  Score=56.61  Aligned_cols=82  Identities=15%  Similarity=0.027  Sum_probs=58.5

Q ss_pred             HHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 048281          463 QGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVF  540 (660)
Q Consensus       463 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  540 (660)
                      .|...++.+.+  ..+.+...+..+...|...|++++|...+++...  +.+...|..+..++...|++++|...+++++
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            35556666654  2334556777777777788888888877776543  3456678888888888888888888888888


Q ss_pred             hcCCCC
Q 048281          541 QLEPGH  546 (660)
Q Consensus       541 ~~~p~~  546 (660)
                      ++.|.+
T Consensus        81 ~~~~~~   86 (115)
T 2kat_A           81 AAAQSR   86 (115)
T ss_dssp             HHHHHH
T ss_pred             Hhcccc
Confidence            877643

>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=97.51  E-value=0.0016  Score=68.57  Aligned_cols=149  Identities=11%  Similarity=0.021  Sum_probs=121.7

Q ss_pred             CChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCC----------HHHHHHHHHHhHHhcCCCCChHHHHHHHHHHh
Q 048281          424 GQGKEALDMFSCMCEAKLKPDE-VTFVGVLSACSHSGF----------LSQGREFLPLMESRYGVVPTIEHYTCVIDMLG  492 (660)
Q Consensus       424 g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  492 (660)
                      ...++|++.++++...  .|+. ..|+.--.++...|+          ++++++.++.+.+  ..+-+..+|..-..++.
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--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR--VNPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHH
Confidence            3457889999999985  5654 445554445555555          8999999999997  35567788888888888


Q ss_pred             hcC--CHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC-------
Q 048281          493 RAG--QLNEAYELALAMPN--EANPVVWRTLLAASRLHG-NTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG-------  560 (660)
Q Consensus       493 ~~g--~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-------  560 (660)
                      +.|  +++++++.++++..  +.+..+|+.-..++...| .++++++.+.++++.+|.+..+|...+.++.+.       
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  77999999999765  567889999999999999 899999999999999999999999999998874       


Q ss_pred             -------CChHHHHHHHHHHHhC
Q 048281          561 -------GKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       561 -------g~~~~a~~~~~~~~~~  576 (660)
                             ++++++.+++++....
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~  221 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFT  221 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHHHhh
Confidence                   5678898888877653

>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=97.49  E-value=8.4e-05  Score=62.34  Aligned_cols=50  Identities=18%  Similarity=-0.005  Sum_probs=35.6

Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHHHHc-----------CChHHHHHHHHHHHhcCCCCc
Q 048281          498 NEAYELALAMPN--EANPVVWRTLLAASRLH-----------GNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       498 ~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      ++|+..|++...  +.+..+|..+..+|...           |++++|++.|+++++++|++.
T Consensus        63 ~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           63 QEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCH
Confidence            456666655432  33455666666666655           589999999999999999874

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.46  E-value=0.0004  Score=52.55  Aligned_cols=65  Identities=22%  Similarity=0.358  Sum_probs=60.5

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          512 NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +...|..+...+...|++++|+..++++++..|+++..+..++.++...|++++|...+++..+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            45678889999999999999999999999999999999999999999999999999999998764

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.34  E-value=0.00015  Score=71.09  Aligned_cols=238  Identities=11%  Similarity=0.110  Sum_probs=165.5

Q ss_pred             ChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHh
Q 048281           66 SPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCC  145 (660)
Q Consensus        66 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~  145 (660)
                      .+.+|..|..+..+.|++.+|++.|=   .-.|+..|..+|.+..+.|.+++-+..+...++..-  ++..=+.|+-+|+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyI---kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayA  127 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYI---KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALA  127 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSC---CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHH---hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHH
Confidence            46778888888888888888877665   334666788889999999999998888877666533  3344457888898


Q ss_pred             hhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC------------------------CCCch
Q 048281          146 DVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP------------------------LRDVV  201 (660)
Q Consensus       146 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~------------------------~~~~~  201 (660)
                      +.+++.+-++++       -.||..-...+.+-|...|.++.|.-+|..+.                        ..++.
T Consensus       128 k~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          128 KTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             TSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             hhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            888876544432       24666666777777888888888888887664                        12677


Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 048281          202 LWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYG  281 (660)
Q Consensus       202 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  281 (660)
                      +|..+-.+|...+.+.-|.-.--.++   +.||  .+..++..|-..|.+++-..+++..... -.....+++-|.-.|+
T Consensus       201 tWKeV~~ACvd~~EfrLAqicGLniI---vhad--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYs  274 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQMCGLHIV---VHAD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYS  274 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTHHHHHHH---CCSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHhcchhc---ccHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHH
Confidence            89999999999998887755544443   2222  2334566677888888888777665421 1346668888888888


Q ss_pred             cCCCHHHHHHHHHhcCC----C-------ChhhHHHHHHHHHHcCChHHHHH
Q 048281          282 KGKCVGEALEIFEMMEE----K-------DIFSWNSIMTVHEQCGNHDGTLR  322 (660)
Q Consensus       282 ~~~~~~~A~~~~~~~~~----~-------~~~~~~~li~~~~~~g~~~~a~~  322 (660)
                      +-. +++-.+.++..-.    |       ....|.-++-.|++-.+++.|..
T Consensus       275 KY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          275 KFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             SSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             hcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            863 4555544443322    2       34468888888888888887654

>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=97.28  E-value=0.0003  Score=70.97  Aligned_cols=102  Identities=9%  Similarity=0.005  Sum_probs=72.8

Q ss_pred             cCCHHHHHHHHHhCC-------C--CCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhc-----CCCCc---chHHHHHH
Q 048281          494 AGQLNEAYELALAMP-------N--EANP-VVWRTLLAASRLHGNTDLAEIAAQRVFQL-----EPGHC---GNYVLMSN  555 (660)
Q Consensus       494 ~g~~~~A~~~~~~~~-------~--~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~---~~~~~l~~  555 (660)
                      .|++++|+.++++..       .  .|+. .+++.|..+|...|++++|+.+++++++.     .|++|   ..+..|+.
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            456666666665432       1  2232 47888899999999999999999998873     55555   46888999


Q ss_pred             HHHhCCChHHHHHHHHHHHhCCCccCCcEEEEEECCEEEEEEeCCCCCCCHHHHHHHH
Q 048281          556 IYVAGGKYEEVLDIRHTMRQQNVRKNPGCSWIELKDGLHTFISSDRSHPEAKSIYAEL  613 (660)
Q Consensus       556 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  613 (660)
                      +|..+|++++|..++++..+--..                  .-...||...++...+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~~------------------~lG~~Hp~~~~l~~~l  430 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIMEV------------------AHGKDHPYISEIKQEI  430 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH------------------HTCTTCHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHHH------------------HcCCCChHHHHHHHHH
Confidence            999999999999999988552110                  1124788877766655

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.24  E-value=0.00098  Score=55.19  Aligned_cols=66  Identities=6%  Similarity=-0.075  Sum_probs=45.6

Q ss_pred             CCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcC-C-CCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          510 EANPVVWRTLLAASRLHG---NTDLAEIAAQRVFQLE-P-GHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       510 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      +++..+...+..++.+.+   +.++++.+++.+++.+ | ++.+.+..|+-.|.+.|++++|+++++.+.+
T Consensus        29 ~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           29 SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            356666666677777666   5557777777777766 5 3456677777777777777777777777766

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.21  E-value=0.0012  Score=50.94  Aligned_cols=79  Identities=15%  Similarity=0.089  Sum_probs=60.5

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCC--CCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCCh
Q 048281          487 VIDMLGRAGQLNEAYELALAMPN--EANPV-VWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKY  563 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  563 (660)
                      ....+.+.|++++|.+.+++...  +.+.. .|..+..++...|++++|+..|+++++++|+++..+..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            45567788888888888887643  34567 88889999999999999999999999999998776532        455


Q ss_pred             HHHHHHHHHH
Q 048281          564 EEVLDIRHTM  573 (660)
Q Consensus       564 ~~a~~~~~~~  573 (660)
                      .++...+++.
T Consensus        78 ~~a~~~~~~~   87 (99)
T 2kc7_A           78 MDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHHH
Confidence            5666665554

>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=97.10  E-value=0.012  Score=56.88  Aligned_cols=138  Identities=13%  Similarity=0.009  Sum_probs=67.6

Q ss_pred             CCCHhHHHHHHHHHH--hcC---ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhc---cC--CHHHH---HHHHHHhH
Q 048281          407 KKDVASWNIMILGYG--MDG---QGKEALDMFSCMCEAKLKPDE-VTFVGVLSACSH---SG--FLSQG---REFLPLME  472 (660)
Q Consensus       407 ~~~~~~~~~li~~~~--~~g---~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~---~g--~~~~a---~~~~~~~~  472 (660)
                      ..+..+|...+++..  ..+   ...+|+.+|++.++.  .|+. ..+..+..++..   .+  .....   .+.+....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            346777877776543  333   357899999999985  5653 344443333320   00  00010   11111110


Q ss_pred             HhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          473 SRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       473 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      .....+.+..+|..+.-.+...|++++|...++++.. .|+...|..+...+...|+.++|...+++++.++|..
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~  343 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA  343 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            0001233444555555444445555555555555432 3444444455555555555555555555555555543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.06  E-value=0.0013  Score=50.74  Aligned_cols=60  Identities=23%  Similarity=0.277  Sum_probs=54.9

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCcc-hHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          518 TLLAASRLHGNTDLAEIAAQRVFQLEPGHCG-NYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       518 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      .....+...|++++|+..++++++.+|+++. .+..++.+|...|++++|.+.+++..+..
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3456788899999999999999999999999 99999999999999999999999998753

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.00  E-value=0.0031  Score=48.80  Aligned_cols=63  Identities=8%  Similarity=-0.068  Sum_probs=32.2

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                      ...|..+..+|...|++++|+..|++.++.. +.+...|..+..++...|++++|.+.+++..+
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3445555555555555555555555555532 12233444555555555555555555555543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.90  E-value=0.085  Score=41.84  Aligned_cols=141  Identities=11%  Similarity=0.072  Sum_probs=104.4

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHH
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNE  499 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  499 (660)
                      +.-.|..++..++..+....   .+..-|+.++.-....-+-+-..++++.+-+-+.+              ..+|++..
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            34467788888888888763   35666777777666777777777888877553222              24555555


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048281          500 AYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVR  579 (660)
Q Consensus       500 A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  579 (660)
                      ...-+-.+.  .+..-.+..+......|+.++-.+++..++.-.|.+|+....++.+|.+.|+..+|.+++++..+.|++
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            555555443  244556667788889999999999999977777778899999999999999999999999999999974

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.89  E-value=0.0031  Score=63.57  Aligned_cols=92  Identities=12%  Similarity=-0.013  Sum_probs=63.9

Q ss_pred             cCCHHHHHHHHHHhHHhc--CCCC---C-hHHHHHHHHHHhhcCCHHHHHHHHHhCCC---------CCCH-HHHHHHHH
Q 048281          458 SGFLSQGREFLPLMESRY--GVVP---T-IEHYTCVIDMLGRAGQLNEAYELALAMPN---------EANP-VVWRTLLA  521 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~--~~~~---~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~-~~~~~l~~  521 (660)
                      .|++++|..++++..+..  -+.|   + ..+++.|..+|...|++++|+.++++...         .|+. .+++.|..
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            456677777766655421  1112   2 35677778888888888888777766431         2443 47888999


Q ss_pred             HHHHcCChHHHHHHHHHHHhc-----CCCCcch
Q 048281          522 ASRLHGNTDLAEIAAQRVFQL-----EPGHCGN  549 (660)
Q Consensus       522 ~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~  549 (660)
                      .|...|++++|+.++++++++     .|++|.+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~  423 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIMEVAHGKDHPYI  423 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHHHHcCCCChHH
Confidence            999999999999999998884     7777654

>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=96.76  E-value=0.0062  Score=61.42  Aligned_cols=98  Identities=13%  Similarity=-0.016  Sum_probs=68.2

Q ss_pred             HHHhccCCHHHHHHHHHHhHHhc--CCCCC----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC---------CCCH-HHH
Q 048281          453 SACSHSGFLSQGREFLPLMESRY--GVVPT----IEHYTCVIDMLGRAGQLNEAYELALAMPN---------EANP-VVW  516 (660)
Q Consensus       453 ~~~~~~g~~~~a~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~-~~~  516 (660)
                      ..+.+.|++++|..++++..+..  -+.|+    ..+++.|+.+|...|++++|+.+++++..         .|+. .++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            34555677777777777765421  11122    35677788888888888888887776431         2333 478


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhc-----CCCCcchH
Q 048281          517 RTLLAASRLHGNTDLAEIAAQRVFQL-----EPGHCGNY  550 (660)
Q Consensus       517 ~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~  550 (660)
                      +.|...|...|++++|+.++++++++     .|++|.+-
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  413 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIE  413 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHH
Confidence            88999999999999999999998873     78776543

>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=96.71  E-value=0.017  Score=55.77  Aligned_cols=133  Identities=20%  Similarity=0.181  Sum_probs=93.1

Q ss_pred             CCCCHHHHHHHHHHH--hccC---CHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhh---cC-----C---HHHHHHH
Q 048281          441 LKPDEVTFVGVLSAC--SHSG---FLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGR---AG-----Q---LNEAYEL  503 (660)
Q Consensus       441 ~~p~~~~~~~ll~~~--~~~g---~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~g-----~---~~~A~~~  503 (660)
                      .+.+...|..++++.  ...+   +..+|..+|+++++   ..|+ ...|..+.-+|.-   .+     .   +..+.+.
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~---lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a  266 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQ---SSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDN  266 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHH
Confidence            355667777777654  3333   45789999999986   3454 3444444444321   11     1   1122222


Q ss_pred             HHhCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          504 ALAMPN-EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       504 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      ...+.. +.++.+|..+...+...|++++|...++++++++|+ ...|..++.++.-.|++++|.+.+++....+
T Consensus       267 ~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          267 IVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAFNLR  340 (372)
T ss_dssp             HHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            222222 567788888888888889999999999999999974 5678899999999999999999999987754

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.52  E-value=0.0089  Score=46.56  Aligned_cols=71  Identities=13%  Similarity=0.021  Sum_probs=49.8

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC---------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN---------EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      -+..|...+.+.|+++.|...++....         .+...++..|..++.+.|+++.|...++++++++|+++.+...+
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~   86 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhH
Confidence            344455555555555555555544221         23456888999999999999999999999999999987665444

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.46  E-value=0.00045  Score=67.85  Aligned_cols=237  Identities=11%  Similarity=0.073  Sum_probs=135.3

Q ss_pred             hhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 048281          169 VYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMM  248 (660)
Q Consensus       169 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~  248 (660)
                      +.+|+.|..++.+.+++.+|.+.|  ++..|+..|..+|.+..+.|.+++-++.+.-.++..-.|  ..=+.++-+|++.
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk~  129 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAKT  129 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHTS
T ss_pred             ccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHhh
Confidence            445666666666666666665544  223355566666777667777777666666555442222  3334566666666


Q ss_pred             CCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCC------------------------CChhhH
Q 048281          249 GFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEE------------------------KDIFSW  304 (660)
Q Consensus       249 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~------------------------~~~~~~  304 (660)
                      +++.+-+.++       -.|+..-...+.+-|...|.++.|.-+|..+..                        .++.+|
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            6655543332       124444455556666666666666666655431                        367788


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHH
Q 048281          305 NSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNA  384 (660)
Q Consensus       305 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  384 (660)
                      -.+-.+|...+.+.-|.-.--.+.   +.||.  ...++..|...|.+++-..+++......-..         ..+++-
T Consensus       203 KeV~~ACvd~~EfrLAqicGLniI---vhade--L~elv~~YE~~G~f~ELIsLlEaglglErAH---------mGmFTE  268 (624)
T 3lvg_A          203 KEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEELITMLEAALGLERAH---------MGMFTE  268 (624)
T ss_dssp             HHHTHHHHHSCTTTTTTHHHHHHH---CCSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTSTTCC---------HHHHHH
T ss_pred             HHHHHHHhCchHHHHHHHhcchhc---ccHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCCCchh---------HHHHHH
Confidence            888888888888776544332322   12221  2233445666777777666666554222122         667777


Q ss_pred             HHHHHHhcCCHHHHHHHHhc----CCCC-------CHhHHHHHHHHHHhcCChHHHHH
Q 048281          385 LMDMYTKCGSMRDAQMVFTK----MSKK-------DVASWNIMILGYGMDGQGKEALD  431 (660)
Q Consensus       385 li~~~~~~g~~~~A~~~~~~----~~~~-------~~~~~~~li~~~~~~g~~~~A~~  431 (660)
                      |.-.|+|- +.++-.+.++.    +.-|       ....|.-++-.|.+..+++.|..
T Consensus       269 LaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          269 LAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            77777764 33333333332    2222       34568888888888888876653

>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=96.42  E-value=0.011  Score=54.64  Aligned_cols=86  Identities=10%  Similarity=0.072  Sum_probs=68.8

Q ss_pred             HHHHHHHHHhCCC-CCC---HHHHHHHHHHHHHc-----CChHHHHHHHHHHHhcCCCC-cchHHHHHHHHHhC-CChHH
Q 048281          497 LNEAYELALAMPN-EAN---PVVWRTLLAASRLH-----GNTDLAEIAAQRVFQLEPGH-CGNYVLMSNIYVAG-GKYEE  565 (660)
Q Consensus       497 ~~~A~~~~~~~~~-~~~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~  565 (660)
                      ...|...+++..+ .|+   -..|..+...|.+.     |+.++|++.|+++++++|+. ..++..+++.++.. |+.++
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            4555555655433 444   45788888888884     99999999999999999975 99999999999884 99999


Q ss_pred             HHHHHHHHHhCCCccCC
Q 048281          566 VLDIRHTMRQQNVRKNP  582 (660)
Q Consensus       566 a~~~~~~~~~~~~~~~~  582 (660)
                      |.+.+++.........|
T Consensus       259 a~~~L~kAL~a~p~~~P  275 (301)
T 3u64_A          259 FDEALDRALAIDPESVP  275 (301)
T ss_dssp             HHHHHHHHHHCCGGGCS
T ss_pred             HHHHHHHHHcCCCCCCC
Confidence            99999999987766434

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.29  E-value=0.023  Score=42.97  Aligned_cols=69  Identities=9%  Similarity=-0.118  Sum_probs=52.3

