Citrus Sinensis ID: 012365

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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-----
Protein Sequence
MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTYTIPSLQKERGFEKDRDTLLLHKERR
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccccccHHHccHHHHcHHHHHHHcccHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHccccccEEEEHHHHccc
Coil and Loop (DISEMBL)
mhakleitpssasyKKLITYSCDLLKVHVALDVVEQMVqgelvpsteTINSILHACEESyefnlvrriypmichhnlkpnsetFRSMISLNVKIKDFDSAYSLLddlkemnlmptaSMYNAIMAGYFRKKDVQGALMVLKEMeqanvkpdsqtFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLdaeipvksrSEVKSALVSALAshgrtsdaIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEevhdpdywmdgccrliLHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQiattdppdvqIGLDLLQFIKdelglppsrkcLDFLLGACVNARDLKRAHLIWKEYenaglpynVLSYLWMYKAFLASGNRKSASKLLskmpkddphvRFVIQACKQtytipslqkergfekdRDTLLLHKERR
Flexible Loop (DISEMBL)
mhakleitpssasykKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQanvkpdsqTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAeipvksrseVKSALVSAlashgrtsdAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQtytipslqkergfekdrdtlllhkerr
Low Complexity Region (SEG)
MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATdllkqlkdkfkddEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTYTIPSLQKERGFEKDRDTLLLHKERR
Disordered region (IsUnstruct)
*************YKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKS***VKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLAS******************HVRFVIQACKQTYTIP**********************
Disordered Region (DISOPRED)
M***LEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTYTIPSLQKERGFEKDRDTLLLHKERR
Disordered Region (DISEMBL)
MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTYTIPSLQKERGFEKDRDTLLLHKERR
Disordered Region (DISPRO)
****LEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTYTIPSLQKERGFEKDRDTLLLHKERR
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTYTIPSLQKERGFEKDRDTLLLHKERR
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	465	2.2.26 [Sep-21-2011]
Q6NQ81	821	Pentatricopeptide repeat-	yes	no	0.948	0.537	0.505	1e-135
O49711	843	Pentatricopeptide repeat-	no	no	0.948	0.523	0.498	1e-132
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.666	0.414	0.255	3e-22
Q9LSL9	915	Pentatricopeptide repeat-	no	no	0.550	0.279	0.243	1e-17
Q9LYZ9	819	Pentatricopeptide repeat-	no	no	0.870	0.494	0.218	1e-15
Q940A6	838	Pentatricopeptide repeat-	no	no	0.658	0.365	0.227	2e-15
P0C894	761	Putative pentatricopeptid	no	no	0.823	0.503	0.206	1e-13
Q9FJE6	907	Putative pentatricopeptid	no	no	0.877	0.449	0.205	2e-13
Q0WMY5	952	Pentatricopeptide repeat-	no	no	0.722	0.352	0.185	2e-13
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.864	0.542	0.193	2e-13

>sp|Q6NQ81|PP304_ARATH Pentatricopeptide repeat-containing protein At4g04790, mitochondrial OS=Arabidopsis thaliana GN=At4g04790 PE=2 SV=2

 Score =  482 bits (1240), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 223/441 (50%), Positives = 332/441 (75%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           MH +L++ PSS SY+KL+ YSCD  +V  ALDVVE+M +  L+ S + ++S+LHA +E  
Sbjct: 363 MHEELDVMPSSTSYEKLVKYSCDSNEVVTALDVVEKMGEAGLMISADILHSLLHAIDEVL 422

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EF+LVRRI+ ++C  ++KPN+E FRS+I L  +IKDF+ AY++L +LK  NL P +SM+N
Sbjct: 423 EFDLVRRIHSIMCTKSVKPNTENFRSIIRLCTRIKDFEGAYNMLGNLKNFNLEPNSSMFN 482

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
            I+AGYFR+K+V  ALMV+K+M++A VKPDS TF YLI+NC+ E+ I KYYE++K AG Q
Sbjct: 483 CILAGYFREKNVSSALMVVKQMKEAGVKPDSITFGYLINNCTQEDAITKYYEEMKQAGVQ 542

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
            TK ++M+LI+AY   G+FEKA+QV++D ++P  +++E+KS L+SALAS G+ +DA+ +Y
Sbjct: 543 ATKRIYMSLIDAYAASGKFEKAKQVLVDPDVPAINQNELKSVLISALASRGKWADALHIY 602

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EE+++A C+++P+++I+LIE+ +S+GEL+ L+QL +++ D   W+DG  R+IL  VR K+
Sbjct: 603 EEMRKAECHVDPKSIISLIEYSDSKGELSTLVQLADDLQDDTSWIDGFFRMILFAVRNKK 662

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
            S   DLLK+ K +     + +E HF E+F  IA T+P  V +G+DLL+F+KDELG  PS
Sbjct: 663 SSDIVDLLKRNKVRLLKKGIPVEAHFDEVFWAIAETEPSKVHLGMDLLRFMKDELGFVPS 722

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RKCLDFLL ACVNA+DL+   L+WKEY++A  P NVLS+L MY+  LA+G+ + A  L+S
Sbjct: 723 RKCLDFLLHACVNAKDLEHGLLVWKEYQSAAFPCNVLSFLRMYQVLLAAGDSEGAKALVS 782

Query: 421 KMPKDDPHVRFVIQACKQTYT 441
           K+PKDD  V+ +I+  +  ++
Sbjct: 783 KIPKDDKDVQHIIEESQSAFS 803

Arabidopsis thaliana (taxid: 3702)

>sp|O49711|PP335_ARATH Pentatricopeptide repeat-containing protein At4g21880, mitochondrial OS=Arabidopsis thaliana GN=At4g21880 PE=3 SV=2

 Score =  471 bits (1211), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 220/441 (49%), Positives = 325/441 (73%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           +H +L+I PSS SY+ L++Y C   +V  ALD+VE M +  LV S   ++S+L A E+  
Sbjct: 383 LHEELDIVPSSTSYENLVSYLCGSNEVVTALDIVENMCEAGLVISANILHSLLQAIEQIL 442

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EFNLV+RIY ++ + ++KPNSETFR  I+L ++IKDF+ AY++L +LK  NL P +SMYN
Sbjct: 443 EFNLVQRIYSIMSNKSVKPNSETFRKSINLCIRIKDFEGAYNMLGNLKNFNLAPNSSMYN 502

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
           +IMAGYFR+K V  AL VLKEM++A+VKPDS TFSYLI+ C  E  I KYY+++K AG +
Sbjct: 503 SIMAGYFREKKVNSALKVLKEMKEADVKPDSVTFSYLINYCGEEATIAKYYKEMKQAGVE 562

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
           + K+V+M+L+ AY +CG+FEKA+QV++D E+P K  +E+KS L+SALAS+G  ++A+ +Y
Sbjct: 563 VNKHVYMSLVKAYASCGQFEKAKQVLMDLEVPAKDHNELKSVLISALASNGNITEALSIY 622

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EE+K+  C +EP+A+++LIE+ +S  EL  L++L  E+ D  +W+DG  ++I+  VR  +
Sbjct: 623 EEMKKLRCPVEPKAILSLIENSDSNAELGTLVELTHELRDSKFWIDGFFKIIVFAVRNNR 682

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
            SS  DLL+Q K+    D++ +EY F E+F  IA T+  DV++GLDL+ F+K+EL L PS
Sbjct: 683 SSSILDLLEQTKNHLSKDDVGVEYWFEEVFKSIAETESSDVKVGLDLVSFMKEELELCPS 742

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RKCLDFLL ACVNA+D + A L+W+EY+ A LPYNV++YL MY+  +A+G+ KSA  ++S
Sbjct: 743 RKCLDFLLHACVNAKDKQSALLVWEEYQCAELPYNVINYLRMYQVLVAAGDSKSAEAIVS 802