Q ss_pred             CCChHHHHHHHHHHhhcCC---HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          478 VPTIEHYTCVIDMLGRAGQ---LNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       478 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      +.+...+..+..++...++   .++|..++++...  +.++..+..+...+...|++++|+..++++++.+|.+
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            3456677777777755444   6888888877543  4566788888888889999999999999999988873

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.19  E-value=0.12  Score=57.34  Aligned_cols=155  Identities=11%  Similarity=0.043  Sum_probs=99.6

Q ss_pred             HHHHcCCChhHHHH-HHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCCh
Q 048281          107 SGFYSNDFAFKGLD-FFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFM  185 (660)
Q Consensus       107 ~~~~~~~~~~~a~~-~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  185 (660)
                      ......+++++|.+ ++..+.      +......++..+.+.|..+.|.++.+.         .   ..-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i~------~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~---~~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNVE------GKDSLTKIARFLEGQEYYEEALNISPD---------Q---DQKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGCC------CHHHHHHHHHHHHHTTCHHHHHHHCCC---------H---HHHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcCC------chHHHHHHHHHHHhCCChHHheecCCC---------c---chheehhhhcCCH
Confidence            33445677777766 442211      122236677777778888888776431         1   1113445678999


Q ss_pred             HHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhC
Q 048281          186 EEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMG  265 (660)
Q Consensus       186 ~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  265 (660)
                      +.|.++.+.+.  +...|..+...+.+.++++.|.+.|..+..         |..+...+...|+.+...++-+.....|
T Consensus       669 ~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~  737 (814)
T 3mkq_A          669 TLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG  737 (814)
T ss_dssp             HHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            99999887764  557899999999999999999999998743         4455555555676666655555555544


Q ss_pred             CCCCchHHHHHHHHHHcCCCHHHHHHHHHhc
Q 048281          266 YDSGVPVMNALIDMYGKGKCVGEALEIFEMM  296 (660)
Q Consensus       266 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  296 (660)
                            -++.-..+|.+.|++++|++++.++
T Consensus       738 ------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          738 ------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             ------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             ------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence                  1233444566677777777765543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.10  E-value=0.6  Score=51.57  Aligned_cols=103  Identities=16%  Similarity=0.119  Sum_probs=67.0

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048281          387 DMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGRE  466 (660)
Q Consensus       387 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  466 (660)
                      ......|+++.|.++.+.+.  +...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+...+
T Consensus       660 ~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          660 ELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             HHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHH
T ss_pred             ehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHH
Confidence            34567888888888877663  567888899999999999999988887753         2234444444666666555


Q ss_pred             HHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 048281          467 FLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAM  507 (660)
Q Consensus       467 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  507 (660)
                      +-+.+... |      -++....+|.+.|++++|++++.++
T Consensus       729 ~~~~a~~~-~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          729 LAKDAETT-G------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHc-C------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            54444432 2      1233444556667777776666554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.08  E-value=0.029  Score=46.35  Aligned_cols=85  Identities=11%  Similarity=-0.069  Sum_probs=55.6

Q ss_pred             HHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC---CHHHHHHHHHhCCC-C-C--CHHHHHHHHHHHHHcCChHHHHH
Q 048281          462 SQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG---QLNEAYELALAMPN-E-A--NPVVWRTLLAASRLHGNTDLAEI  534 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~-~-~--~~~~~~~l~~~~~~~g~~~~A~~  534 (660)
                      ..+.+-|.+..+. + .++..+.-.+..++.+.+   +.++++.++++... . |  ....+-.|.-+|.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHH
Confidence            3444444444441 2 255555555666666665   44466666655432 2 2  24566677888899999999999


Q ss_pred             HHHHHHhcCCCCcc
Q 048281          535 AAQRVFQLEPGHCG  548 (660)
Q Consensus       535 ~~~~~~~~~p~~~~  548 (660)
                      .++.+++.+|++..
T Consensus        93 y~~~lL~ieP~n~Q  106 (152)
T 1pc2_A           93 YVRGLLQTEPQNNQ  106 (152)
T ss_dssp             HHHHHHHHCTTCHH
T ss_pred             HHHHHHhcCCCCHH
Confidence            99999999998853

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.05  E-value=0.024  Score=45.07  Aligned_cols=89  Identities=11%  Similarity=-0.084  Sum_probs=49.7

Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHH---HHHHHHhCCCC--C--CHHHHHHHHHHHHHcCCh
Q 048281          457 HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNE---AYELALAMPNE--A--NPVVWRTLLAASRLHGNT  529 (660)
Q Consensus       457 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~--~--~~~~~~~l~~~~~~~g~~  529 (660)
                      ....+..+.+-|...... +. ++..+--.+..++.+..+..+   ++.+++.+...  |  .....-.|.-++.+.|++
T Consensus        13 ~~~~l~~~~~~y~~e~~~-~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y   90 (126)
T 1nzn_A           13 SVEDLLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEY   90 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHH-SC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             CHHHHHHHHHHHHHHhcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhH
Confidence            333445555555555442 33 555555566666666665544   66666664432  1  112334455566666777


Q ss_pred             HHHHHHHHHHHhcCCCCc
Q 048281          530 DLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       530 ~~A~~~~~~~~~~~p~~~  547 (660)
                      ++|.+.++.+++.+|++.
T Consensus        91 ~~A~~~~~~lL~~eP~n~  108 (126)
T 1nzn_A           91 EKALKYVRGLLQTEPQNN  108 (126)
T ss_dssp             HHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHHhCCCCH
Confidence            777777777777666664

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.61  E-value=0.32  Score=39.26  Aligned_cols=91  Identities=8%  Similarity=-0.041  Sum_probs=59.5

Q ss_pred             CCCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCC-CcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCccCCcEE
Q 048281          510 EANPVVWRTLLAASRLHGN---TDLAEIAAQRVFQLEPG-HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRKNPGCS  585 (660)
Q Consensus       510 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  585 (660)
                      .++..+-..+.+++.+..+   ..+++.+++.+....|. ..+....|+-.+.+.|++++|+++.+.+.+.         
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~---------  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH---------  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT---------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc---------
Confidence            4566666666777776664   34677777777776663 3455667777788888888888888887763         


Q ss_pred             EEEECCEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHcCcc
Q 048281          586 WIELKDGLHTFISSDRSHPEAKSIYAELHSLTARLREHGDC  626 (660)
Q Consensus       586 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~~~~  626 (660)
                                       .|...+..++-..+..+|.+.|..
T Consensus       107 -----------------eP~n~QA~~Lk~~Ie~~i~kdGli  130 (144)
T 1y8m_A          107 -----------------ERNNKQVGALKSMVEDKIQKETLK  130 (144)
T ss_dssp             -----------------CCCCHHHHHHHHHHHHHHHHTTTT
T ss_pred             -----------------CCCcHHHHHHHHHHHHHHHHhchh
Confidence                             233344445544556777777654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.40  E-value=1.1  Score=38.06  Aligned_cols=104  Identities=13%  Similarity=0.109  Sum_probs=60.1

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048281          387 DMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGRE  466 (660)
Q Consensus       387 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  466 (660)
                      +....+|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.+.-..
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            3445677777777776655  3566777777777777777777777776543         2233333444566655554


Q ss_pred             HHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 048281          467 FLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMP  508 (660)
Q Consensus       467 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  508 (660)
                      +-+....+ |      -++.....+.-.|+++++.+++.+..
T Consensus        82 la~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           82 MQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            44443332 1      13333444555667777766666544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.03  E-value=0.87  Score=38.62  Aligned_cols=102  Identities=13%  Similarity=0.126  Sum_probs=58.0

Q ss_pred             HhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHH
Q 048281          178 TYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVV  257 (660)
Q Consensus       178 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  257 (660)
                      ....+|+++.|.++.+.+  .+...|..|......+|+++-|.+.|.+...         +..+.-.|...|+.+.-.++
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHH
Confidence            344566777776666554  3455677777777777777777777766532         33444444555555554444


Q ss_pred             HHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhc
Q 048281          258 HGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMM  296 (660)
Q Consensus       258 ~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  296 (660)
                      -+.....|      -++.-...+.-.|+++++.++|.+.
T Consensus        83 a~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           83 QNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            44444333      1333444455566666666666544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.00  E-value=0.094  Score=40.55  Aligned_cols=65  Identities=8%  Similarity=-0.005  Sum_probs=55.4

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-------CCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          512 NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLE-------PGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      +..-+..++..+...|+++.|..-++++++..       +..+..+..|+.+|.+.|++++|..+++++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            44556788999999999999999999998862       234567899999999999999999999999763

>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=94.96  E-value=4.3  Score=42.58  Aligned_cols=114  Identities=12%  Similarity=-0.005  Sum_probs=68.8

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHH----HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHH
Q 048281          424 GQGKEALDMFSCMCEAKLKPDEVTF----VGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNE  499 (660)
Q Consensus       424 g~~~~A~~~~~~m~~~g~~p~~~~~----~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  499 (660)
                      .+.+.|..+|......+ ..+....    ..+.......+...++...+......   .++.....-.+....+.|+++.
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHH
Confidence            37788888888876543 2233222    22222334445355666666665432   2333334445555567899999


Q ss_pred             HHHHHHhCCCCC-C-HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 048281          500 AYELALAMPNEA-N-PVVWRTLLAASRLHGNTDLAEIAAQRVFQ  541 (660)
Q Consensus       500 A~~~~~~~~~~~-~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  541 (660)
                      |...|+.|...+ + ....-=+..++...|+.++|..+|+++.+
T Consensus       304 a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            999999887632 2 22223345567778898899888888765

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.90  E-value=0.1  Score=55.81  Aligned_cols=54  Identities=15%  Similarity=0.114  Sum_probs=50.6

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          520 LAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       520 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                      ...|...|+++.|+.+.++++...|.+..+|..|+.+|...|+|+.|+=.++.+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            445778899999999999999999999999999999999999999999999987

>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=94.87  E-value=0.23  Score=45.91  Aligned_cols=105  Identities=11%  Similarity=0.052  Sum_probs=72.3

Q ss_pred             HHHHHHHHHHhHHhcCCCCC---hHHHHHHHHHHhhc-----CCHHHHHHHHHhCCC-CC--CHHHHHHHHHHHHHc-CC
Q 048281          461 LSQGREFLPLMESRYGVVPT---IEHYTCVIDMLGRA-----GQLNEAYELALAMPN-EA--NPVVWRTLLAASRLH-GN  528 (660)
Q Consensus       461 ~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~-~~--~~~~~~~l~~~~~~~-g~  528 (660)
                      ...|...++++++   +.|+   -..|..|...|.+.     |+.++|.+.|++... .|  +..++......++.. |+
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            3455666666654   5566   46788888888884     899999999988654 34  367777888887774 89


Q ss_pred             hHHHHHHHHHHHhcCCCC-cchHHHHHHHHHhCCChHHHHHHHHHHH
Q 048281          529 TDLAEIAAQRVFQLEPGH-CGNYVLMSNIYVAGGKYEEVLDIRHTMR  574 (660)
Q Consensus       529 ~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  574 (660)
                      .++|.+.+++++...|.. |.  ..+.+    .++-.+|..++.++.
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~--~~lan----~~~q~eA~~LL~~~~  296 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPH--NKLLV----ILSQKRARWLKAHVQ  296 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSS--CHHHH----HHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCC--hhHHH----HHHHHHHHHHHHHhH
Confidence            999999999999987753 32  22333    333456666665543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.81  E-value=0.43  Score=37.88  Aligned_cols=84  Identities=8%  Similarity=-0.088  Sum_probs=54.0

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH---HHHHHHHhHHhcCCCC--ChHHHHHHHHHHhhcCCH
Q 048281          423 DGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQ---GREFLPLMESRYGVVP--TIEHYTCVIDMLGRAGQL  497 (660)
Q Consensus       423 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~  497 (660)
                      ......+.+-|.+....|. |+..+-..+..++.+..+...   ++.+++.+.+.  -.|  .......|.-++.+.|++
T Consensus        14 ~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~--~~p~~~Rd~lY~LAvg~yklg~Y   90 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK--GSKEEQRDYVFYLAVGNYRLKEY   90 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT--SCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHhhhH
Confidence            3344555566666655553 666666667777777765554   78888877663  223  334455666777888888


Q ss_pred             HHHHHHHHhCCC
Q 048281          498 NEAYELALAMPN  509 (660)
Q Consensus       498 ~~A~~~~~~~~~  509 (660)
                      ++|.+.++.+..
T Consensus        91 ~~A~~~~~~lL~  102 (126)
T 1nzn_A           91 EKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            888888877643

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=93.90  E-value=0.3  Score=38.87  Aligned_cols=65  Identities=8%  Similarity=-0.067  Sum_probs=38.8

Q ss_pred             CCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCC-CcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          511 ANPVVWRTLLAASRLHGN---TDLAEIAAQRVFQLEPG-HCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       511 ~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      |++.+--.+.+++.+..+   ..+++.+++.+.+..|. ..+.+..|+-.+.+.|++++|+++.+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            455555555555555543   34566666666665553 234556666667777777777777766655

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.66  E-value=2.9  Score=42.06  Aligned_cols=251  Identities=8%  Similarity=-0.012  Sum_probs=136.2

Q ss_pred             CChhHHHHHHHHHHHh-----CCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCC-C--cccHHHHHH----HHHcCC
Q 048281           46 TNLQKGQEIHSYMLRT-----GIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEP-N--VFTYNAMIS----GFYSND  113 (660)
Q Consensus        46 ~~~~~a~~~~~~~~~~-----g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-~--~~~~~~li~----~~~~~~  113 (660)
                      ++++.|.+.+-.+.+.     ....+......++..|.+.|+++...+.+. ...+. .  -..-..+++    .+....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~-~Lskkr~qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLT-LLSKKHGQLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHH-HHHTTTTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHH-HHHHHhhhhHHHHHHHHHHHHHHHhcCC
Confidence            6777777776666554     234456677888899999999988866554 21111 0  111222332    222222


Q ss_pred             ChhH--HHHHHHHHHHCCCCCCc--------ccHHHHHHHHhhhCCHHHHHHHHHHHHHh--CCCCC---hhHHHHHHHH
Q 048281          114 FAFK--GLDFFNHMRQLGVLPDK--------YTFPCLIKCCCDVMAVLEVKKIHGLVFKL--GLDLD---VYIGSALVNT  178 (660)
Q Consensus       114 ~~~~--a~~~~~~m~~~~~~p~~--------~t~~~ll~~~~~~~~~~~a~~~~~~~~~~--g~~~~---~~~~~~li~~  178 (660)
                      ..+.  -..+.+..  ..+....        .....|...+-..|++.+|..++..+...  |....   ...+...+..
T Consensus       109 ~~d~~~~~~~i~~l--~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          109 SLDLNTRISVIETI--RVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             TTHHHHHHHHHHCC--SSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHH--HHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            2221  11111111  1122111        11245677788889999999998887653  22211   3466777788


Q ss_pred             hHhcCChHHHHHHHccCCC-----C-C----chhHHHHHHHHHhCCChhHHHHHHHHHHHC-CCCCChhhHH----HHHH
Q 048281          179 YLKCQFMEEALKVFEELPL-----R-D----VVLWNAMVNGYAQIGEFHKALEVFRRMSKE-GIWMSRFTVT----GVLS  243 (660)
Q Consensus       179 ~~~~g~~~~A~~~~~~~~~-----~-~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-~~~p~~~t~~----~ll~  243 (660)
                      |...+++..|..++.++..     + +    ...+...+..+...+++.+|.+.|.+.... .+..|...+.    .++.
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~  266 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVY  266 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHH
Confidence            8888999888888776531     1 1    234566677778888888888887777542 1112222221    1122


Q ss_pred             HHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcC--CCHHHHHHHHHhcCCC
Q 048281          244 ALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKG--KCVGEALEIFEMMEEK  299 (660)
Q Consensus       244 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~--~~~~~A~~~~~~~~~~  299 (660)
                      ...-.+....-..+.....+....++...+..++.+|...  .+++.+.+.|.....+
T Consensus       267 ~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L~~  324 (445)
T 4b4t_P          267 FLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPVLNE  324 (445)
T ss_dssp             HHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSSTTT
T ss_pred             HHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHHhcc
Confidence            2222222222233333333333334566777777777654  3466666766665443

>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=93.59  E-value=0.32  Score=39.61  Aligned_cols=55  Identities=9%  Similarity=-0.002  Sum_probs=38.4

Q ss_pred             cCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc
Q 048281          494 AGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       494 ~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                      .++.++|.++|+.+..  +.-..+|......-.++|+...|.+++.+++.+.|....
T Consensus        73 i~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             hcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            3566666666665422  223667777777778888888888888888888776533

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.33  E-value=7.5  Score=36.57  Aligned_cols=170  Identities=11%  Similarity=0.072  Sum_probs=102.5

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHH----HHHHhhcCCCCCHHHHHHHHHHHhc
Q 048281          273 MNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRL----FDRMLSAGFQPDLVTFSTVLPACSH  348 (660)
Q Consensus       273 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~----~~~m~~~g~~p~~~t~~~ll~~~~~  348 (660)
                      |.++..-|.+.+++++|++++..           -...+.+.|+...|-++    ++-..+.+++++..+...++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            55667778889999999988654           24456667877666554    4555567889998888888877655


Q ss_pred             ccchH-HHHHHHHHHH----HhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhc
Q 048281          349 LAALM-HGRQIHGYIV----VNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMD  423 (660)
Q Consensus       349 ~~~~~-~a~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  423 (660)
                      ...-+ .-.++.+.++    +.|-.+.|      ++.....+...|.+.|++.+|+..|-.-...+...+..++.-+...
T Consensus       105 ~p~~~~~r~~fi~~ai~WS~~~g~~~~G------dp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~  178 (312)
T 2wpv_A          105 LDPSEPNLKDVITGMNNWSIKFSEYKFG------DPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQ  178 (312)
T ss_dssp             CCTTCTTHHHHHHHHHHHHHHTSSCTTC------CHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCchHHHHHHHHHHHHhhcCCCCCC------CHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHh
Confidence            33111 1233334443    33332222      3788899999999999999999887633222344444444333332


Q ss_pred             ---CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 048281          424 ---GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESR  474 (660)
Q Consensus       424 ---g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  474 (660)
                         |...++              +...-..++ .|.-.|+...|..+++...+.
T Consensus       179 ~~~~~~~e~--------------dlf~~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          179 VDDIEDSTV--------------AEFFSRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             TTCCCHHHH--------------HHHHHHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             cCCCCcchH--------------HHHHHHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence               332221              111112222 244557888888888877653

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=92.30  E-value=7.8  Score=36.72  Aligned_cols=169  Identities=13%  Similarity=0.085  Sum_probs=101.8