Query: 421 KMPKDDPHVRFVIQACKQTYT 441
           K+P DD  V+ +I+  +  +T
Sbjct: 803 KIPNDDKDVKCIIKESRIVFT 823

Arabidopsis thaliana (taxid: 3702)

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

 Score =  107 bits (266), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 86/336 (25%), Positives = 157/336 (46%), Gaps = 26/336 (7%)

Query: 1   MHAKL---EITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACE 57
           MHA++    +TPS  +Y  LI   C    ++ A++ ++QM    L P+  T  +++    
Sbjct: 332 MHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFS 391

Query: 58  ESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTAS 117
           +    N   R+   +  +   P+  T+ ++I+ +      + A ++L+D+KE  L P   
Sbjct: 392 QKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKGLSPDVV 451

Query: 118 MYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNE---EDIIKYYEQL 174
            Y+ +++G+ R  DV  AL V +EM +  +KPD+ T+S LI     +   ++    YE++
Sbjct: 452 SYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTKEACDLYEEM 511

Query: 175 KSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRT 233
              G    ++ + ALINAY   G+ EKA Q+  +  E  V       S L++ L    RT
Sbjct: 512 LRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYSVLINGLNKQSRT 571

Query: 234 SDAI---------------IVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEV 278
            +A                + Y  + E   N+E ++V++LI+    +G +    Q+ E +
Sbjct: 572 REAKRLLLKLFYEESVPSDVTYHTLIENCSNIEFKSVVSLIKGFCMKGMMTEADQVFESM 631

Query: 279 HDPDYWMDGCCRLIL---HCVRFKQLSSATDLLKQL 311
              ++  DG    I+   HC R   +  A  L K++
Sbjct: 632 LGKNHKPDGTAYNIMIHGHC-RAGDIRKAYTLYKEM 666

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSL9|PP445_ARATH Pentatricopeptide repeat-containing protein At5g65560 OS=Arabidopsis thaliana GN=At5g65560 PE=2 SV=1

 Score = 91.3 bits (225), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 72/296 (24%), Positives = 132/296 (44%), Gaps = 40/296 (13%)

Query: 6   EITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLV 65
           +++P++ +Y +LI   C    VH A+ V+ +M++ +++P   T NS++     S  F+  
Sbjct: 423 KLSPNTRTYNELIKGYCKS-NVHKAMGVLNKMLERKVLPDVVTYNSLIDGQCRSGNFDSA 481

Query: 66  RRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG 125
            R+  ++    L P+  T+ SMI    K K  + A  L D L++  + P   MY A++ G
Sbjct: 482 YRLLSLMNDRGLVPDQWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVMYTALIDG 541

Query: 126 YFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN-CSN---------EEDIIKY----- 170
           Y +   V  A ++L++M   N  P+S TF+ LIH  C++         EE ++K      
Sbjct: 542 YCKAGKVDEAHLMLEKMLSKNCLPNSLTFNALIHGLCADGKLKEATLLEEKMVKIGLQPT 601

Query: 171 -----------------------YEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVL 207
                                  ++Q+ S+G +   + +   I  Y   G    A  ++ 
Sbjct: 602 VSTDTILIHRLLKDGDFDHAYSRFQQMLSSGTKPDAHTYTTFIQTYCREGRLLDAEDMMA 661

Query: 208 DA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHL 262
              E  V       S+L+      G+T+ A  V + +++ GC       ++LI+HL
Sbjct: 662 KMRENGVSPDLFTYSSLIKGYGDLGQTNFAFDVLKRMRDTGCEPSQHTFLSLIKHL 717

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYZ9|PP362_ARATH Pentatricopeptide repeat-containing protein At5g02860 OS=Arabidopsis thaliana GN=At5g02860 PE=2 SV=1

 Score = 84.7 bits (208), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 101/462 (21%), Positives = 186/462 (40%), Gaps = 57/462 (12%)

Query: 7   ITPSSASYKKLITYSCDLLKVHV-ALDVVEQMVQGELVPSTETINSILHACEESYEFNLV 65
           I P + +Y  LIT  C    +H  A  V E+M          T N++L    +S+     
Sbjct: 275 IAPDAYTYNTLIT-CCKRGSLHQEAAQVFEEMKAAGFSYDKVTYNALLDVYGKSHRPKEA 333

Query: 66  RRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG 125
            ++   +  +   P+  T+ S+IS   +    D A  L + + E    P    Y  +++G
Sbjct: 334 MKVLNEMVLNGFSPSIVTYNSLISAYARDGMLDEAMELKNQMAEKGTKPDVFTYTTLLSG 393

Query: 126 YFRKKDVQGALMVLKEMEQANVKPDSQTFSYL-------------------IHNCSNEED 166
           + R   V+ A+ + +EM  A  KP+  TF+                     I+ C    D
Sbjct: 394 FERAGKVESAMSIFEEMRNAGCKPNICTFNAFIKMYGNRGKFTEMMKIFDEINVCGLSPD 453

Query: 167 IIKY-------------------YEQLKSAGGQITKYVFMALINAYTTCGEFEKARQV-- 205
           I+ +                   ++++K AG    +  F  LI+AY+ CG FE+A  V  
Sbjct: 454 IVTWNTLLAVFGQNGMDSEVSGVFKEMKRAGFVPERETFNTLISAYSRCGSFEQAMTVYR 513

Query: 206 -VLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNS 264
            +LDA   V       + +++ALA  G    +  V  E+++  C        +L+    +
Sbjct: 514 RMLDAG--VTPDLSTYNTVLAALARGGMWEQSEKVLAEMEDGRCKPNELTYCSLLHAYAN 571

Query: 265 EGELNRLIQLLEEVH----DPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEM 320
             E+  +  L EEV+    +P   +     L+L C +   L  A     +LK++    ++
Sbjct: 572 GKEIGLMHSLAEEVYSGVIEPRAVL--LKTLVLVCSKCDLLPEAERAFSELKERGFSPDI 629

Query: 321 AMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRA 380
                   I+ +        V     +L ++K E G  PS    + L+     + D  ++
Sbjct: 630 TTLNSMVSIYGRRQM-----VAKANGVLDYMK-ERGFTPSMATYNSLMYMHSRSADFGKS 683

Query: 381 HLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKM 422
             I +E    G+  +++SY  +  A+  +   + AS++ S+M
Sbjct: 684 EEILREILAKGIKPDIISYNTVIYAYCRNTRMRDASRIFSEM 725

Arabidopsis thaliana (taxid: 3702)

>sp|Q940A6|PP325_ARATH Pentatricopeptide repeat-containing protein At4g19440, chloroplastic OS=Arabidopsis thaliana GN=At4g19440 PE=2 SV=2

 Score = 84.0 bits (206), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 72/316 (22%), Positives = 143/316 (45%), Gaps = 10/316 (3%)

Query: 7   ITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVR 66
           ++P       LI+  C   K   AL++  Q +    V  T T N++LH   E+ + +   
Sbjct: 479 MSPGGGLLTTLISGLCKHGKHSKALELWFQFLNKGFVVDTRTSNALLHGLCEAGKLDEAF 538

Query: 67  RIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGY 126
           RI   I       +  ++ ++IS     K  D A+  LD++ +  L P    Y+ ++ G 
Sbjct: 539 RIQKEILGRGCVMDRVSYNTLISGCCGKKKLDEAFMFLDEMVKRGLKPDNYTYSILICGL 598

Query: 127 FRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC---SNEEDIIKYYEQLKSAGGQITK 183
           F    V+ A+    + ++  + PD  T+S +I  C      E+  ++++++ S   Q   
Sbjct: 599 FNMNKVEEAIQFWDDCKRNGMLPDVYTYSVMIDGCCKAERTEEGQEFFDEMMSKNVQPNT 658

Query: 184 YVFMALINAYTTCGEFEKARQVVLDAE-IPVKSRSEVKSALVSALASHGRTSDAIIVYEE 242
            V+  LI AY   G    A ++  D +   +   S   ++L+  ++   R  +A +++EE
Sbjct: 659 VVYNHLIRAYCRSGRLSMALELREDMKHKGISPNSATYTSLIKGMSIISRVEEAKLLFEE 718