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHH----HHHhhcCCCCCHHHHHHHHHHHhc
Q 048281          273 MNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLF----DRMLSAGFQPDLVTFSTVLPACSH  348 (660)
Q Consensus       273 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~----~~m~~~g~~p~~~t~~~ll~~~~~  348 (660)
                      |.++..-|.+.+++++|++++-.           -...+.+.|+...|-++-    +-..+.++++|..+...++..+..
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            55667778889999999998644           244566677766655544    555667888998888888887765


Q ss_pred             ccchH-HHHHHHHHHH----HhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhc
Q 048281          349 LAALM-HGRQIHGYIV----VNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMD  423 (660)
Q Consensus       349 ~~~~~-~a~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  423 (660)
                      ...-+ .-..+.+.++    +.|-.+.|      |+.....+...|.+.+++.+|+..|-.-..+.+..+..|+.-+...
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~G------dp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~  180 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAG------DPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQ  180 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTC------CHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHT
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCC------CHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHh
Confidence            54311 1233333333    33322222      2778888999999999999999988532233335554444433333


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 048281          424 GQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       424 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                      +...              .++...-..++ -|...+++..|..+++...+
T Consensus       181 ~~~~--------------e~dlfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          181 DESH--------------TAPLYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             SCGG--------------GHHHHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCc--------------cHHHHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence            2211              11222222233 34445788888887776654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=92.25  E-value=16  Score=40.14  Aligned_cols=264  Identities=10%  Similarity=0.012  Sum_probs=124.4

Q ss_pred             HHccCCchhHHHHHHHHHHhCCCCC--chHHHHHHHHHHcCCCHHHHHHHHHhcCC-CC----------hhhHHHHHHHH
Q 048281          245 LIMMGFFKNGRVVHGIVVKMGYDSG--VPVMNALIDMYGKGKCVGEALEIFEMMEE-KD----------IFSWNSIMTVH  311 (660)
Q Consensus       245 ~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~----------~~~~~~li~~~  311 (660)
                      ....|+.+++..++......+-..+  +..-..+.-+...+|.-+++..++..... .+          +..-.++.-++
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            4455666666555443322110111  22223333444555555556665554332 22          11122233333


Q ss_pred             HHcCC-hHHHHHHHHHHhhcCCCCCHHH--HH--HHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHH
Q 048281          312 EQCGN-HDGTLRLFDRMLSAGFQPDLVT--FS--TVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALM  386 (660)
Q Consensus       312 ~~~g~-~~~a~~~~~~m~~~g~~p~~~t--~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li  386 (660)
                      +-.|. -+++.+.+..+....   +...  ..  .+--.+...|+.+....++..+....-+ +        ..-..++.
T Consensus       464 a~~GS~~eev~e~L~~~L~dd---~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e-~--------vrR~aalg  531 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYND---SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHG-N--------ITRGLAVG  531 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTC---CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCH-H--------HHHHHHHH
T ss_pred             HhcCCCCHHHHHHHHHHHhcC---CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcH-H--------HHHHHHHH
Confidence            33332 245566666655431   2111  11  1122234556666666666666542211 1        22223333


Q ss_pred             HHHHhcCCHHHHHHHHhcCCC-CCH-hHHH---HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH
Q 048281          387 DMYTKCGSMRDAQMVFTKMSK-KDV-ASWN---IMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFL  461 (660)
Q Consensus       387 ~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  461 (660)
                      -++.-.|+.+.+..+.+.+.. .+. .-|.   ++..+|+..|+......++..+.... ..+......+.-++...|+.
T Consensus       532 LGll~~g~~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~  610 (963)
T 4ady_A          532 LALINYGRQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDY  610 (963)
T ss_dssp             HHHHTTTCGGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSC
T ss_pred             HHhhhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCH
Confidence            334456777777666666542 222 2232   33455667778766666777777631 22222222222345455666


Q ss_pred             HHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCH-HHHHHHHHhCCCCCCHHHHHHHHHHH
Q 048281          462 SQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQL-NEAYELALAMPNEANPVVWRTLLAAS  523 (660)
Q Consensus       462 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~l~~~~  523 (660)
                      +.+.++++.+.+  ...|.+..-.++.-+....|.. .+|.+.+..+...+|..+-...+.++
T Consensus       611 e~v~rlv~~L~~--~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq~Ai~AL  671 (963)
T 4ady_A          611 TTVPRIVQLLSK--SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIAL  671 (963)
T ss_dssp             SSHHHHTTTGGG--CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            666666665554  3345555445555555545443 56777777776555555444333333

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=91.29  E-value=10  Score=35.96  Aligned_cols=166  Identities=17%  Similarity=0.099  Sum_probs=99.9

Q ss_pred             HHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChhHHHHH----HHHHHHCCCCCCcccHHHHHHHHh
Q 048281           70 ITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDF----FNHMRQLGVLPDKYTFPCLIKCCC  145 (660)
Q Consensus        70 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~t~~~ll~~~~  145 (660)
                      +-++...|.+.+++++|++++-            .-...+.+.|....|-++    ++...+.++++|......++..+.
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~------------~GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILA------------SVSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHH------------HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHH------------HHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            4456677888999999999876            223455566776655444    355566788888888777777776


Q ss_pred             hhCC--HH---HHHHHHHHHHHhC--CCCChhHHHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhH
Q 048281          146 DVMA--VL---EVKKIHGLVFKLG--LDLDVYIGSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHK  218 (660)
Q Consensus       146 ~~~~--~~---~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  218 (660)
                      ....  .+   -..+...+-.+.|  ..-|+.....+...|.+.+++.+|+..|-.-..++...+..++.-+...+...+
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e  185 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHT  185 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc
Confidence            5543  11   1222233333444  345677888888999999999999988843222233566555555554443322


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHH
Q 048281          219 ALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVV  262 (660)
Q Consensus       219 A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  262 (660)
                      +--+              .-..++. |...+++..|..++....
T Consensus       186 ~dlf--------------iaRaVL~-yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          186 APLY--------------CARAVLP-YLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             HHHH--------------HHHHHHH-HHHTTCHHHHHHHHHHHH
T ss_pred             HHHH--------------HHHHHHH-HHHhCCHHHHHHHHHHHH
Confidence            2211              1222222 344567777777665544

>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=90.83  E-value=0.85  Score=37.18  Aligned_cols=56  Identities=7%  Similarity=-0.092  Sum_probs=44.1

Q ss_pred             HcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCcc
Q 048281          525 LHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVRK  580 (660)
Q Consensus       525 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  580 (660)
                      ..+|.++|.++|+.++.+...-+-.|...+.--.++|++..|++++.+....+.+|
T Consensus        72 ei~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           72 AIQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HHHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             HhcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            34799999999999988744334566666677778999999999999998876543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=90.53  E-value=5.6  Score=31.74  Aligned_cols=84  Identities=17%  Similarity=0.039  Sum_probs=59.0

Q ss_pred             cCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHH
Q 048281          182 CQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIV  261 (660)
Q Consensus       182 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  261 (660)
                      ||.+.....-+-.+. .+....+..+..+..+|.-++-.+++..+.. +.+|++..+..+..||.+.|+..++..++.++
T Consensus        74 C~NlKrVi~C~~~~n-~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~A  151 (172)
T 1wy6_A           74 CQNLKSVVECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEA  151 (172)
T ss_dssp             CSCTHHHHHHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcHHHHHHHHHHhc-chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            444444444443332 2334556677888888998888888888654 35678888888888888888888888888888


Q ss_pred             HHhCCC
Q 048281          262 VKMGYD  267 (660)
Q Consensus       262 ~~~g~~  267 (660)
                      -+.|++
T Consensus       152 C~kG~k  157 (172)
T 1wy6_A          152 CKKGEK  157 (172)
T ss_dssp             HHTTCH
T ss_pred             HHhhhH
Confidence            777753

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.17  E-value=2.3  Score=35.40  Aligned_cols=29  Identities=17%  Similarity=0.108  Sum_probs=18.2

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhCCC
Q 048281          481 IEHYTCVIDMLGRAGQLNEAYELALAMPN  509 (660)
Q Consensus       481 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  509 (660)
                      .+.--.+..+|.+.|++++|+.+++.++.
T Consensus       122 ~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          122 IEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            34444466666677777777777766654

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=90.09  E-value=0.67  Score=45.82  Aligned_cols=68  Identities=9%  Similarity=0.084  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHH-----hCCCccCCc
Q 048281          516 WRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMR-----QQNVRKNPG  583 (660)
Q Consensus       516 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~  583 (660)
                      ...++.++...|++++|+..++.++..+|-+-..|..+..+|.+.|+..+|++.|+.+.     +.|+.|.+.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~  246 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  246 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            44566777788888888888888888888887888888888999999999988888763     457776653

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=89.93  E-value=4.2  Score=37.58  Aligned_cols=51  Identities=6%  Similarity=0.008  Sum_probs=26.8

Q ss_pred             HHHHHhhccCChhHHHHHHHHHHHhCCCCChh---HHHHHHHHhHcCCChhHHHHHHc
Q 048281           37 ASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPL---SITSLINMYSKCCQMKYALFVFN   91 (660)
Q Consensus        37 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~---~~~~ll~~~~~~g~~~~A~~~~~   91 (660)
                      +.|....+.|++    ++.+.+++.|..++..   .....+...+..|+.+-+..+++
T Consensus         7 ~~L~~A~~~g~~----~~v~~Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~   60 (285)
T 1wdy_A            7 HLLIKAVQNEDV----DLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSREDIVELLLR   60 (285)
T ss_dssp             HHHHHHHHTTCH----HHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHcCCH----HHHHHHHHcCCCcccccCCCCCcHHHHHHHcCCHHHHHHHHH
Confidence            345555566665    3444555566544322   11234455556677766666666

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=88.38  E-value=15  Score=39.31  Aligned_cols=55  Identities=13%  Similarity=-0.043  Sum_probs=45.0

Q ss_pred             HHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC
Q 048281          141 IKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP  196 (660)
Q Consensus       141 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  196 (660)
                      .+.|...|+++.|.++-++....- +.+-.+|..|..+|...|+++.|+-.++.++
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            344667889999999998888763 3356789999999999999999999998887

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=87.89  E-value=36  Score=37.43  Aligned_cols=250  Identities=10%  Similarity=-0.051  Sum_probs=130.9

Q ss_pred             HHcCCCHHHHHHHHHhcCCC----Ch--hhHHHHHHHHHHcCChHHHHHHHHHHhhcCC--CCC---HHH--HH--HHHH
Q 048281          280 YGKGKCVGEALEIFEMMEEK----DI--FSWNSIMTVHEQCGNHDGTLRLFDRMLSAGF--QPD---LVT--FS--TVLP  344 (660)
Q Consensus       280 ~~~~~~~~~A~~~~~~~~~~----~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~---~~t--~~--~ll~  344 (660)
                      ....|+.++++.+++.....    +.  ..-..+.-+....|..+++..++.......-  .-+   ...  -.  .+--
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            45567777888888776541    21  2223344455666666678887777664311  001   111  11  1111


Q ss_pred             HHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-C--HhHHHHHHHHHH
Q 048281          345 ACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKK-D--VASWNIMILGYG  421 (660)
Q Consensus       345 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~--~~~~~~li~~~~  421 (660)
                      ++...++. .+...+..++...-...       -...--+|...|.-.|+.+....++..+.+. +  +.-.-.+.-++.
T Consensus       464 a~~GS~~e-ev~e~L~~~L~dd~~~~-------~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll  535 (963)
T 4ady_A          464 AAMGSANI-EVYEALKEVLYNDSATS-------GEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALI  535 (963)
T ss_dssp             HSTTCCCH-HHHHHHHHHHHTCCHHH-------HHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHH
T ss_pred             HhcCCCCH-HHHHHHHHHHhcCCHHH-------HHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhh
Confidence            22233333 33333333333211110       0122334455566678777777777654321 2  222233444556


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHH---HHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHH
Q 048281          422 MDGQGKEALDMFSCMCEAKLKPDEVTFV---GVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLN  498 (660)
Q Consensus       422 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~---~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  498 (660)
                      ..|+.+.+..+.+.+.... .|. .-|.   .+.-+|+..|+.....+++..+..  ....++.....+.-++...|+.+
T Consensus       536 ~~g~~e~~~~li~~L~~~~-dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~--d~~d~VRraAViaLGlI~~g~~e  611 (963)
T 4ady_A          536 NYGRQELADDLITKMLASD-ESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVS--DSNDDVRRAAVIALGFVLLRDYT  611 (963)
T ss_dssp             TTTCGGGGHHHHHHHHHCS-CHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTSSSCS
T ss_pred             hCCChHHHHHHHHHHHhCC-CHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhcc--CCcHHHHHHHHHHHHhhccCCHH
Confidence            7889888888888887631 222 2233   233467788898888779998876  33334444444444444567766


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHH--HHHHcCCh-HHHHHHHHHHHh
Q 048281          499 EAYELALAMPNEANPVVWRTLLA--ASRLHGNT-DLAEIAAQRVFQ  541 (660)
Q Consensus       499 ~A~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~-~~A~~~~~~~~~  541 (660)
                      .+.++++.+....|+.+-.....  +....|+. ..+...+..+..
T Consensus       612 ~v~rlv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          612 TVPRIVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             SHHHHTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            67777765554445544333333  33334433 566667776653

>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=87.17  E-value=2.8  Score=31.38  Aligned_cols=63  Identities=19%  Similarity=0.264  Sum_probs=50.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          425 QGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       425 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      +.-+..+-+..+....+.|++....+.+.+|.+.+++..|.++++.++.+.+.  ...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~--~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--chhhHHHHHH
Confidence            45567777777778889999999999999999999999999999999875333  3456776664

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=85.84  E-value=2.5  Score=35.25  Aligned_cols=120  Identities=12%  Similarity=0.055  Sum_probs=58.2

Q ss_pred             CCCCCHHH--HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCCh-------HHHHHHHHHHhhcCCHHHHHHHHHhCCC-
Q 048281          440 KLKPDEVT--FVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI-------EHYTCVIDMLGRAGQLNEAYELALAMPN-  509 (660)
Q Consensus       440 g~~p~~~~--~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  509 (660)
                      |+.|....  +..-+..+...|.++.|+-+.+.+....+..|+.       .++..+.+++...|++..|...|++... 
T Consensus        13 ~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           13 GLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             --------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            44454432  3333455666677777776666655432233331       2445556666666666666666655211 


Q ss_pred             ------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 048281          510 ------EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTM  573 (660)
Q Consensus       510 ------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  573 (660)
                            .+..  ..++. .   ......       -.. .+.+.+.-..++.+|.+.|++++|+.+++.+
T Consensus        93 ~k~l~k~~s~--~~~~~-~---~ss~p~-------s~~-~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A           93 KKALSKTSKV--RPSTG-N---SASTPQ-------SQC-LPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHCC---------------------------------C-CCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHhcCCCc--ccccc-c---cCCCcc-------ccc-ccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence                  1111  00000 0   000000       000 1223356678999999999999999999876

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=85.74  E-value=17  Score=33.36  Aligned_cols=208  Identities=10%  Similarity=0.015  Sum_probs=110.5

Q ss_pred             HHHHHHhHcCCChhHHHHHHccCCCCCCcc----cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCccc--HHHHHHHH
Q 048281           71 TSLINMYSKCCQMKYALFVFNNLSCEPNVF----TYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYT--FPCLIKCC  144 (660)
Q Consensus        71 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t--~~~ll~~~  144 (660)
                      +..+...++.|+++....+++ ....++..    -+ +.+...+..|+.+    +++.+.+.|..|+...  -.+.+...
T Consensus         6 ~~~L~~A~~~g~~~~v~~Ll~-~g~~~~~~~~~~g~-t~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A   79 (285)
T 1wdy_A            6 NHLLIKAVQNEDVDLVQQLLE-GGANVNFQEEEGGW-TPLHNAVQMSRED----IVELLLRHGADPVLRKKNGATPFLLA   79 (285)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHH-TTCCTTCCCTTTCC-CHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCCHHHHH
T ss_pred             chHHHHHHHcCCHHHHHHHHH-cCCCcccccCCCCC-cHHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCCHHHHH
Confidence            445666778899999999988 54443322    22 3444455566654    4555556676655321  12334445


Q ss_pred             hhhCCHHHHHHHHHHHHHhCCCCChh--HHHHHHHHhHhcCChHHHHHHHccCCCCCch-------------hHHHHHHH
Q 048281          145 CDVMAVLEVKKIHGLVFKLGLDLDVY--IGSALVNTYLKCQFMEEALKVFEELPLRDVV-------------LWNAMVNG  209 (660)
Q Consensus       145 ~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-------------~~~~li~~  209 (660)
                      +..|+.+    +++.+++.|..++..  .....+...+..|+.+-+..+++.-...+..             .+ +.+..
T Consensus        80 ~~~~~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~-t~L~~  154 (285)
T 1wdy_A           80 AIAGSVK----LLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGA-TALMD  154 (285)
T ss_dssp             HHHTCHH----HHHHHHHTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCCCCHHHHHTTCCCC-CHHHH
T ss_pred             HHcCCHH----HHHHHHHcCCCCCccCcccCCHHHHHHHhCCHHHHHHHHHhCCCcccccccHHHHHhhccCCC-cHHHH
Confidence            5667765    445555667655432  1223444556778888877777765433211             11 22333


Q ss_pred             HHhCCChhHHHHHHHHHHHC-CCCCChh---hHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchH--HHHHHHHHHcC
Q 048281          210 YAQIGEFHKALEVFRRMSKE-GIWMSRF---TVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPV--MNALIDMYGKG  283 (660)
Q Consensus       210 ~~~~~~~~~A~~~~~~m~~~-~~~p~~~---t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~--~~~li~~~~~~  283 (660)
                      .+..|+.+    +++.+.+. |..++..   ..+. +...+..++......+.+.+.+.|..++...  -.+.+...++.
T Consensus       155 A~~~~~~~----~v~~Ll~~~~~~~~~~~~~g~t~-l~~a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~  229 (285)
T 1wdy_A          155 AAEKGHVE----VLKILLDEMGADVNACDNMGRNA-LIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEK  229 (285)
T ss_dssp             HHHHTCHH----HHHHHHHTSCCCTTCCCTTSCCH-HHHHHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHT
T ss_pred             HHHcCCHH----HHHHHHHhcCCCCCccCCCCCCH-HHHHHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHc
Confidence            44455544    33444443 4444322   2222 3333445555555677777777776654431  12334445556