Query: 243 IKEAGCNLEPRAV--IALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLIL--HCVRF 298
           ++  G  LEP      ALI+     G++ ++  LL E+H  +   +     ++     R 
Sbjct: 719 MRMEG--LEPNVFHYTALIDGYGKLGQMVKVECLLREMHSKNVHPNKITYTVMIGGYARD 776

Query: 299 KQLSSATDLLKQLKDK 314
             ++ A+ LL ++++K
Sbjct: 777 GNVTEASRLLNEMREK 792

Arabidopsis thaliana (taxid: 3702)

>sp|P0C894|PP143_ARATH Putative pentatricopeptide repeat-containing protein At2g02150 OS=Arabidopsis thaliana GN=At2g02150 PE=3 SV=1

 Score = 78.6 bits (192), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 89/432 (20%), Positives = 170/432 (39%), Gaps = 49/432 (11%)

Query: 8   TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRR 67
            P    +  L +   DL  +  A+    +M +  + P T + N +LH   +  + + V+R
Sbjct: 189 VPGFGVFDALFSVLIDLGMLEEAIQCFSKMKRFRVFPKTRSCNGLLHRFAKLGKTDDVKR 248

Query: 68  IYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYF 127
            +  +     +P   T+  MI    K  D ++A  L +++K   L+P    YN+++ G+ 
Sbjct: 249 FFKDMIGAGARPTVFTYNIMIDCMCKEGDVEAARGLFEEMKFRGLVPDTVTYNSMIDGFG 308

Query: 128 RKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC----SNEEDIIKYYEQLKSAGGQITK 183
           +   +   +   +EM+    +PD  T++ LI NC          +++Y ++K  G +   
Sbjct: 309 KVGRLDDTVCFFEEMKDMCCEPDVITYNALI-NCFCKFGKLPIGLEFYREMKGNGLKPNV 367

Query: 184 YVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEE 242
             +  L++A+   G  ++A +  +D   + +       ++L+ A    G  SDA  +  E
Sbjct: 368 VSYSTLVDAFCKEGMMQQAIKFYVDMRRVGLVPNEYTYTSLIDANCKIGNLSDAFRLGNE 427

Query: 243 IKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW--MDGCCRLILHCVRFKQ 300
           + + G         ALI+ L     +    +L  ++        +     LI   V+ K 
Sbjct: 428 MLQVGVEWNVVTYTALIDGLCDAERMKEAEELFGKMDTAGVIPNLASYNALIHGFVKAKN 487

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
           +  A +LL +LK +                            I  DLL +          
Sbjct: 488 MDRALELLNELKGR---------------------------GIKPDLLLYGT-------- 512

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
                F+ G C +   ++ A ++  E +  G+  N L Y  +  A+  SGN      LL 
Sbjct: 513 -----FIWGLC-SLEKIEAAKVVMNEMKECGIKANSLIYTTLMDAYFKSGNPTEGLHLLD 566

Query: 421 KMPKDDPHVRFV 432
           +M + D  V  V
Sbjct: 567 EMKELDIEVTVV 578

Arabidopsis thaliana (taxid: 3702)

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

 Score = 77.4 bits (189), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 88/428 (20%), Positives = 177/428 (41%), Gaps = 20/428 (4%)

Query: 5   LEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNL 64
           L  +PS A+   L+       K+  AL++V+++V   + P+    N+++ +  +  +F+ 
Sbjct: 326 LRFSPSEAAVSSLVEGLRKRGKIEEALNLVKRVVDFGVSPNLFVYNALIDSLCKGRKFHE 385

Query: 65  VRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA 124
              ++  +    L+PN  T+  +I +  +    D+A S L ++ +  L  +   YN+++ 
Sbjct: 386 AELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEMVDTGLKLSVYPYNSLIN 445

Query: 125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDI---IKYYEQLKSAGGQI 181
           G+ +  D+  A   + EM    ++P   T++ L+    ++  I   ++ Y ++   G   
Sbjct: 446 GHCKFGDISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSKGKINKALRLYHEMTGKGIAP 505

Query: 182 TKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
           + Y F  L++     G    A ++  + AE  VK      + ++      G  S A    
Sbjct: 506 SIYTFTTLLSGLFRAGLIRDAVKLFNEMAEWNVKPNRVTYNVMIEGYCEEGDMSKAFEFL 565

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRL-ILHC-VRF 298
           +E+ E G   +  +   LI  L   G+ +     ++ +H  +  ++  C   +LH   R 
Sbjct: 566 KEMTEKGIVPDTYSYRPLIHGLCLTGQASEAKVFVDGLHKGNCELNEICYTGLLHGFCRE 625

Query: 299 KQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPP----DVQIGLDLLQFIKDE 354
            +L  A  + +++  +  D ++          C     D      D ++   LL+ + D 
Sbjct: 626 GKLEEALSVCQEMVQRGVDLDLV---------CYGVLIDGSLKHKDRKLFFGLLKEMHDR 676

Query: 355 LGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKS 414
            GL P       ++ A     D K A  IW    N G   N ++Y  +      +G    
Sbjct: 677 -GLKPDDVIYTSMIDAKSKTGDFKEAFGIWDLMINEGCVPNEVTYTAVINGLCKAGFVNE 735

Query: 415 ASKLLSKM 422
           A  L SKM
Sbjct: 736 AEVLCSKM 743

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WMY5|PP365_ARATH Pentatricopeptide repeat-containing protein At5g04810, chloroplastic OS=Arabidopsis thaliana GN=PPR4 PE=1 SV=1

 Score = 77.4 bits (189), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 71/383 (18%), Positives = 161/383 (42%), Gaps = 47/383 (12%)

Query: 30  ALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS 89
            L V +++ +    P+  T   +++   +  + +    +  ++    +K N +T+  MI+
Sbjct: 468 GLVVFKRLKECGFTPTVVTYGCLINLYTKVGKISKALEVSRVMKEEGVKHNLKTYSMMIN 527

Query: 90  LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKP 149
             VK+KD+ +A+++ +D+ +  + P   +YN I++ +    ++  A+  +KEM++   +P
Sbjct: 528 GFVKLKDWANAFAVFEDMVKEGMKPDVILYNNIISAFCGMGNMDRAIQTVKEMQKLRHRP 587

Query: 150 DSQTFSYLIHNCSNEEDI---IKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVV 206
            ++TF  +IH  +   D+   ++ ++ ++  G   T + F  LIN      + EKA +++
Sbjct: 588 TTRTFMPIIHGYAKSGDMRRSLEVFDMMRRCGCVPTVHTFNGLINGLVEKRQMEKAVEIL 647

Query: 207 LDAEIP-VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSE 265
            +  +  V +     + ++   AS G T  A   +  ++  G +++     AL++     
Sbjct: 648 DEMTLAGVSANEHTYTKIMQGYASVGDTGKAFEYFTRLQNEGLDVDIFTYEALLKACCKS 707

Query: 266 GELNRLIQLLEEVHDPDYWMDGCCRLIL--HCVRFKQLSSATDLLKQLKDKFKDDEMAME 323
           G +   + + +E+   +   +     IL     R   +  A DL++Q+K +         
Sbjct: 708 GRMQSALAVTKEMSARNIPRNSFVYNILIDGWARRGDVWEAADLIQQMKKE--------- 758

Query: 324 YHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLI 383
                                           G+ P        + AC  A D+ RA   
Sbjct: 759 --------------------------------GVKPDIHTYTSFISACSKAGDMNRATQT 786

Query: 384 WKEYENAGLPYNVLSYLWMYKAF 406
            +E E  G+  N+ +Y  + K +
Sbjct: 787 IEEMEALGVKPNIKTYTTLIKGW 809

May play a role in the plastid ribosome biogenesis.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 77.4 bits (189), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 89/461 (19%), Positives = 183/461 (39%), Gaps = 59/461 (12%)