Q ss_pred             CCHHHHHHHHH
Q 048281          284 KCVGEALEIFE  294 (660)
Q Consensus       284 ~~~~~A~~~~~  294 (660)
                      |+.+-+..+++
T Consensus       230 ~~~~~v~~Ll~  240 (285)
T 1wdy_A          230 KHLGLVQRLLE  240 (285)
T ss_dssp             TCHHHHHHHHH
T ss_pred             CCHHHHHHHHh
Confidence            66666666665

>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=84.92  E-value=6.8  Score=38.51  Aligned_cols=72  Identities=10%  Similarity=0.011  Sum_probs=55.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH----hcCCCCChHHHH
Q 048281          413 WNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES----RYGVVPTIEHYT  485 (660)
Q Consensus       413 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~~~  485 (660)
                      ...++..+...|++.+|+..+..+.... +-+...+..++.++...|+..+|++.|+.+.+    .+|+.|+..+-.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            3456677778888999888888887753 45777888889999999999999888888654    358888876543

>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=84.69  E-value=9.3  Score=28.62  Aligned_cols=63  Identities=11%  Similarity=0.112  Sum_probs=43.0

Q ss_pred             ChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHH
Q 048281          114 FAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVN  177 (660)
Q Consensus       114 ~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  177 (660)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++++-++..- .....+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            334566666777777778888888888888888888888888888776543 222344555443

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=84.36  E-value=27  Score=32.74  Aligned_cols=167  Identities=8%  Similarity=0.031  Sum_probs=97.4

Q ss_pred             HHHHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHH----HHHHHHCCCCCChhhHHHHHHHHHc
Q 048281          172 GSALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEV----FRRMSKEGIWMSRFTVTGVLSALIM  247 (660)
Q Consensus       172 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~----~~~m~~~~~~p~~~t~~~ll~~~~~  247 (660)
                      |.++..-|.+.+++++|.+++.           .-...+.+.|+...|-++    ++...+.+++++......++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~-----------~ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELIS-----------QGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHH-----------HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHH-----------HHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            4455566777788888877642           223345556666555543    4555567788888777777777665


Q ss_pred             cCCch-hHHHHHHHHHHh----C--CCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHc---CCh
Q 048281          248 MGFFK-NGRVVHGIVVKM----G--YDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQC---GNH  317 (660)
Q Consensus       248 ~~~~~-~a~~~~~~~~~~----g--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---g~~  317 (660)
                      ...-+ .-.++.+.+++.    |  ...++.....+...|.+.|++.+|+..|-.-...+...+..++.-+...   |..
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            43222 123444444433    3  2246778888999999999999999988633323455555555444443   332


Q ss_pred             HHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHH
Q 048281          318 DGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVV  364 (660)
Q Consensus       318 ~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  364 (660)
                      .+              +|.+.-..++. +.-.+++..|..+++...+
T Consensus       185 ~e--------------~dlf~~RaVL~-yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          185 ST--------------VAEFFSRLVFN-YLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HH--------------HHHHHHHHHHH-HHHTTBHHHHHHHHHHHHH
T ss_pred             ch--------------HHHHHHHHHHH-HHHhcCHHHHHHHHHHHHH
Confidence            22              12222223332 3456778888877776543

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=82.53  E-value=21  Score=31.66  Aligned_cols=150  Identities=7%  Similarity=0.008  Sum_probs=75.0

Q ss_pred             HHHHhhccCChhHHHHHHHHHHHhCCCCChh--HHHHHHHHhHcCCChhHHHHHHccCCCCCCcc---cHHHHHHHHHcC
Q 048281           38 SLQLCAHQTNLQKGQEIHSYMLRTGIIDSPL--SITSLINMYSKCCQMKYALFVFNNLSCEPNVF---TYNAMISGFYSN  112 (660)
Q Consensus        38 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~li~~~~~~  112 (660)
                      .|...+..|+.+....+.+.+.+.|..++..  .....+...+..|+.+-+..+++ ....++..   .++ .+...+..
T Consensus        12 ~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~-~g~~~~~~~~~g~t-~l~~A~~~   89 (241)
T 1k1a_A           12 PLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSVVRLLVT-AGASPMALDRHGQT-AAHLACEH   89 (241)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHH-TTCCTTCCCTTSCC-HHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHHHHHHHHH-cCCCccccCCCCCC-HHHHHHHc
Confidence            4555566788877777777777777554432  12234555566788887777777 44433322   222 33334456


Q ss_pred             CChhHHHHHHHHHHHCCCCCCc---ccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChh---HHHHHHHHhHhcCChH
Q 048281          113 DFAFKGLDFFNHMRQLGVLPDK---YTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVY---IGSALVNTYLKCQFME  186 (660)
Q Consensus       113 ~~~~~a~~~~~~m~~~~~~p~~---~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~---~~~~li~~~~~~g~~~  186 (660)
                      |+.+-...+++.....++.++.   .-. +.+...+..|+.+    +++.+++.|..++..   .....+...++.|+.+
T Consensus        90 ~~~~~~~~Ll~~~~~~~~~~~~~~~~g~-t~L~~A~~~~~~~----~~~~Ll~~g~~~~~~~~~~g~t~L~~A~~~~~~~  164 (241)
T 1k1a_A           90 RSPTCLRALLDSAAPGTLDLEARNYDGL-TALHVAVNTECQE----TVQLLLERGADIDAVDIKSGRSPLIHAVENNSLS  164 (241)
T ss_dssp             TCHHHHHHHHHHSCTTSCCTTCCCTTSC-CHHHHHHHHTCHH----HHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHH
T ss_pred             CCHHHHHHHHHcCCCccccccccCcCCC-cHHHHHHHcCCHH----HHHHHHHcCCCcccccccCCCcHHHHHHHcCCHH
Confidence            6665555444443321122221   122 2233344455543    344445556554432   1223344445556665


Q ss_pred             HHHHHHcc
Q 048281          187 EALKVFEE  194 (660)
Q Consensus       187 ~A~~~~~~  194 (660)
                      -+..+++.
T Consensus       165 ~v~~Ll~~  172 (241)
T 1k1a_A          165 MVQLLLQH  172 (241)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHc
Confidence            55555544

>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=82.34  E-value=13  Score=27.64  Aligned_cols=86  Identities=13%  Similarity=0.147  Sum_probs=59.6

Q ss_pred             CchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhh
Q 048281          250 FFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLS  329 (660)
Q Consensus       250 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  329 (660)
                      ..++|..+-+.+...+.  ...+--.-+..+...|++++|..+.+.+.-||...|-+|...  +.|..+++...+.++-.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHHh
Confidence            45566666666655543  222222334567789999999999999999999999887654  66888888888878877


Q ss_pred             cCCCCCHHHHH
Q 048281          330 AGFQPDLVTFS  340 (660)
Q Consensus       330 ~g~~p~~~t~~  340 (660)
                      .| .|....|.
T Consensus        98 sg-~p~~q~Fa  107 (116)
T 2p58_C           98 SQ-DPRIQTFV  107 (116)
T ss_dssp             CC-CHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            66 45555554

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=81.94  E-value=20  Score=33.14  Aligned_cols=142  Identities=10%  Similarity=0.010  Sum_probs=63.4

Q ss_pred             HHHhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCccc--HHHHHHHHhhhCCHH
Q 048281           74 INMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYT--FPCLIKCCCDVMAVL  151 (660)
Q Consensus        74 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t--~~~ll~~~~~~~~~~  151 (660)
                      +...+..|+.+.+..+++ ....++...-.+.+...+..|+.+-    ++.+.+.|..|+...  -.+.+...+..|+.+
T Consensus        35 L~~A~~~g~~~~v~~Ll~-~g~~~~~~~g~t~L~~A~~~g~~~~----v~~Ll~~ga~~~~~d~~g~t~L~~A~~~g~~~  109 (285)
T 3kea_A           35 SYYAIADNNVRLVCTLLN-AGALKNLLENEFPLHQAATLEDTKI----VKILLFSGLDDSQFDDKGNTALYYAVDSGNMQ  109 (285)
T ss_dssp             HHHHHHTTCHHHHHHHHH-TTGGGSCCTTCCHHHHHTTSSSCHH----HHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHHh-CCCCCCCCCCCCHHHHHHHcCCHHH----HHHHHHCCCCCCCcCCCCCcHHHHHHHcCCHH
Confidence            444455677777777666 3332222211223334445555443    333334455444321  112333344556554


Q ss_pred             HHHHHHHHHHHhCCCCChh---HHHHHHHHhHhcCChHHHHHHHccCCCC-CchhHHHHHHHHHhCCChhHHHHHHH
Q 048281          152 EVKKIHGLVFKLGLDLDVY---IGSALVNTYLKCQFMEEALKVFEELPLR-DVVLWNAMVNGYAQIGEFHKALEVFR  224 (660)
Q Consensus       152 ~a~~~~~~~~~~g~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~  224 (660)
                      -++    .+++.|..++..   -+.+.+...+..|+.+-+..+++.-... +...-.+.+...+..|+.+-+.-+++
T Consensus       110 ~v~----~Ll~~ga~~~~~~~~g~~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~  182 (285)
T 3kea_A          110 TVK----LFVKKNWRLMFYGKTGWKTSFYHAVMLNDVSIVSYFLSEIPSTFDLAILLSCIHITIKNGHVDMMILLLD  182 (285)
T ss_dssp             HHH----HHHHHCGGGGGCSSSGGGSHHHHHHHTTCHHHHHHHHTTSCTTCCCSTHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHH----HHHhcCCCCCccCCCCCCCHHHHHHHcCCHHHHHHHHhCCCccccccCCccHHHHHHHcChHHHHHHHHH
Confidence            333    334445444322   1134444455666766666666554332 22122333344445555554444433

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=81.04  E-value=13  Score=27.72  Aligned_cols=86  Identities=13%  Similarity=0.109  Sum_probs=59.8

Q ss_pred             CchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhh
Q 048281          250 FFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLS  329 (660)
Q Consensus       250 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  329 (660)
                      ..++|..+-+.+...+.  ...+--.-+..+...|++++|..+.+.+.-||...|-+|...  +.|..+++...+.++-.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCEW--HLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHHH--HTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHHh
Confidence            45566666666555543  222222334567789999999999999999999999887654  67888888888888877


Q ss_pred             cCCCCCHHHHH
Q 048281          330 AGFQPDLVTFS  340 (660)
Q Consensus       330 ~g~~p~~~t~~  340 (660)
                      .| .|....|.
T Consensus        97 sg-~p~~q~Fa  106 (115)
T 2uwj_G           97 SS-DPALADFA  106 (115)
T ss_dssp             CS-SHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            76 45555554

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=81.02  E-value=6.2  Score=31.30  Aligned_cols=63  Identities=19%  Similarity=0.274  Sum_probs=50.4

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          425 QGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       425 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      +.-+..+-++.+....+.|++......+.+|.+.+|+..|.++++-++.+  ..+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHHH
Confidence            34466677777777889999999999999999999999999999999875  3344556777664

>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=80.95  E-value=13  Score=29.62  Aligned_cols=70  Identities=11%  Similarity=0.015  Sum_probs=41.4

Q ss_pred             CChHHHHHHHHHHhhcCCH---HHHHHHHHhCCC-CC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc
Q 048281          479 PTIEHYTCVIDMLGRAGQL---NEAYELALAMPN-EA--NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG  548 (660)
Q Consensus       479 ~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  548 (660)
                      |+..+--.+..++.++.+.   .+++.+++++.. .|  ....+--|.-++.+.|+++.|.+..+.+++.+|+|..
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~Q  113 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  113 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHH
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHH
Confidence            3344433444444444433   234444444321 22  2345566677888888888899988988888888743

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=80.10  E-value=7.9  Score=34.50  Aligned_cols=47  Identities=6%  Similarity=0.011  Sum_probs=25.7

Q ss_pred             HhhccCChhHHHHHHHHHHHhCCCCChh--HHHHHHHHhHcCCChhHHHHHHc
Q 048281           41 LCAHQTNLQKGQEIHSYMLRTGIIDSPL--SITSLINMYSKCCQMKYALFVFN   91 (660)
Q Consensus        41 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~ll~~~~~~g~~~~A~~~~~   91 (660)
                      ..+..|++    ++.+.+++.|..++..  .....+...++.|+.+-+..+++
T Consensus        15 ~A~~~g~~----~~~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~   63 (240)
T 3eu9_A           15 KATQYGIY----ERCRELVEAGYDVRQPDKENVTLLHWAAINNRIDLVKYYIS   63 (240)
T ss_dssp             HHHHTTCH----HHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHcCCh----HHHHHHHHcCCCcCCCCCCCCCHHHHHHHhCCHHHHHHHHH
Confidence            34455665    4445555666544321  12234555566777777777766

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	660
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	0.004

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.3 bits (85), Expect = 0.004
 Identities = 29/230 (12%), Positives = 67/230 (29%), Gaps = 15/230 (6%)

Query: 373 CKDIDDVFMNNALMDMYTKCGSMRDAQMVFTK---MSKKDVASWNIMILGYGMDGQGKEA 429
               +     + L  ++   G +  A   F K   +    + ++  +            A
Sbjct: 163 ETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRA 222

Query: 430 LDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTI-EHYTCVI 488
           +  +                 +       G +    +          + P   + Y  + 
Sbjct: 223 VAAYLRALSLSPNHAV-VHGNLACVYYEQGLIDLAIDTY---RRAIELQPHFPDAYCNLA 278

Query: 489 DMLGRAGQLNEAYEL--ALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH 546
           + L   G + EA +           +      L    R  GN + A    ++  ++ P  
Sbjct: 279 NALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEF 338

Query: 547 CGNYVLMSNIYVAGGKYEEVLD-----IRHTMRQQNVRKNPGCSWIELKD 591
              +  ++++    GK +E L      IR +    +   N G +  E++D
Sbjct: 339 AAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD 388

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	660
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.58
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.54
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.14
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.02
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.02
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.99
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.99
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.96
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.96
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.95
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.85
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.73
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.69
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.68
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.58
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.57
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.55
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.54
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.53
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.52
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.45
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.42
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.39
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.32
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.29
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.29
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.24
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.24
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.21
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.2
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.2
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.14
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.13
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.12
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.07
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.99
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.92
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.88
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.86
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.85
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.76
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.62
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.6
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.59
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.55
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.46
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.44
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.39
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.19
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.14
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.07
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.91
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.68
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.63
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.52
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.66
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	92.03
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	90.79
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	89.01
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.65
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.8

>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=1.1e-20  Score=189.94  Aligned_cols=376  Identities=10%  Similarity=0.039  Sum_probs=269.3

Q ss_pred             HHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCCC---CCchhHHHHHHHHHhCCCh
Q 048281          140 LIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELPL---RDVVLWNAMVNGYAQIGEF  216 (660)
Q Consensus       140 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~  216 (660)
                      +...+.+.|++++|.++++++++..+ -+...+..+..+|.+.|++++|...|++..+   .+..+|..+...|.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccc
Confidence            34556678888888888888887642 3566777777888888888888888877642   2556777777888888888


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhc
Q 048281          217 HKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMM  296 (660)
Q Consensus       217 ~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  296 (660)
                      ++|++.+....+... .+..............+................                               
T Consensus        84 ~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------------------  131 (388)
T d1w3ba_          84 QEAIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-------------------------------  131 (388)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-------------------------------
T ss_pred             ccccccccccccccc-ccccccccccccccccccccccccccccccccc-------------------------------
Confidence            888888877766432 222222233333333333333333333222222                               


Q ss_pred             CCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCC
Q 048281          297 EEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDI  376 (660)
Q Consensus       297 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  376 (660)
                       .................+....+...+....... +-+...+..+...+...|+.+.|...+.......+..       
T Consensus       132 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~-------  202 (388)
T d1w3ba_         132 -PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNF-------  202 (388)
T ss_dssp             -TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTC-------
T ss_pred             -cccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCccc-------
Confidence             1222233333334444455555555555544431 1223444555555666667777777766666554333       


Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048281          377 DDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLS  453 (660)
Q Consensus       377 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  453 (660)
                        ...+..+...+...|++++|...|++..   ..+...+..+...+.+.|++++|+..|++..+.. +-+..++..+..
T Consensus       203 --~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  279 (388)
T d1w3ba_         203 --LDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLAN  279 (388)
T ss_dssp             --HHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHH
T ss_pred             --HHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence              6677788888888899999988888765   3466788888999999999999999999998853 334667888889


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHH
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~  531 (660)
                      .+...|++++|.+.++.+..  ..+.+...+..+..+|.+.|++++|++.+++...  +.+..+|..+..+|...|++++
T Consensus       280 ~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~  357 (388)
T d1w3ba_         280 ALKEKGSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQE  357 (388)
T ss_dssp             HHHHHSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHH
T ss_pred             HHHHcCCHHHHHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            99999999999999999887  4566778899999999999999999999998654  4457789999999999999999


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhCCC
Q 048281          532 AEIAAQRVFQLEPGHCGNYVLMSNIYVAGGK  562 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  562 (660)
                      |+..|+++++++|+++.+|..++.+|.+.|+
T Consensus       358 A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         358 ALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999998875

>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=2.4e-20  Score=187.45  Aligned_cols=353  Identities=12%  Similarity=0.031  Sum_probs=275.8

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHH
Q 048281          208 NGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVG  287 (660)
Q Consensus       208 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~  287 (660)
                      ..+.+.|++++|++.++++.+.. +-+...+..+...+...|++++|...++.+++.. +.+..++..+..+|.+.|+++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccc
Confidence            44556677777777777776542 1234556666667777777777777777776664 334567778888888888888


Q ss_pred             HHHHHHHhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHH
Q 048281          288 EALEIFEMMEEK---DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVV  364 (660)
Q Consensus       288 ~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  364 (660)
                      +|+..+....+.   +...+..........+....+............. ...............+....+.........
T Consensus        85 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHhhc
Confidence            888888777542   3344455555556666666666666665554333 333344444555666777777777777766


Q ss_pred             hCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048281          365 NGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKL  441 (660)
Q Consensus       365 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  441 (660)
                      .....         ...+..+...+...|+.+.|...+++..   ..+..+|..+...+...|++++|+..+++....+ 
T Consensus       164 ~~~~~---------~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  233 (388)
T d1w3ba_         164 TQPNF---------AVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-  233 (388)
T ss_dssp             HCTTC---------HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-
T ss_pred             cCcch---------hHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-
Confidence            65444         7788889999999999999999998765   3467789999999999999999999999998864 


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHH
Q 048281          442 KPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTL  519 (660)
Q Consensus       442 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l  519 (660)
                      +.+...+..+...+.+.|++++|...|+++.+  -.+.+...+..+..+|...|++++|.+.++....  +.+...+..+
T Consensus       234 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  311 (388)
T d1w3ba_         234 PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNL  311 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHH
Confidence            45667788888899999999999999999987  3445678899999999999999999999987643  5677889999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          520 LAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       520 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ...+...|++++|+..+++++++.|+++.++..++.+|...|++++|.+.+++..+
T Consensus       312 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         312 ANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999876

>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=99.58  E-value=6e-14  Score=136.39  Aligned_cols=220  Identities=10%  Similarity=0.034  Sum_probs=175.9

Q ss_pred             HhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHh
Q 048281          346 CSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGM  422 (660)
Q Consensus       346 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  422 (660)
                      +.+.|+++.|...++.+++..+..         ..++..+..+|...|++++|...|.+..   ..+...|..++..|..
T Consensus        29 ~~~~g~~~~A~~~~~~al~~~P~~---------~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~   99 (323)
T d1fcha_          29 RLQEGDLPNAVLLFEAAVQQDPKH---------MEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTN   99 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSCTTC---------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCC---------HHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccc
Confidence            445555555555555555544333         7788899999999999999999999865   3467889999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHH----------------HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHH
Q 048281          423 DGQGKEALDMFSCMCEAKLKPDEVT----------------FVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTC  486 (660)
Q Consensus       423 ~g~~~~A~~~~~~m~~~g~~p~~~~----------------~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  486 (660)
                      .|++++|++.++++...  .|+...                ....+..+...+...+|...+..+.+.....++..++..
T Consensus       100 ~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~  177 (323)
T d1fcha_         100 ESLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  177 (323)
T ss_dssp             TTCHHHHHHHHHHHHHT--STTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             cccccccccchhhHHHh--ccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchh
Confidence            99999999999998874  332111                111222334456678888888888764344456788899


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChH
Q 048281          487 VIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYE  564 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  564 (660)
                      +...+...|++++|...+++...  +.+..+|..+..++...|++++|+..++++++++|+++.++..++.+|.+.|+++
T Consensus       178 l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         178 LGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             hHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHH
Confidence            99999999999999999998643  4567899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhC
Q 048281          565 EVLDIRHTMRQQ  576 (660)
Q Consensus       565 ~a~~~~~~~~~~  576 (660)
                      +|++.+++..+.
T Consensus       258 ~A~~~~~~al~l  269 (323)
T d1fcha_         258 EAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998763

>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=99.54  E-value=5.8e-13  Score=129.26  Aligned_cols=265  Identities=10%  Similarity=-0.040  Sum_probs=169.3

Q ss_pred             HHHHHHcCCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccch
Q 048281          276 LIDMYGKGKCVGEALEIFEMMEE--K-DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAAL  352 (660)
Q Consensus       276 li~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~  352 (660)
                      ....+.+.|++++|+..|+++.+  | +..+|..+...+...|++++|...|.+..+.. +-+...+..+...+...|++
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccc
Confidence            44555666666666666666543  2 34456666666666666666666666665542 11233444445555555666


Q ss_pred             HHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 048281          353 MHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDM  432 (660)
Q Consensus       353 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  432 (660)
                      +.|.+.+..+........         ...........                ..+.......+..+...+...+|...
T Consensus       104 ~~A~~~~~~~~~~~~~~~---------~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~  158 (323)
T d1fcha_         104 RQACEILRDWLRYTPAYA---------HLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKEL  158 (323)
T ss_dssp             HHHHHHHHHHHHTSTTTG---------GGCC-------------------------------CTTHHHHHHHHHHHHHHH
T ss_pred             cccccchhhHHHhccchH---------HHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHH
Confidence            666555555544432221         00000000000                00011111122233455667888889


Q ss_pred             HHHHHHcCC-CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--
Q 048281          433 FSCMCEAKL-KPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--  509 (660)
Q Consensus       433 ~~~m~~~g~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  509 (660)
                      +.+..+... .++...+..+...+...|++++|+..++.+...  .+-+...|..+..+|.+.|++++|.+.|++...  
T Consensus       159 ~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  236 (323)
T d1fcha_         159 FLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ  236 (323)
T ss_dssp             HHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHh
Confidence            888876432 345667788888899999999999999999873  344578899999999999999999999998653  


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc-----------hHHHHHHHHHhCCChHHHHH
Q 048281          510 EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG-----------NYVLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       510 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-----------~~~~l~~~~~~~g~~~~a~~  568 (660)
                      +.+..+|..++.+|...|++++|+..|+++++++|++..           .+..+..++...|+.+.+..
T Consensus       237 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         237 PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            456788999999999999999999999999999887654           33456666766777665543

>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=99.14  E-value=6.6e-09  Score=101.22  Aligned_cols=196  Identities=14%  Similarity=0.029  Sum_probs=142.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCC-------CC----CHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CCC
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMS-------KK----DVASWNIMILGYGMDGQGKEALDMFSCMCEAKL----KPD  444 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----~p~  444 (660)
                      ..+..+...+...|++..|...+....       .+    ....+..+...+...|+++.+...+........    ...
T Consensus        92 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  171 (366)
T d1hz4a_          92 WSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQ  171 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhH
Confidence            345556667777888887777766543       11    123556677788899999999999998886432    222


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-----hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--C----CCH
Q 048281          445 EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-----IEHYTCVIDMLGRAGQLNEAYELALAMPN--E----ANP  513 (660)
Q Consensus       445 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~----~~~  513 (660)
                      ...+......+...++...+...+............     ...+..+...+...|++++|...+++...  +    ...
T Consensus       172 ~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  251 (366)
T d1hz4a_         172 LQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQ  251 (366)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHH
Confidence            345555666777889999998888877653222111     23456677788899999999999988654  1    123


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhc------CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQL------EPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      ..+..+..++...|++++|...+++++..      .|.....+..++.+|...|++++|.+.+++..+
T Consensus       252 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         252 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            45677888999999999999999998753      344566888999999999999999999998755

>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=99.08  E-value=1.5e-09  Score=103.70  Aligned_cols=194  Identities=8%  Similarity=0.022  Sum_probs=164.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDG-QGKEALDMFSCMCEAKLKPDEVTFVGVLSA  454 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  454 (660)
                      ..+++.+...+.+.+..++|+++++++.   ..+..+|+....++...| ++++|+..+++..+.. +-+..+|......
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            4567778888999999999999999887   346779999999988876 5899999999998863 3356788888889


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCC----
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGN----  528 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~----  528 (660)
                      +...|++++|+..++.+.+  --+.+...|..+..++.+.|++++|++.++++..  +.+...|+.+...+...+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~--~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILN--QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhh--hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchh
Confidence            9999999999999999987  3455688999999999999999999999998754  4577889988888777665    


Q ss_pred             --hHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          529 --TDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       529 --~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                        +++|+..+.++++++|++...|..++.++...| .+++.+.++...+.
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDL  248 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHh
Confidence              578999999999999999999999988876554 68888888887664

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.02  E-value=3.6e-09  Score=98.13  Aligned_cols=199  Identities=11%  Similarity=-0.096  Sum_probs=117.7

Q ss_pred             HHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHH
Q 048281          338 TFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWN  414 (660)
Q Consensus       338 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~  414 (660)
                      ++..+...+.+.|+++.|...++..+...+..         +.+++.+..+|.+.|++++|.+.|+++.   ..+..+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~---------~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~  109 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPDM---------PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHL  109 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCC---------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCCC---------HHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHH
Confidence            33344445556666666666666666554433         6677778888888888888888887765   23456777


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhc
Q 048281          415 IMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRA  494 (660)
Q Consensus       415 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  494 (660)
                      .+..+|...|++++|+..|++..+.. +.+......+..++.+.+..+....+......   ..+....+. ++..+...
T Consensus       110 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~  184 (259)
T d1xnfa_         110 NRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGN  184 (259)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTS
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cchhhhhhh-HHHHHHHH
Confidence            88888888888888888888888753 22333333333344455554444444444433   122222222 22222222


Q ss_pred             CCHHHHHHHH-HhCCC-----CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchH
Q 048281          495 GQLNEAYELA-LAMPN-----EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       495 g~~~~A~~~~-~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                      .......... .....     +....+|..+...+...|++++|...|++++..+|++...|
T Consensus       185 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         185 ISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             SCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            2222222221 11211     11234677788888899999999999999999888875443

>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=99.02  E-value=2e-08  Score=97.62  Aligned_cols=291  Identities=9%  Similarity=-0.075  Sum_probs=187.0

Q ss_pred             HHHHHcCCCHHHHHHHHHhcCC--CC------hhhHHHHHHHHHHcCChHHHHHHHHHHhhcCC-CCC----HHHHHHHH
Q 048281          277 IDMYGKGKCVGEALEIFEMMEE--KD------IFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGF-QPD----LVTFSTVL  343 (660)
Q Consensus       277 i~~~~~~~~~~~A~~~~~~~~~--~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~ll  343 (660)
                      ...+...|++++|++++++..+  |+      ..+++.+...+...|++++|+..|++..+... .++    ...+..+.
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            4445566666666666665432  11      13455666677777777777777776654210 111    12344455


Q ss_pred             HHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--------CCHhHHHH
Q 048281          344 PACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK--------KDVASWNI  415 (660)
Q Consensus       344 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~  415 (660)
                      ..+...|++..+...+............. ........+..+...+...|+++.+...+.....        ....++..
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLE-QLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCT-TSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccc-hhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            56667778888877777665432111100 0011134566778889999999999998876541        12345666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcC--CCCC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC--CChHHHHHH
Q 048281          416 MILGYGMDGQGKEALDMFSCMCEAK--LKPD----EVTFVGVLSACSHSGFLSQGREFLPLMESRYGVV--PTIEHYTCV  487 (660)
Q Consensus       416 li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~~l  487 (660)
                      +...+...++..++...+.+.....  ....    ...+..+...+...|+.++|...+..........  .....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            7777888999999999888776421  1111    1234555567888999999999999886521111  123456678


Q ss_pred             HHHHhhcCCHHHHHHHHHhCCC-------CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---------cchH
Q 048281          488 IDMLGRAGQLNEAYELALAMPN-------EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH---------CGNY  550 (660)
Q Consensus       488 ~~~~~~~g~~~~A~~~~~~~~~-------~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---------~~~~  550 (660)
                      ...|...|++++|...+++...       .| ...++..+..+|...|++++|...+++++++.+..         ...+
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~  337 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAM  337 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHH
Confidence            8999999999999999987531       22 24578888999999999999999999998874321         1223


Q ss_pred             HHHHHHHHhCCChHHHHH
Q 048281          551 VLMSNIYVAGGKYEEVLD  568 (660)
Q Consensus       551 ~~l~~~~~~~g~~~~a~~  568 (660)
                      ..+...+...++.+++.+
T Consensus       338 ~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         338 AQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHhcCCChHHHH
Confidence            344555666677777654

>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=98.99  E-value=1e-08  Score=97.79  Aligned_cols=217  Identities=9%  Similarity=0.055  Sum_probs=159.9

Q ss_pred             HHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCC-HHHHHHHHhcCC---CCCHhHHHHHH
Q 048281          342 VLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGS-MRDAQMVFTKMS---KKDVASWNIMI  417 (660)
Q Consensus       342 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~---~~~~~~~~~li  417 (660)
                      +-..+.+.+..++|.++++.+++..+..         ..+|+....++...|+ +++|+..++...   ..+..+|+.+.
T Consensus        49 ~~~~~~~~e~~~~Al~~~~~ai~lnP~~---------~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~  119 (315)
T d2h6fa1          49 FRAVLQRDERSERAFKLTRDAIELNAAN---------YTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHTCCCHHHHHHHHHHHHHCTTC---------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHhCCchHHHHHHHHHHHHHCCCC---------hHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHh
Confidence            3333444555666666666666665544         7788888888888764 899999998875   45788999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC-
Q 048281          418 LGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ-  496 (660)
Q Consensus       418 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-  496 (660)
                      ..+.+.|++++|+..++++++.. +-+...|..+...+...|++++|++.++.+++.  -+.+...|+.+..++.+.+. 
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHcccc
Confidence            99999999999999999999863 446788999999999999999999999999873  34456778777777766655 


Q ss_pred             -----HHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc--hHHHHHHHHHhC--CChHH
Q 048281          497 -----LNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG--NYVLMSNIYVAG--GKYEE  565 (660)
Q Consensus       497 -----~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~--~~~~l~~~~~~~--g~~~~  565 (660)
                           +++|++.+.+...  +.+...|..+...+.. ...+++...++++.++.|+...  .+..++.+|...  +..+.
T Consensus       197 ~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~  275 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDN  275 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             chhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHH
Confidence                 6788888877543  4567788888776554 4568899999999998886543  445677776543  33333


Q ss_pred             HHHHHH
Q 048281          566 VLDIRH  571 (660)
Q Consensus       566 a~~~~~  571 (660)
                      +...++
T Consensus       276 ~~~~~~  281 (315)
T d2h6fa1         276 KEDILN  281 (315)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            443333

>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=7e-10  Score=107.48  Aligned_cols=230  Identities=7%  Similarity=-0.067  Sum_probs=165.5

Q ss_pred             HcCChHHHHHHHHHHhhcCCCCC-HHHHHHHHHHHhcc--cchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHH
Q 048281          313 QCGNHDGTLRLFDRMLSAGFQPD-LVTFSTVLPACSHL--AALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMY  389 (660)
Q Consensus       313 ~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~  389 (660)
                      ..|++++|+..++...+.  .|+ ...+.....++...  ++.+.+...+..+........        ...+......+
T Consensus        85 ~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~--------~~~~~~~~~~~  154 (334)
T d1dcea1          85 SAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNF--------HCWDYRRFVAA  154 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhh--------hhhhhHHHHHH
Confidence            344567888888887765  343 34445454444444  457888888888877765542        22334555777


Q ss_pred             HhcCCHHHHHHHHhcCCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 048281          390 TKCGSMRDAQMVFTKMSK---KDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGRE  466 (660)
Q Consensus       390 ~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  466 (660)
                      ...+..+.|...++...+   .+..+|+.+...+.+.|++++|...+++....  .|+.   ..+...+...+..+++..
T Consensus       155 ~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~  229 (334)
T d1dcea1         155 QAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAW  229 (334)
T ss_dssp             HTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHH
T ss_pred             HhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHH
Confidence            788999999999998774   36778999999999999988887666655442  2222   122333455566677777


Q ss_pred             HHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 048281          467 FLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       467 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  544 (660)
                      .+.....  ..+++...+..++..+...|+.++|...+.+... .| +..+|..++.++...|+.++|++.++++++++|
T Consensus       230 ~~~~~l~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         230 FYHRWLL--GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             HHHHHHH--SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHH--hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            7777765  3445556667778888889999999999988654 23 456888899999999999999999999999999


Q ss_pred             CCcchHHHHHHHHHh
Q 048281          545 GHCGNYVLMSNIYVA  559 (660)
Q Consensus       545 ~~~~~~~~l~~~~~~  559 (660)
                      .++..|..|...+.-
T Consensus       308 ~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         308 MRAAYLDDLRSKFLL  322 (334)
T ss_dssp             GGHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHhH
Confidence            988888888777664

>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=98.96  E-value=7.4e-08  Score=91.50  Aligned_cols=187  Identities=14%  Similarity=0.038  Sum_probs=141.2

Q ss_pred             cchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-C-HhHHHHHHHHHHhcCC
Q 048281          350 AALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSK--K-D-VASWNIMILGYGMDGQ  425 (660)
Q Consensus       350 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~  425 (660)
                      +..+.+..+++..+....+.+        ...+...+..+.+.|+++.|..+|+++..  | + ...|...+..+.+.|+
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~--------~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~  149 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKN--------MLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEG  149 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTC--------HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHC
T ss_pred             cchHHHHHHHHHHHHHcCCCC--------HHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCC
Confidence            345777888888776544444        77888888888999999999999988652  2 3 3478888888888999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHH-HHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHH
Q 048281          426 GKEALDMFSCMCEAKLKPDEVTFVGVLS-ACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELA  504 (660)
Q Consensus       426 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  504 (660)
                      .+.|.++|+++.+.+ +.+...|..... -+...|+.+.|..+|+.+.+.  .+.+...|...++.+.+.|+++.|..+|
T Consensus       150 ~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~f  226 (308)
T d2onda1         150 IKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLF  226 (308)
T ss_dssp             HHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHH
Confidence            999999999988764 223334433333 234467889999999999873  4456778888999999999999999999


Q ss_pred             HhCCC----CC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          505 LAMPN----EA--NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       505 ~~~~~----~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      ++...    .|  ....|...+..-..+|+.+.+..+++++.+..|...
T Consensus       227 e~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         227 ERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             HHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             HHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            87522    22  245788888888888999999999999988877653

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.96  E-value=1.6e-09  Score=100.54  Aligned_cols=195  Identities=10%  Similarity=-0.007  Sum_probs=140.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMS---KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSAC  455 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  455 (660)
                      ..++..+..+|.+.|++++|...|++..   ..++.+|+.+..+|.+.|++++|+..|+++.+.. +-+..++..+..++
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHH
Confidence            5677788999999999999999999876   4578899999999999999999999999999863 23456788888899


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHH----HcCChH
Q 048281          456 SHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EANPVVWRTLLAASR----LHGNTD  530 (660)
Q Consensus       456 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~----~~g~~~  530 (660)
                      ...|++++|...++...+.  .+.+......+...+.+.+..+.+..+...... .+....+. ++..+.    ..+..+
T Consensus       116 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhh-HHHHHHHHHHHHHHHH
Confidence            9999999999999999873  233444444455555566655554444333221 11222222 122221    122234


Q ss_pred             HHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCC
Q 048281          531 LAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQN  577 (660)
Q Consensus       531 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  577 (660)
                      .+...+.......|..+.+|..++.+|...|++++|.+.+++.....
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            44444444445566667789999999999999999999999988754

>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=98.95  E-value=4.7e-08  Score=92.90  Aligned_cols=182  Identities=7%  Similarity=-0.008  Sum_probs=144.7

Q ss_pred             CCHHHHHHHHhcCC----CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 048281          393 GSMRDAQMVFTKMS----KKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFL  468 (660)
Q Consensus       393 g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  468 (660)
                      +..++|..+|++..    ..+...|...+..+...|+.+.|..+|+++++.........|...+..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            34577888888754    34667888889999999999999999999997543333457888999999999999999999