Query: 12  ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPM 71
           ASY  +I + C L ++  A  ++  M      P   + +++++      E + V ++  +
Sbjct: 247 ASYNIVIHFVCQLGRIKEAHHLLLLMELKGYTPDVISYSTVVNGYCRFGELDKVWKLIEV 306

Query: 72  ICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKD 131
           +    LKPNS  + S+I L  +I     A     ++    ++P   +Y  ++ G+ ++ D
Sbjct: 307 MKRKGLKPNSYIYGSIIGLLCRICKLAEAEEAFSEMIRQGILPDTVVYTTLIDGFCKRGD 366

Query: 132 VQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDII---KYYEQLKSAGGQITKYVFMA 188
           ++ A     EM   ++ PD  T++ +I       D++   K + ++   G +     F  
Sbjct: 367 IRAASKFFYEMHSRDITPDVLTYTAIISGFCQIGDMVEAGKLFHEMFCKGLEPDSVTFTE 426

Query: 189 LINAYTTCGEFEKARQV------------------VLDA------------------EIP 212
           LIN Y   G  + A +V                  ++D                   +I 
Sbjct: 427 LINGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLIDGLCKEGDLDSANELLHEMWKIG 486

Query: 213 VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLI 272
           ++      +++V+ L   G   +A+ +  E + AG N +      L++     GE+++  
Sbjct: 487 LQPNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTLMDAYCKSGEMDKAQ 546

Query: 273 QLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQ 332
           ++L+E+            L    V F  L +   L   L    +D E  + +  ++    
Sbjct: 547 EILKEMLGKG--------LQPTIVTFNVLMNGFCLHGML----EDGEKLLNWMLAKGIAP 594

Query: 333 IATTDPPDVQI-----GLDLLQFIKDEL---GLPPSRKCLDFLLGACVNARDLKRAHLIW 384
            ATT    V+       L     I  ++   G+ P  K  + L+     AR++K A  ++
Sbjct: 595 NATTFNSLVKQYCIRNNLKAATAIYKDMCSRGVGPDGKTYENLVKGHCKARNMKEAWFLF 654

Query: 385 KEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKD 425
           +E +  G   +V +Y  + K FL       A ++  +M ++
Sbjct: 655 QEMKGKGFSVSVSTYSVLIKGFLKRKKFLEAREVFDQMRRE 695

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	465
255563673	867	pentatricopeptide repeat-containing prot	0.946	0.507	0.634	1e-166
302143218	618	unnamed protein product [Vitis vinifera]	0.948	0.713	0.630	1e-165
359493757	848	PREDICTED: pentatricopeptide repeat-cont	0.948	0.520	0.630	1e-164
224126305	784	predicted protein [Populus trichocarpa]	0.946	0.561	0.652	1e-158
449468642	1295	PREDICTED: pentatricopeptide repeat-cont	0.963	0.345	0.556	1e-144
79464834	821	pentatricopeptide repeat-containing prot	0.948	0.537	0.505	1e-133
34849885	821	At4g04790 [Arabidopsis thaliana] gi|6232	0.948	0.537	0.505	1e-133
297813863	821	hypothetical protein ARALYDRAFT_490115 [	0.948	0.537	0.501	1e-132
334186792	843	pentatricopeptide repeat-containing prot	0.948	0.523	0.498	1e-130
357474805	1353	Pentatricopeptide repeat-containing prot	0.976	0.335	0.513	1e-122

>gi|255563673|ref|XP_002522838.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223537922|gb|EEF39536.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  589 bits (1519), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 279/440 (63%), Positives = 353/440 (80%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           +H  LE+ PSS SY+KLI YSCDLLKVH ALD+V+QM + +L  S + +NSIL ACEES+
Sbjct: 417 LHVMLEMPPSSKSYEKLIIYSCDLLKVHAALDIVDQMCKADLTLSIDVLNSILRACEESF 476