Q ss_pred             HHhHHhcCCCCChHHHHHHHHHH-hhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 048281          469 PLMESRYGVVPTIEHYTCVIDML-GRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPG  545 (660)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  545 (660)
                      +.+.+  ..+.+...|...+... ...|+.+.|..+|+.+..  +.++..|...+..+...|+.+.|..+|+++++..|.
T Consensus       158 ~~al~--~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKARE--DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHT--STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHH--hCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            99987  3344455555555443 446899999999998765  456789999999999999999999999999998776


Q ss_pred             Ccc----hHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          546 HCG----NYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       546 ~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ++.    .|...+..-...|+.+.+.++.+++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            554    5666666667789999999999988653

>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=98.85  E-value=9.6e-10  Score=106.49  Aligned_cols=245  Identities=9%  Similarity=-0.055  Sum_probs=175.5

Q ss_pred             cCChHHHHHHHHHHhhcCCCCCHHHH----HHHHHH-------HhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHH
Q 048281          314 CGNHDGTLRLFDRMLSAGFQPDLVTF----STVLPA-------CSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMN  382 (660)
Q Consensus       314 ~g~~~~a~~~~~~m~~~g~~p~~~t~----~~ll~~-------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  382 (660)
                      .+..++|++++++..+.  .|+..+.    ..++..       +...|.++.+...++.+.+..+..         ...+
T Consensus        42 ~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~---------~~~~  110 (334)
T d1dcea1          42 GELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKS---------YGTW  110 (334)
T ss_dssp             TCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTC---------HHHH
T ss_pred             ccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCc---------HHHH
Confidence            34457788888877764  5665432    122222       223455778888888888776555         6777


Q ss_pred             HHHHHHHHhcC--CHHHHHHHHhcCC---CCCHhHHHH-HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 048281          383 NALMDMYTKCG--SMRDAQMVFTKMS---KKDVASWNI-MILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACS  456 (660)
Q Consensus       383 ~~li~~~~~~g--~~~~A~~~~~~~~---~~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  456 (660)
                      ..+..++...+  +.++|...+.++.   .++...|.. ....+...+.+++|+..++++++.. +-+...|..+...+.
T Consensus       111 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~  189 (334)
T d1dcea1         111 HHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLP  189 (334)
T ss_dssp             HHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            77777776665  4788998888875   345666544 4467778899999999999988764 345677888888888


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHH
Q 048281          457 HSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMP--NEANPVVWRTLLAASRLHGNTDLAEI  534 (660)
Q Consensus       457 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~  534 (660)
                      ..|++++|...+....+.   .|+   ...+...+...+..+++...+....  .+++...+..++..+...|+.++|..
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            888888776666555441   111   1223334455666667776666532  24455567777888888999999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          535 AAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       535 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+.+..+.+|++..++..++.+|...|++++|.+.+++..+.
T Consensus       264 ~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         264 ELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999774

>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=98.73  E-value=6.3e-08  Score=76.67  Aligned_cols=90  Identities=14%  Similarity=0.089  Sum_probs=72.9

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChH
Q 048281          487 VIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYE  564 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  564 (660)
                      -...+.+.|++++|+..|++...  +.++..|..+..++...|++++|+..+.++++++|+++..|..++.++...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            45667778888888888877543  5567788888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHhC
Q 048281          565 EVLDIRHTMRQQ  576 (660)
Q Consensus       565 ~a~~~~~~~~~~  576 (660)
                      +|+..+++..+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            888888888764

>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=98.69  E-value=4e-08  Score=86.85  Aligned_cols=103  Identities=12%  Similarity=-0.096  Sum_probs=50.0

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHH
Q 048281          443 PDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLL  520 (660)
Q Consensus       443 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~  520 (660)
                      |+...+......+.+.|++++|+..|..+++.  .+.+...|..+..+|.+.|++++|+..|++...  +.+..+|..++
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            44444444445555555555555555555441  223344455555555555555555555554332  22344455555


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCc
Q 048281          521 AASRLHGNTDLAEIAAQRVFQLEPGHC  547 (660)
Q Consensus       521 ~~~~~~g~~~~A~~~~~~~~~~~p~~~  547 (660)
                      .+|...|++++|+..|+++++++|++.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~  106 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQR  106 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccH
Confidence            555555555555555555555444433

>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=98.68  E-value=9.9e-08  Score=75.50  Aligned_cols=105  Identities=10%  Similarity=-0.030  Sum_probs=90.1

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCh
Q 048281          452 LSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNT  529 (660)
Q Consensus       452 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~  529 (660)
                      ...+...|++++|+..|+.+++  --+.+...|..+..+|.+.|++++|+..+++...  +.++..|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIK--LDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh--cCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            4567788999999999999987  3455677899999999999999999999988654  56788999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          530 DLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       530 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      ++|+..++++++++|+++..+..+.++-+
T Consensus        88 ~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            99999999999999999888887776644

>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=98.58  E-value=7.7e-08  Score=75.43  Aligned_cols=88  Identities=16%  Similarity=0.039  Sum_probs=79.9

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCCh
Q 048281          486 CVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKY  563 (660)
Q Consensus       486 ~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  563 (660)
                      .+...+.+.|++++|...|++...  +.++.+|..+..++...|++++|+..++++++++|+++.++..++.+|...|++
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCH
Confidence            456678889999999999988654  446889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 048281          564 EEVLDIRHTM  573 (660)
Q Consensus       564 ~~a~~~~~~~  573 (660)
                      ++|.+.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999875

>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=98.57  E-value=3.4e-07  Score=77.09  Aligned_cols=90  Identities=16%  Similarity=0.055  Sum_probs=62.9

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChH
Q 048281          487 VIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYE  564 (660)
Q Consensus       487 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  564 (660)
                      ....|.+.|++++|+..|++...  +.+...|..+..+|...|++++|+..|+++++++|+++.+|..++.+|...|+++
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHH
Confidence            34456677777777777766543  4456677777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHhC
Q 048281          565 EVLDIRHTMRQQ  576 (660)
Q Consensus       565 ~a~~~~~~~~~~  576 (660)
                      +|...+++....
T Consensus        96 eA~~~~~~a~~~  107 (159)
T d1a17a_          96 AALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            777777776553

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.55  E-value=1.9e-07  Score=82.22  Aligned_cols=97  Identities=10%  Similarity=0.017  Sum_probs=68.4

Q ss_pred             CChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHH
Q 048281          479 PTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNI  556 (660)
Q Consensus       479 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  556 (660)
                      |+...+......|.+.|++++|+..|++...  +.++..|..++.+|.+.|++++|+..|+++++++|+++.+|..++.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            5555566666777777777777777766432  44566777777777777777777777777777777777777777777


Q ss_pred             HHhCCChHHHHHHHHHHHh
Q 048281          557 YVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       557 ~~~~g~~~~a~~~~~~~~~  575 (660)
                      |...|++++|...+++..+
T Consensus        82 ~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            7777777777777776644

>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=98.54  E-value=4.1e-07  Score=76.56  Aligned_cols=116  Identities=10%  Similarity=-0.064  Sum_probs=94.3

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCh
Q 048281          452 LSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNT  529 (660)
Q Consensus       452 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~  529 (660)
                      ...|.+.|++++|...|+++++.  .+.+...|..+..+|...|++++|...|+++..  +.+..+|..++.++...|++
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            45677889999999999988873  345678888899999999999999999988644  55678999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchHHHHHHHH--HhCCChHHHHHH
Q 048281          530 DLAEIAAQRVFQLEPGHCGNYVLMSNIY--VAGGKYEEVLDI  569 (660)
Q Consensus       530 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~a~~~  569 (660)
                      ++|...++++++++|+++..+..+..+.  ...+.+++|...
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            9999999999999999988887776664  334556666554

>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=98.53  E-value=1.8e-06  Score=74.90  Aligned_cols=146  Identities=10%  Similarity=-0.113  Sum_probs=104.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSG  459 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  459 (660)
                      ..|+- ...+...|+++.|++.|.++..++..+|..+..+|...|++++|++.|++.++.. +-+...|..+..++.+.|
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhc
Confidence            34443 5667788999999999998888888888889999999999999999999988864 345567777888888889


Q ss_pred             CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHH
Q 048281          460 FLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEA-NPVVWRTLLAASRLHGNTDLAEIAAQR  538 (660)
Q Consensus       460 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~  538 (660)
                      ++++|...|+.....  .+.+...      .|...|.           ..+. ...++..+..++...|++++|.+.+++
T Consensus        85 ~~~~A~~~~~kAl~~--~~~n~~~------~~~~~~~-----------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~  145 (192)
T d1hh8a_          85 KYDLAIKDLKEALIQ--LRGNQLI------DYKILGL-----------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLAL  145 (192)
T ss_dssp             CHHHHHHHHHHHHHT--TTTCSEE------ECGGGTB-----------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHh--CccCchH------HHHHhhh-----------hcccchHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999998888887652  2222100      0000000           0011 124566777888899999999999999


Q ss_pred             HHhcCCCC
Q 048281          539 VFQLEPGH  546 (660)
Q Consensus       539 ~~~~~p~~  546 (660)
                      ++++.|..
T Consensus       146 A~~~~~~~  153 (192)
T d1hh8a_         146 ATSMKSEP  153 (192)
T ss_dssp             HHTTCCSG
T ss_pred             HHhcCCCc
Confidence            99888865

>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=98.52  E-value=5.4e-07  Score=78.35  Aligned_cols=120  Identities=9%  Similarity=-0.050  Sum_probs=89.0

Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHH
Q 048281          454 ACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       454 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~  531 (660)
                      .+...|+++.|++.|.++     .+|+..+|..+..+|...|++++|++.|++...  +.++..|..+..+|.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHH
Confidence            345567777777777643     235566677777777777777777777776543  4567788888888888888888


Q ss_pred             HHHHHHHHHhcCCCCc----------------chHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          532 AEIAAQRVFQLEPGHC----------------GNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      |+..|+++++..|.++                .++..++.++...|++++|.+.+....+...
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            8888888887655432                3567889999999999999999998877543

>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=98.45  E-value=1.2e-06  Score=82.07  Aligned_cols=196  Identities=10%  Similarity=-0.010  Sum_probs=135.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----CC
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSK-----KD----VASWNIMILGYGMDGQGKEALDMFSCMCEAKLK-----PD  444 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-----p~  444 (660)
                      ...|......|...|++++|.+.|.+...     .+    ..+|..+..+|.+.|++++|++.+++..+.-..     ..
T Consensus        37 a~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  116 (290)
T d1qqea_          37 ADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRG  116 (290)
T ss_dssp             HHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhH
Confidence            34456667788899999999999987652     12    357899999999999999999999987753111     11


Q ss_pred             HHHHHHHHHHHh-ccCCHHHHHHHHHHhHHhc---CCCCC-hHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCC-----
Q 048281          445 EVTFVGVLSACS-HSGFLSQGREFLPLMESRY---GVVPT-IEHYTCVIDMLGRAGQLNEAYELALAMPN--EAN-----  512 (660)
Q Consensus       445 ~~~~~~ll~~~~-~~g~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-----  512 (660)
                      ..++..+...|. ..|++++|.+.++.+.+-.   +..+. ..++..+...|...|++++|.+.|+++..  +.+     
T Consensus       117 ~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~  196 (290)
T d1qqea_         117 ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQW  196 (290)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGG
T ss_pred             HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhh
Confidence            345556666664 4699999999999886521   11121 35678899999999999999999987532  111     


Q ss_pred             --HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc-----hHHHHHHHHHh--CCChHHHHHHHHHHH
Q 048281          513 --PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG-----NYVLMSNIYVA--GGKYEEVLDIRHTMR  574 (660)
Q Consensus       513 --~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-----~~~~l~~~~~~--~g~~~~a~~~~~~~~  574 (660)
                        ...+...+..+...|+.+.|...++++.+.+|..+.     ....++.++..  .+++++|+..|+++.
T Consensus       197 ~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         197 SLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence              123445566778899999999999999999886433     23445555554  356888888876543

>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=5.4e-07  Score=71.29  Aligned_cols=107  Identities=12%  Similarity=-0.092  Sum_probs=84.4

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC---HHHHHHHHHhCCC-CCCH---HHHHHHHH
Q 048281          449 VGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ---LNEAYELALAMPN-EANP---VVWRTLLA  521 (660)
Q Consensus       449 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~-~~~~---~~~~~l~~  521 (660)
                      ..+++.+...+++++|.+.|+....  --+.+..++..+..++.+.++   +++|+.+++++.. .|++   .+|..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~--~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKA--AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            3567778888899999999999987  345567888888988887555   4569999998654 3333   37888999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHH
Q 048281          522 ASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIY  557 (660)
Q Consensus       522 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  557 (660)
                      +|...|++++|++.|+++++++|++..+...+..+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~  116 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLID  116 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHH
Confidence            999999999999999999999999977665554443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.39  E-value=2.3e-06  Score=72.61  Aligned_cols=134  Identities=13%  Similarity=-0.021  Sum_probs=96.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      ..+......+.+.|++++|+..|.+.+..-  |...            +....-......+.        ..+|..+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~~------------~~~~~~~~~~~~~~--------~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYES------------SFSNEEAQKAQALR--------LASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCC------------CCCSHHHHHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhcc------------ccchHHHhhhchhH--------HHHHHHHHHH
Confidence            345556667777888888888887777531  1100            00001111111111        2357778889


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHH
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEV  566 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  566 (660)
                      |.+.|++++|+..+++...  +.++..|..++.+|...|++++|+..|+++++++|+++.+...+..+..+.+...+.
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988654  457889999999999999999999999999999999999998888887766555543

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.32  E-value=4.1e-07  Score=72.02  Aligned_cols=92  Identities=8%  Similarity=-0.060  Sum_probs=78.6

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCCCC--cchHHHHHHHH
Q 048281          485 TCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHG---NTDLAEIAAQRVFQLEPGH--CGNYVLMSNIY  557 (660)
Q Consensus       485 ~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~  557 (660)
                      ..+++.+...+++++|.+.|++...  +.++.++..+..++.+.+   ++++|+.+++++++.+|.+  +.++..|+.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            4677888899999999999998654  567889999999997654   5567999999999988754  34788999999


Q ss_pred             HhCCChHHHHHHHHHHHhC
Q 048281          558 VAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       558 ~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+.|++++|++.++++.+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            9999999999999999884

>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=98.29  E-value=4.6e-06  Score=77.87  Aligned_cols=172  Identities=9%  Similarity=-0.024  Sum_probs=130.0

Q ss_pred             CHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHH
Q 048281          394 SMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEA----KLKP-DEVTFVGVLSACSHSGFLSQGREFL  468 (660)
Q Consensus       394 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~  468 (660)
                      ++++|.++|.           .....|...|++++|.+.|.++.+.    +-++ -..+|..+..+|.+.|++++|.+.+
T Consensus        32 ~~~~Aa~~y~-----------~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCV-----------QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHH-----------HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHH-----------HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            4566666554           4577899999999999999998763    1112 2357888889999999999999999


Q ss_pred             HHhHHhcCCCCC----hHHHHHHHHHHhh-cCCHHHHHHHHHhCCC----CCC----HHHHHHHHHHHHHcCChHHHHHH
Q 048281          469 PLMESRYGVVPT----IEHYTCVIDMLGR-AGQLNEAYELALAMPN----EAN----PVVWRTLLAASRLHGNTDLAEIA  535 (660)
Q Consensus       469 ~~~~~~~~~~~~----~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~----~~~----~~~~~~l~~~~~~~g~~~~A~~~  535 (660)
                      +...+-+.-..+    ..++..+...|.. .|++++|.+.+++...    ..+    ..++..++..+...|++++|+..
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            987652211111    3566677777755 6999999999987532    111    34678889999999999999999


Q ss_pred             HHHHHhcCCCCcc-------hHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          536 AQRVFQLEPGHCG-------NYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       536 ~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      |+++....|.++.       .+...+.++...|+++.|.+.+++..+.
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999998776542       3456677778899999999999988765

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=4.6e-06  Score=70.60  Aligned_cols=63  Identities=10%  Similarity=-0.035  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+|+.+..+|.+.|++++|+..++++++++|+++.++..++.+|...|++++|...+++..+.
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            467778899999999999999999999999999999999999999999999999999999774

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.24  E-value=7.3e-06  Score=69.20  Aligned_cols=142  Identities=10%  Similarity=-0.085  Sum_probs=98.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      ..+.-.+..+.+.|++.+|+..|++.+..  .|.           ......+. ......+        ...+|..+..+
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~--~~~-----------~~~~~~~~-~~~~~~~--------~~~~~~Nla~~   73 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSW--LEM-----------EYGLSEKE-SKASESF--------LLAAFLNLAMC   73 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTT-----------CCSCCHHH-HHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HHH-----------hhccchhh-hhhcchh--------HHHHHHhHHHH
Confidence            34555666677777777777777765542  000           00000000 0111111        12356778888


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChH-HHH
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYE-EVL  567 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~-~a~  567 (660)
                      |.+.|++++|+..+++...  +.+..+|..+..++...|++++|+..|+++++++|+++.+...+..+....+... ...
T Consensus        74 ~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~e~~k  153 (168)
T d1kt1a1          74 YLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAKEHNERDR  153 (168)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhHHHHHH
Confidence            9999999999999988654  5678899999999999999999999999999999999999888888877766554 345


Q ss_pred             HHHHHHH
Q 048281          568 DIRHTMR  574 (660)
Q Consensus       568 ~~~~~~~  574 (660)
                      +++..|-
T Consensus       154 k~~~~~f  160 (168)
T d1kt1a1         154 RTYANMF  160 (168)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555553

>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=98.24  E-value=6.5e-06  Score=68.24  Aligned_cols=63  Identities=11%  Similarity=-0.023  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+|..+..+|.+.|++++|+..++++++++|.+..+|..++.+|...|++++|...|++..+.
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            467788889999999999999999999999999999999999999999999999999998763

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.21  E-value=4.8e-06  Score=70.51  Aligned_cols=65  Identities=8%  Similarity=0.001  Sum_probs=58.9

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          512 NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ....|..+..++.+.|++++|+..+.++++++|+++.+|..++.+|...|++++|++.+++..+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            45577888889999999999999999999999999999999999999999999999999998873

>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=98.20  E-value=2.4e-06  Score=68.43  Aligned_cols=92  Identities=10%  Similarity=0.068  Sum_probs=77.2

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcc-------hHHHHH
Q 048281          484 YTCVIDMLGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCG-------NYVLMS  554 (660)
Q Consensus       484 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-------~~~~l~  554 (660)
                      +..+...|.+.|++++|+..|++...  +.+..+|..+..+|...|++++|+..++++++++|+++.       +|..++
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            45677888899999999999987654  557889999999999999999999999999999887765       455667


Q ss_pred             HHHHhCCChHHHHHHHHHHHh
Q 048281          555 NIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       555 ~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .++...+++++|++.+++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            777888999999999988754

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.20  E-value=0.00022  Score=64.96  Aligned_cols=230  Identities=9%  Similarity=0.008  Sum_probs=142.4

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcch
Q 048281          300 DIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDV  379 (660)
Q Consensus       300 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  379 (660)
                      |+..+..+...+.+.+++++|++.|++..+.|   +...+..+-..+..                 |..           
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~-----------------G~~-----------   49 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQ-----------------GQG-----------   49 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH-----------------TSS-----------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHc-----------------CCC-----------
Confidence            34566667777777788888888888777654   44333333322221                 000           


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCC-CCHhHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048281          380 FMNNALMDMYTKCGSMRDAQMVFTKMSK-KDVASWNIMILGYGM----DGQGKEALDMFSCMCEAKLKPDEVTFVGVLSA  454 (660)
Q Consensus       380 ~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  454 (660)
                                 ...+...|...+..... .+...+..+...+..    .++.+.|...++...+.|...... .......
T Consensus        50 -----------~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~-~l~~~~~  117 (265)
T d1ouva_          50 -----------VEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCA-SLGGIYH  117 (265)
T ss_dssp             -----------SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHH-HHHHHHH
T ss_pred             -----------cchhHHHHHHhhcccccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhHHH-hhccccc
Confidence                       02334444444443332 233334344333332    456777888888877765322211 1111111


Q ss_pred             --HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH---
Q 048281          455 --CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR----AGQLNEAYELALAMPNEANPVVWRTLLAASRL---  525 (660)
Q Consensus       455 --~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~---  525 (660)
                        .........+...+.....    ..+...+..|...|..    ..+...+...++......++.....+...|..   
T Consensus       118 ~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~  193 (265)
T d1ouva_         118 DGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEG  193 (265)
T ss_dssp             HCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS
T ss_pred             CCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcc
Confidence              1234456677777776654    2445566777777764    45677788888776656678888778777766   


Q ss_pred             -cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHh----CCChHHHHHHHHHHHhCCC
Q 048281          526 -HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVA----GGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       526 -~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  578 (660)
                       ..+.+.|+..|+++.+..  ++..+..|+.+|.+    ..+.++|.++|++..+.|-
T Consensus       194 ~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         194 ATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             SCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             cccchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence             568999999999998874  56788899999986    3489999999999988775

>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=98.14  E-value=2.6e-05  Score=65.78  Aligned_cols=132  Identities=6%  Similarity=-0.072  Sum_probs=94.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHh
Q 048281          413 WNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLG  492 (660)
Q Consensus       413 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  492 (660)
                      +......+...|++++|+..|.++++.            ...............         --+.....|..+..+|.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~~~---------~~~~~~~~~~nla~~~~   88 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADGAK---------LQPVALSCVLNIGACKL   88 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHHGG---------GHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHHHH---------hChhhHHHHHHHHHHHH
Confidence            344566677888899998888877642            000000011111100         01123456778889999


Q ss_pred             hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHH
Q 048281          493 RAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEE  565 (660)
Q Consensus       493 ~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  565 (660)
                      +.|++++|+..++++..  +.++..|..++.++...|++++|+..|+++++++|+++.++..+..+..+.....+
T Consensus        89 ~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1          89 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHH
Confidence            99999999999998654  56778999999999999999999999999999999998888888777655444433

>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=98.13  E-value=1.7e-05  Score=65.57  Aligned_cols=127  Identities=9%  Similarity=-0.128  Sum_probs=92.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHH
Q 048281          411 ASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDM  490 (660)
Q Consensus       411 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  490 (660)
                      ..+...+..+.+.|++.+|+..|.+++..-  |...           .............        ....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~-----------~~~~~~~~~~~~~--------~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTE-----------EWDDQILLDKKKN--------IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCT-----------TCCCHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cchh-----------hhhhHHHHHhhhh--------HHHHHHhhHHHH
Confidence            456667778888888888888888887631  1100           0000000000111        123467788999


Q ss_pred             HhhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 048281          491 LGRAGQLNEAYELALAMPN--EANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYV  558 (660)
Q Consensus       491 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  558 (660)
                      |.+.|++++|++.++++..  +.+..+|..++.++...|++++|+..|+++++++|+++.+...+..+..
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            9999999999999998654  5577899999999999999999999999999999999887776665543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.12  E-value=4.9e-07  Score=91.82  Aligned_cols=206  Identities=13%  Similarity=0.016  Sum_probs=107.4

Q ss_pred             HHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHh---HHHHHHHHHHhcCChHHHH
Q 048281          354 HGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVA---SWNIMILGYGMDGQGKEAL  430 (660)
Q Consensus       354 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~A~  430 (660)
                      +|.+.++.+.......         ...+..+..+|...|++++|   |+++...|..   .++.  ....-...+..++
T Consensus         4 eA~q~~~qA~~l~p~~---------a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~~a~~~~~--e~~Lw~~~y~~~i   69 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADM---------TDSKLGPAEVWTSRQALQDL---YQKMLVTDLEYALDKKV--EQDLWNHAFKNQI   69 (497)
T ss_dssp             HHHHHHHHHHHHHGGG---------TCSSSCSSSSHHHHHHHHHH---HHHHHHHCHHHHHHHTH--HHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHcCCCC---------HHHHhhHHHHHHHHchHHHH---HHHHHHcChhhHHHHhH--HHHHHHHHHHHHH
Confidence            4555666665543333         33444556666667777665   4443322221   1111  1111111245677


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHH--hccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 048281          431 DMFSCMCEAKLKPDEVTFVGVLSAC--SHSGFLSQGREFLPLMESRYGVVP-TIEHYTCVIDMLGRAGQLNEAYELALAM  507 (660)
Q Consensus       431 ~~~~~m~~~g~~p~~~~~~~ll~~~--~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  507 (660)
                      +.+++..+....++..-....+..+  ...+.++.++..+....   ++.| +...+..+...+.+.|+.++|...++..
T Consensus        70 e~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~---~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a  146 (497)
T d1ya0a1          70 TTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVF---NVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSS  146 (497)
T ss_dssp             HHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC----------------------------------CCHH
T ss_pred             HHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHH
Confidence            7777777654444443332222222  12334445544444332   3333 4566777888888999998888776554


Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          508 PNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       508 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .......++..++..+...|++++|+..|+++++++|+++..|..|+.++...|+..+|...+.+....
T Consensus       147 l~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~  215 (497)
T d1ya0a1         147 CSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAV  215 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSS
T ss_pred             hCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            321123567788899999999999999999999999999999999999999999999999999887654

>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=98.07  E-value=1.7e-05  Score=66.91  Aligned_cols=63  Identities=6%  Similarity=-0.031  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      .+|..+..+|.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...++++.+.
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456778889999999999999999999999999999999999999999999999999998874

>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=0.0031  Score=56.92  Aligned_cols=228  Identities=13%  Similarity=-0.053  Sum_probs=124.8

Q ss_pred             CchHHHHHHHHHHcCCCHHHHHHHHHhcCC-CChhhHHHHHHHHHH----cCChHHHHHHHHHHhhcCCCCCHHHHHHHH
Q 048281          269 GVPVMNALIDMYGKGKCVGEALEIFEMMEE-KDIFSWNSIMTVHEQ----CGNHDGTLRLFDRMLSAGFQPDLVTFSTVL  343 (660)
Q Consensus       269 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll  343 (660)
                      |+..+..|...+.+.+++++|+++|++..+ .+..++..|...|..    ..+...|...+......+. |  .....+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~-~--~a~~~l~   77 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY-S--NGCHLLG   77 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC-H--HHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc-c--chhhccc
Confidence            345667778888899999999999998754 466777777777766    5577778877777766542 2  1122221


Q ss_pred             HHH----hcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCHhHHHHHHHH
Q 048281          344 PAC----SHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMSKKDVASWNIMILG  419 (660)
Q Consensus       344 ~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~  419 (660)
                      ..+    ....+.+.+...+......|...           ....+...+...                           
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~-----------a~~~l~~~~~~~---------------------------  119 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYAE-----------GCASLGGIYHDG---------------------------  119 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCHH-----------HHHHHHHHHHHC---------------------------
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhhh-----------HHHhhcccccCC---------------------------
Confidence            111    22344555555555555444322           111121222110                           


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh--
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSH----SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR--  493 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  493 (660)
                      .........+...+......   .+...+..+...+..    ..+...+..+++...+. +   +......|...|..  
T Consensus       120 ~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~-g---~~~A~~~lg~~y~~g~  192 (265)
T d1ouva_         120 KVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGE  192 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTC
T ss_pred             CcccchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhccccc-c---ccccccchhhhcccCc
Confidence            00122334444444444432   233334444443332    33455555555555442 2   33444445444443  


Q ss_pred             --cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCC
Q 048281          494 --AGQLNEAYELALAMPNEANPVVWRTLLAASRL----HGNTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       494 --~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p  544 (660)
                        ..+.++|...|++.....++..+..|...|..    ..+.++|.+.|+++.+..+
T Consensus       193 ~~~~d~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         193 GATKNFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             SSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             ccccchhhhhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence              45677777777766555566666666666654    3367778888887776654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.92  E-value=0.0021  Score=59.69  Aligned_cols=133  Identities=14%  Similarity=0.119  Sum_probs=70.5

Q ss_pred             CChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCcccHHHHHHHH
Q 048281           65 DSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCC  144 (660)
Q Consensus        65 ~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~  144 (660)
                      |+..--..+.+.|-+.|.++.|..+|.      +..-|..++..+.+.+++..|.+++.+..      +..+|..+..+|
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~------~~~d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l   79 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYN------NVSNFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFAC   79 (336)
T ss_dssp             C----------------CTTTHHHHHH------HTTCHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHH------hCCCHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHH
Confidence            343444455566667777777777776      33346677777777777777776665431      455666777776


Q ss_pred             hhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHHccCC---CCCchhHHHHHHHHHhCC
Q 048281          145 CDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVFEELP---LRDVVLWNAMVNGYAQIG  214 (660)
Q Consensus       145 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~  214 (660)
                      .+......+.     +...+...+......++..|-..|.+++...+++...   ..+...++.++..|++.+
T Consensus        80 ~~~~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          80 VDGKEFRLAQ-----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHTTCHHHHH-----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC
T ss_pred             HhCcHHHHHH-----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC
Confidence            6665554331     1122233344445567777777777777777776543   335556677777776653

>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=97.88  E-value=0.0071  Score=55.98  Aligned_cols=273  Identities=10%  Similarity=0.003  Sum_probs=156.3

Q ss_pred             hhHHHHHHHhhccCChhHHHHHHHHHHHhCCCCChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcC
Q 048281           33 ATCIASLQLCAHQTNLQKGQEIHSYMLRTGIIDSPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSN  112 (660)
Q Consensus        33 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~  112 (660)
                      .....+...|...|.++.|..+|..+         .-|..++..|.+.+++..|.+++. ..  -+..+|..+...+.+.
T Consensus        15 ~d~~~i~~~c~~~~lye~A~~lY~~~---------~d~~rl~~~~v~l~~~~~avd~~~-k~--~~~~~~k~~~~~l~~~   82 (336)
T d1b89a_          15 AHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGAR-KA--NSTRTWKEVCFACVDG   82 (336)
T ss_dssp             --------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHH-HH--TCHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHhC---------CCHHHHHHHHHhhccHHHHHHHHH-Hc--CCHHHHHHHHHHHHhC
Confidence            34566788899999999999999844         336788899999999999999887 22  3556888888888887


Q ss_pred             CChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHHHHhHhcCChHHHHHHH
Q 048281          113 DFAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALVNTYLKCQFMEEALKVF  192 (660)
Q Consensus       113 ~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  192 (660)
                      .....+     .+.......+......++..|-..|.+++...+++..... -..+...++.++..|++.+. ++-.+.+
T Consensus        83 ~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e~l  155 (336)
T d1b89a_          83 KEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-QKMREHL  155 (336)
T ss_dssp             TCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HHHHHHH
T ss_pred             cHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HHHHHHH
Confidence            655443     2223334446666678889999999999999998877543 24566778889999988764 4444444


Q ss_pred             ccCCCC-----------CchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchhHHHHHHHH
Q 048281          193 EELPLR-----------DVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKNGRVVHGIV  261 (660)
Q Consensus       193 ~~~~~~-----------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  261 (660)
                      ......           ....|.-++-.|.+.|+++.|+.+.-.     -.++..-....+..+.+..+.+...++....
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-----HPTDAWKEGQFKDIITKVANVELYYRAIQFY  230 (336)
T ss_dssp             HHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH-----STTTTCCHHHHHHHHHHCSSTHHHHHHHHHH
T ss_pred             HhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHH-----cchhhhhHHHHHHHHHccCChHHHHHHHHHH
Confidence            433211           122355555566666666665554322     2344444555566666777766666666555


Q ss_pred             HHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCCCCHHHHHH
Q 048281          262 VKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQPDLVTFST  341 (660)
Q Consensus       262 ~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  341 (660)
                      .+..    +...+.|+......-+.....+.+++                  .++.......++.....|   +....++
T Consensus       231 L~~~----p~~i~~lL~~v~~~~d~~r~V~~~~k------------------~~~l~li~p~Le~v~~~n---~~~vn~a  285 (336)
T d1b89a_         231 LEFK----PLLLNDLLMVLSPRLDHTRAVNYFSK------------------VKQLPLVKPYLRSVQNHN---NKSVNES  285 (336)
T ss_dssp             HHHC----GGGHHHHHHHHGGGCCHHHHHHHHHH------------------TTCTTTTHHHHHHHHTTC---CHHHHHH
T ss_pred             HHcC----HHHHHHHHHHhccCCCHHHHHHHHHh------------------cCCcHHHHHHHHHHHHcC---hHHHHHH
Confidence            5431    23334455544444455554444443                  344444444444443333   2234455


Q ss_pred             HHHHHhcccchHH
Q 048281          342 VLPACSHLAALMH  354 (660)
Q Consensus       342 ll~~~~~~~~~~~  354 (660)
                      +...+...++++.
T Consensus       286 l~~lyie~~d~~~  298 (336)
T d1b89a_         286 LNNLFITEEDYQA  298 (336)
T ss_dssp             HHHHHHHTTCHHH
T ss_pred             HHHHHhCcchhHH
Confidence            5555555555433

>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=97.86  E-value=4.2e-05  Score=64.80  Aligned_cols=118  Identities=12%  Similarity=0.064  Sum_probs=83.8

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHH
Q 048281          452 LSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPNEANPVVWRTLLAASRLHGNTDL  531 (660)
Q Consensus       452 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  531 (660)
                      .......|++++|.+.|.....-+.-.+-..        + ..+.+-  ...-..+. +.....+..+..++...|++++
T Consensus        18 g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~--------~-~~~~w~--~~~r~~l~-~~~~~a~~~la~~~~~~g~~~~   85 (179)
T d2ff4a2          18 GVHAAAAGRFEQASRHLSAALREWRGPVLDD--------L-RDFQFV--EPFATALV-EDKVLAHTAKAEAEIACGRASA   85 (179)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCSSTTGG--------G-TTSTTH--HHHHHHHH-HHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCccccccc--------C-cchHHH--HHHHHHHH-HHHHHHHHHHHHHHHHCCCchH
Confidence            3467788899999999998876321111000        0 011111  11111111 1234578889999999999999


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHH-----hCCCccC
Q 048281          532 AEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMR-----QQNVRKN  581 (660)
Q Consensus       532 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~~~  581 (660)
                      |+..++++++.+|.+...|..++.+|...|++++|++.|+++.     +.|+.|.
T Consensus        86 Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          86 VIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence            9999999999999999999999999999999999999999873     3577654

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.85  E-value=6.4e-05  Score=58.08  Aligned_cols=87  Identities=13%  Similarity=-0.081  Sum_probs=44.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCC
Q 048281          417 ILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQ  496 (660)
Q Consensus       417 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  496 (660)
                      ...+.+.|++++|+..|++.+... +-+...|..+..++.+.|++++|+..++.+.+  -.+.+...+..+...|...|+
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccc--cccccccchHHHHHHHHHCCC
Confidence            444555555555555555555532 11344455555555555555555555555554  122334455555555555555


Q ss_pred             HHHHHHHHHh
Q 048281          497 LNEAYELALA  506 (660)
Q Consensus       497 ~~~A~~~~~~  506 (660)
                      +++|.+.+++
T Consensus       100 ~~~A~~~l~~  109 (112)
T d1hxia_         100 ANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555543

>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=97.76  E-value=2.8e-05  Score=63.41  Aligned_cols=44  Identities=16%  Similarity=0.143  Sum_probs=32.7

Q ss_pred             ChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCC
Q 048281          528 NTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNV  578 (660)
Q Consensus       528 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  578 (660)
                      ++++|.+.|+++++++|++...+..|...       ..|.+++.+..++|+
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            46889999999999999987666666554       456667776666654

>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=97.62  E-value=0.00036  Score=55.18  Aligned_cols=59  Identities=10%  Similarity=-0.056  Sum_probs=31.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 048281          414 NIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES  473 (660)
Q Consensus       414 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  473 (660)
                      ..+...|.+.|++++|+..|.+.++.+ +.+...+..+..+|.+.|++++|++.++.+++
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            344555555566666666665555542 22344555555555555555555555555543

>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=97.60  E-value=7.6e-05  Score=55.58  Aligned_cols=74  Identities=12%  Similarity=0.022  Sum_probs=55.3

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCC--------CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHH
Q 048281          483 HYTCVIDMLGRAGQLNEAYELALAMPN--------EA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLM  553 (660)
Q Consensus       483 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  553 (660)
                      .+-.+...+.+.|++++|...|++...        .+ ...++..+..++.+.|++++|+..++++++++|+++.++..+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            344556666667776666666655321        12 246788999999999999999999999999999998888777


Q ss_pred             HHH
Q 048281          554 SNI  556 (660)
Q Consensus       554 ~~~  556 (660)
                      ...
T Consensus        87 ~~~   89 (95)
T d1tjca_          87 KYF   89 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=97.59  E-value=2.1e-05  Score=64.27  Aligned_cols=84  Identities=7%  Similarity=-0.059  Sum_probs=59.5

Q ss_pred             hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHH----------cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhC
Q 048281          493 RAGQLNEAYELALAMPN--EANPVVWRTLLAASRL----------HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAG  560 (660)
Q Consensus       493 ~~g~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  560 (660)
                      +.+.+++|...|+....  +.++.++..+..++..          .+.+++|+..|+++++++|+++.+|..++.+|...
T Consensus         9 r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHc
Confidence            44445555555555422  3444555555555543          34568899999999999999999999999999887


Q ss_pred             CC-----------hHHHHHHHHHHHhC
Q 048281          561 GK-----------YEEVLDIRHTMRQQ  576 (660)
Q Consensus       561 g~-----------~~~a~~~~~~~~~~  576 (660)
                      |+           +++|.+.|++..+.
T Consensus        89 g~~~~~~~~~~~~~~~A~~~~~kal~l  115 (145)
T d1zu2a1          89 AFLTPDETEAKHNFDLATQFFQQAVDE  115 (145)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHhHHHhhhhhhccccc
Confidence            64           57888888887763

>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=97.55  E-value=0.00012  Score=60.46  Aligned_cols=64  Identities=11%  Similarity=-0.070  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-----------cchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          513 PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH-----------CGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       513 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ..+|+.+..+|...|++++|...+++++++.|..           ...+..++.+|...|++++|...|++..+.
T Consensus        55 a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          55 AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3578888889999999999999999988763321           235788999999999999999999998653

>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=97.46  E-value=2.9e-05  Score=78.35  Aligned_cols=114  Identities=9%  Similarity=-0.127  Sum_probs=69.8

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 048281          379 VFMNNALMDMYTKCGSMRDAQMVFTKMSKKD-VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSH  457 (660)
Q Consensus       379 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  457 (660)
                      ...+..+...+.+.|+.+.|...+.....++ ..++..+...+...|++++|+..|++..+.. +-+...|+.+...+..
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASS  198 (497)
T ss_dssp             -----------------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            5566777888888888888887776554332 2467778888889999999999999998852 3345788889889999


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcC
Q 048281          458 SGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAG  495 (660)
Q Consensus       458 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  495 (660)
                      .|+..+|...|.+...  -.+|-...+..|...+.+..
T Consensus       199 ~~~~~~A~~~y~ral~--~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSIA--VKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             TTCHHHHHHHHHHHHS--SSBCCHHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHh--CCCCCHHHHHHHHHHHHHhh
Confidence            9999999999998876  45567778888888776543

>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=97.44  E-value=0.00015  Score=65.56  Aligned_cols=126  Identities=13%  Similarity=0.025  Sum_probs=86.7

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHHhhcCCHHH
Q 048281          421 GMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPT-IEHYTCVIDMLGRAGQLNE  499 (660)
Q Consensus       421 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~  499 (660)
                      .+.|++++|+..+++.++.. +-|...+..+...++..|++++|...++...+   ..|+ ...+..+..++...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccHH
Confidence            45688999999999988863 44567788888889999999999999998876   2343 4555555555555555554


Q ss_pred             HHHHHHh--CCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchH
Q 048281          500 AYELALA--MPNEA-NPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNY  550 (660)
Q Consensus       500 A~~~~~~--~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  550 (660)
                      +..-...  ...+| +...+......+...|+.++|...++++.+..|..+..+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            4333222  11122 223444456678888999999999999999988876543

>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=97.39  E-value=0.00043  Score=51.25  Aligned_cols=63  Identities=8%  Similarity=-0.027  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------cchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          514 VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH-------CGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       514 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ..+..++..+.+.|++++|+..|++++++.|.+       +.++..|+.+|.+.|++++|+..++++.+.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            345578889999999999999999999875543       357889999999999999999999999874

>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=97.19  E-value=0.00015  Score=65.60  Aligned_cols=120  Identities=14%  Similarity=0.043  Sum_probs=87.0

Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHHcCChHHH
Q 048281          455 CSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNEAYELALAMPN-EA-NPVVWRTLLAASRLHGNTDLA  532 (660)
Q Consensus       455 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A  532 (660)
                      ..+.|++++|+..+++.++  .-+.+...+..+..+|+..|++++|.+.++.... .| +...+..+...+...+..+++
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            3467999999999999998  5667789999999999999999999999998654 34 455666666665544444433


Q ss_pred             HHHHHHHHh-cCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhC
Q 048281          533 EIAAQRVFQ-LEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQ  576 (660)
Q Consensus       533 ~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  576 (660)
                      ......... ..|+....+...+..+...|+.++|...+.++.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            222221111 13444445566778889999999999999998664

>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=97.14  E-value=0.0013  Score=54.05  Aligned_cols=65  Identities=12%  Similarity=-0.033  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCCC--------CCC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 048281          482 EHYTCVIDMLGRAGQLNEAYELALAMPN--------EAN-----PVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGH  546 (660)
Q Consensus       482 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  546 (660)
                      ..|+.+..+|...|++++|...+++...        .++     ...+..+..+|...|++++|+..|++++++.|..
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence            3455666666666666666665554321        111     2356778899999999999999999999986544

>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=97.07  E-value=0.0049  Score=51.52  Aligned_cols=73  Identities=11%  Similarity=0.031  Sum_probs=56.2

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH----hcCCCCChHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMES----RYGVVPTIEH  483 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  483 (660)
                      ...+..+...+...|++++|+..++++++.. +-+...|..++.++...|+..+|++.|+.+.+    ..|+.|+..+
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3466777888888888888888888888753 44667788888888888888888888888743    2588888654

>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=95.91  E-value=0.21  Score=37.18  Aligned_cols=141  Identities=11%  Similarity=0.065  Sum_probs=102.4

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhhcCCHHH
Q 048281          420 YGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGRAGQLNE  499 (660)
Q Consensus       420 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  499 (660)
                      +.-.|..++..+++.+....   .+..-|+.++.-....-+-+...++++.+-+-+.+.              .++++..
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            44567888888888888763   356667777777777777788888888876533322              3444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHhCCCc
Q 048281          500 AYELALAMPNEANPVVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYEEVLDIRHTMRQQNVR  579 (660)
Q Consensus       500 A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  579 (660)
                      ...-+-.+.  .+...++..+....++|+-+.-.++++.+++.+.-+|+....++.+|.+.|...++-+++.+..+.|++
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            444333332  244455667788889999999999999988876667888999999999999999999999999998874

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.68  E-value=0.059  Score=42.04  Aligned_cols=82  Identities=6%  Similarity=-0.105  Sum_probs=50.8

Q ss_pred             CCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHh----CCChHHH
Q 048281          495 GQLNEAYELALAMPNEANPVVWRTLLAASRL----HGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVA----GGKYEEV  566 (660)
Q Consensus       495 g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a  566 (660)
                      .+.++|.+.+++.....++.....|...|..    ..+.++|.+.|+++.+.  .++.....|+.+|..    ..+.++|
T Consensus        37 ~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~--g~~~a~~~Lg~~y~~G~gv~~d~~~A  114 (133)
T d1klxa_          37 INKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQA  114 (133)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             cCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhcc--CcchHHHHHHHHHHcCCccCCCHHHH
Confidence            3445555555554434445555555544443    34567777777777664  345667777777776    3577888


Q ss_pred             HHHHHHHHhCCC
Q 048281          567 LDIRHTMRQQNV  578 (660)
Q Consensus       567 ~~~~~~~~~~~~  578 (660)
                      .+++++..+.|.
T Consensus       115 ~~~~~~Aa~~G~  126 (133)
T d1klxa_         115 VKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHCCC
Confidence            888888777664

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.63  E-value=0.045  Score=41.38  Aligned_cols=64  Identities=6%  Similarity=-0.080  Sum_probs=35.9

Q ss_pred             CHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCCCCc-chHHHHHHHHHhCCChHHHHHHHHHHHh
Q 048281          512 NPVVWRTLLAASRLHG---NTDLAEIAAQRVFQLEPGHC-GNYVLMSNIYVAGGKYEEVLDIRHTMRQ  575 (660)
Q Consensus       512 ~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  575 (660)
                      .+.+-.....++.+..   +.++|+.+++++++.+|.+. ..+..|+.+|.+.|++++|++.++++.+
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            3344444555555443   33456666666666555442 4555666666666666666666666655

>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=94.52  E-value=0.27  Score=37.95  Aligned_cols=111  Identities=11%  Similarity=-0.014  Sum_probs=75.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHHhh----cCCHHHH
Q 048281          425 QGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVIDMLGR----AGQLNEA  500 (660)
Q Consensus       425 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  500 (660)
                      ++++|+++|++..+.| .|.  ....|.  .....+.++|..+++...+. |   ++.....|..+|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g-~~~--a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELN-EMF--GCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTT-CTT--HHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCC-Chh--hhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            5678888888888776 222  222222  33456788888888887763 4   34455556666654    4578889


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhcCC
Q 048281          501 YELALAMPNEANPVVWRTLLAASRL----HGNTDLAEIAAQRVFQLEP  544 (660)
Q Consensus       501 ~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p  544 (660)
                      .++|++.....++.....|...|..    ..|.++|...++++.++..
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            9998887666677777777777765    4578889999988877643

>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=92.66  E-value=0.45  Score=35.70  Aligned_cols=71  Identities=11%  Similarity=-0.017  Sum_probs=47.3

Q ss_pred             CChHHHHHHHHHHhhcC---CHHHHHHHHHhCCC-CC-CH-HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcch
Q 048281          479 PTIEHYTCVIDMLGRAG---QLNEAYELALAMPN-EA-NP-VVWRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGN  549 (660)
Q Consensus       479 ~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~-~~-~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  549 (660)
                      +++.+--....++.++.   +.++++.+++++.. .| +. ..|-.|.-+|.+.|++++|.+.++++++.+|++..+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            34444444445555443   34566666666432 22 32 466778888999999999999999999999998543

>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=92.03  E-value=1.7  Score=32.23  Aligned_cols=140  Identities=9%  Similarity=-0.010  Sum_probs=78.6

Q ss_pred             HHHcCChHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhcccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHH
Q 048281          311 HEQCGNHDGTLRLFDRMLSAGFQPDLVTFSTVLPACSHLAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYT  390 (660)
Q Consensus       311 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~  390 (660)
                      +.-.|..++..+++.+....   .+..-|+.+|--....-+-+...+.++.+-+   -.+                  ..
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~---~FD------------------ls   67 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFD------------------LD   67 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSC------------------GG
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhh---hcC------------------ch
Confidence            34457777777777776653   2444555555544444444444444443311   111                  11


Q ss_pred             hcCCHHHHHHHHhcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 048281          391 KCGSMRDAQMVFTKMSKKDVASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPL  470 (660)
Q Consensus       391 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  470 (660)
                      +++++......+-.+.. +....+.-+..+...|+-++-.++++.+.+.+ +|++.....+..+|.+.|+..++.+++.+
T Consensus        68 ~C~Nlk~vv~C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~  145 (161)
T d1wy6a1          68 KCQNLKSVVECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIE  145 (161)
T ss_dssp             GCSCTHHHHHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhcHHHHHHHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            23333333333332221 22334445566777777777777777766644 67777777777788888888888888887


Q ss_pred             hHHhcCC
Q 048281          471 MESRYGV  477 (660)
Q Consensus       471 ~~~~~~~  477 (660)
                      +-++ |+
T Consensus       146 ACe~-G~  151 (161)
T d1wy6a1         146 ACKK-GE  151 (161)
T ss_dssp             HHHT-TC
T ss_pred             HHHH-hH
Confidence            7764 54

>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=90.79  E-value=6.9  Score=36.96  Aligned_cols=355  Identities=9%  Similarity=-0.043  Sum_probs=195.4

Q ss_pred             HHHHHhHhcCChHHHHHHHccCCCCCchhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCchh
Q 048281          174 ALVNTYLKCQFMEEALKVFEELPLRDVVLWNAMVNGYAQIGEFHKALEVFRRMSKEGIWMSRFTVTGVLSALIMMGFFKN  253 (660)
Q Consensus       174 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~  253 (660)
                      .-+..+.+.++.......+...+ .+...-.....+....|+.+.|.+.+..+=..|. .                ..+.
T Consensus        77 ~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~-~----------------~p~~  138 (450)
T d1qsaa1          77 RFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-S----------------QPNA  138 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-C----------------CCTH
T ss_pred             HHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-C----------------CchH
Confidence            34556667788777666554322 2444445667778888888888887776644432 1                1222


Q ss_pred             HHHHHHHHHHhCCCCCchHHHHHHHHHHcCCCHHHHHHHHHhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHhhcCCC
Q 048281          254 GRVVHGIVVKMGYDSGVPVMNALIDMYGKGKCVGEALEIFEMMEEKDIFSWNSIMTVHEQCGNHDGTLRLFDRMLSAGFQ  333 (660)
Q Consensus       254 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  333 (660)
                      +..++..+.+.|. .+...+-.-+......|+...|..+...+...........+.....   ...+......   .  .
T Consensus       139 c~~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~---~--~  209 (450)
T d1qsaa1         139 CDKLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFART---T--G  209 (450)
T ss_dssp             HHHHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH---S--C
T ss_pred             HHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc---C--C
Confidence            3334444444432 2333333445555667888888888887765544444555544332   2222222211   1  2


Q ss_pred             CCHHHHHHHHHHHhc--ccchHHHHHHHHHHHHhCccCCCCCCCCcchhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCC
Q 048281          334 PDLVTFSTVLPACSH--LAALMHGRQIHGYIVVNGLAKNGSCKDIDDVFMNNALMDMYTKCGSMRDAQMVFTKMS--KKD  409 (660)
Q Consensus       334 p~~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~  409 (660)
                      ++......+..++.+  ..+.+.+...+...........     ..-......+.......+..+.+...+....  ..+
T Consensus       210 ~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~-----~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~  284 (450)
T d1qsaa1         210 ATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNE-----DQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQS  284 (450)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCH-----HHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCC
T ss_pred             CChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccH-----HHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccc
Confidence            233333333333333  2466777777766655432221     0001111222233334566677776665543  223


Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          410 VASWNIMILGYGMDGQGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       410 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      .....-.+......++...+...+..|... ......-.--+..++...|+.+.|..+|..+..    .++  .|.-|..
T Consensus       285 ~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa  357 (450)
T d1qsaa1         285 TSLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAA  357 (450)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHH
T ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHH
Confidence            333333444556678889998888877542 122334445567888999999999999998854    233  4444432


Q ss_pred             HHhhcCCHHHHHHHH-HhCCCCCCH-HH---HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCcchHHHHHHHHHhCCChH
Q 048281          490 MLGRAGQLNEAYELA-LAMPNEANP-VV---WRTLLAASRLHGNTDLAEIAAQRVFQLEPGHCGNYVLMSNIYVAGGKYE  564 (660)
Q Consensus       490 ~~~~~g~~~~A~~~~-~~~~~~~~~-~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  564 (660)
                      .  +.|..-   .+- ...+..+.. ..   -..-+..+...|....|...+..+....  ++.-...++.+..+.|.++
T Consensus       358 ~--~Lg~~~---~~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~  430 (450)
T d1qsaa1         358 Q--RIGEEY---ELKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWD  430 (450)
T ss_dssp             H--HTTCCC---CCCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHH
T ss_pred             H--HcCCCC---CCCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChh
Confidence            2  222210   000 001111111 11   1123456778899999999998887643  3456778899999999999


Q ss_pred             HHHHHHHHHH
Q 048281          565 EVLDIRHTMR  574 (660)
Q Consensus       565 ~a~~~~~~~~  574 (660)
                      .|+....+..
T Consensus       431 ~aI~a~~~~~  440 (450)
T d1qsaa1         431 LSVQATIAGK  440 (450)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHH
Confidence            9998877653

>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=89.01  E-value=9.5  Score=35.93  Aligned_cols=91  Identities=4%  Similarity=-0.075  Sum_probs=53.7

Q ss_pred             HHHHHHHHhCCCC-ChhHHHHHHHHhHcCCChhHHHHHHccCCCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCC
Q 048281           53 EIHSYMLRTGIID-SPLSITSLINMYSKCCQMKYALFVFNNLSCEPNVFTYNAMISGFYSNDFAFKGLDFFNHMRQLGVL  131 (660)
Q Consensus        53 ~~~~~~~~~g~~~-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  131 (660)
                      ++-..+.++.-.| ........+..+.+.+++......+. . .++++..--....+....|+...|...+..+-..|..
T Consensus        57 ~i~~Fl~~~p~~P~~~~lr~~~l~~L~~~~~w~~~~~~~~-~-~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~  134 (450)
T d1qsaa1          57 TVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSP-E-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS  134 (450)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCC-S-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC
T ss_pred             HHHHHHHHCCCChhHHHHHHHHHHHHHhccCHHHHHHhcc-C-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Confidence            4444455543222 22334455677888899988887665 2 2234443445677888899999998888877665532


Q ss_pred             CCcccHHHHHHHHhh
Q 048281          132 PDKYTFPCLIKCCCD  146 (660)
Q Consensus       132 p~~~t~~~ll~~~~~  146 (660)
                       ....+..+...+..
T Consensus       135 -~p~~c~~l~~~~~~  148 (450)
T d1qsaa1         135 -QPNACDKLFSVWRA  148 (450)
T ss_dssp             -CCTHHHHHHHHHHH
T ss_pred             -CchHHHHHHHHHHh
Confidence             33334444444333

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=86.65  E-value=2.6  Score=29.55  Aligned_cols=63  Identities=21%  Similarity=0.314  Sum_probs=49.8

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 048281          425 QGKEALDMFSCMCEAKLKPDEVTFVGVLSACSHSGFLSQGREFLPLMESRYGVVPTIEHYTCVID  489 (660)
Q Consensus       425 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  489 (660)
                      +.-++.+-+..+....+.|++....+.+.+|.+.+++..|.++++.++.+.+  ++...|..+++
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            4556777777777788899999999999999999999999999999887533  34556666654

>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=84.80  E-value=4.4  Score=28.34  Aligned_cols=62  Identities=11%  Similarity=0.110  Sum_probs=43.8

Q ss_pred             ChhHHHHHHHHHHHCCCCCCcccHHHHHHHHhhhCCHHHHHHHHHHHHHhCCCCChhHHHHHH
Q 048281          114 FAFKGLDFFNHMRQLGVLPDKYTFPCLIKCCCDVMAVLEVKKIHGLVFKLGLDLDVYIGSALV  176 (660)
Q Consensus       114 ~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  176 (660)
                      +.-++.+-++.+....+.|++....+.+++|.+.+++..|.++++.++... .++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            344566667777777788888888888888888888888888888776543 22344555444