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EFNLV++IY +ICHHNL PN+ETFRSMI L VK+KDF  A+ +LDDLK+  L PTASMYN
Sbjct: 477 EFNLVQQIYSLICHHNLTPNNETFRSMIKLRVKMKDFCGAHDMLDDLKKFKLTPTASMYN 536

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
           AIMAG FR+K++ G LMVLK+ME A+VKPDSQT+S LI NC++E  I KYYE+LK  G  
Sbjct: 537 AIMAGCFREKNINGGLMVLKKMELADVKPDSQTYSNLIANCNSENQISKYYEELKFVGIH 596

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
           ++K +FMALINAY TCG+FEKA+QV+LD  IP+++  E+KSALVSALASHG+ SDA++VY
Sbjct: 597 VSKQIFMALINAYATCGQFEKAKQVLLDKGIPIENVIEIKSALVSALASHGQMSDALVVY 656

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EEIKEAG N+EP++VI LIEH  SEGEL+RL++LLEE+ DP+Y +DGCCR++L C+R K 
Sbjct: 657 EEIKEAGGNMEPKSVICLIEHYQSEGELSRLLKLLEELQDPNYCVDGCCRVMLWCIRNKH 716

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
           LSSA +LLKQLKD+   DE+ M+  F E+F  IA  +P D+ IGLDLLQ IKDEL + PS
Sbjct: 717 LSSAVNLLKQLKDRLSSDELTMQVIFDEVFSLIAEMEPTDLLIGLDLLQVIKDELCVCPS 776

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RK LDFLL AC  A+DL  +  IWKEY  AG PYNV+SYL MY+A L+SG+ +SA  +L+
Sbjct: 777 RKSLDFLLSACAKAKDLTNSLFIWKEYHAAGYPYNVISYLRMYQALLSSGDYRSAKVILA 836

Query: 421 KMPKDDPHVRFVIQACKQTY 440
           ++ KDDPHVR +IQAC++TY
Sbjct: 837 EIQKDDPHVRRMIQACQKTY 856

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143218|emb|CBI20513.3| unnamed protein product [Vitis vinifera]

 Score =  586 bits (1510), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 278/441 (63%), Positives = 351/441 (79%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           +HA+L +TPSS SY KL+TY CD  KVH ALD+V+QM +  L  S E  +SIL A EES+
Sbjct: 158 LHAQLVVTPSSTSYNKLVTYCCDSFKVHAALDIVDQMCEAGLTLSIEMFHSILRASEESF 217

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EFNLV RIY +ICH +L+PN ETFR MI+L+VK+KDFD AY LL D+K++NL PTA +YN
Sbjct: 218 EFNLVHRIYSVICHQSLEPNCETFRIMINLHVKMKDFDGAYDLLKDMKKINLTPTAGIYN 277

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
           AIM GYFR+K++ G LMVLK+M  A+VKPDSQTF YL++NC  EEDIIKYYE+LK AG Q
Sbjct: 278 AIMGGYFREKNIYGGLMVLKQMGDADVKPDSQTFCYLLNNCECEEDIIKYYEKLKCAGVQ 337

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
           +TK+VFMALINAY +CG+FEKA+QVVLD  +P+KS +E+KS LVSALA HG+ SDA  +Y
Sbjct: 338 VTKHVFMALINAYASCGQFEKAKQVVLDKGVPIKSLNEIKSVLVSALALHGQISDAFDIY 397

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EEIK +G NLEP+A+I LIE+  SEG+L RL+QLLEE++DPDY ++G CR++L+CVR+  
Sbjct: 398 EEIKNSGFNLEPKAIILLIEYHQSEGDLTRLLQLLEELNDPDYRVEGSCRILLYCVRYNH 457

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
           LSSA DLLKQLKD F D+E+AME    E+F  IA  +P +++IGLDLL  IK+ELGL PS
Sbjct: 458 LSSAIDLLKQLKDTFHDNELAMEAILDEVFSLIAEIEPVNLKIGLDLLTAIKEELGLRPS 517

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RK LDFLL ACVN +DL  + LIW+EY+ AG  +NVLS+L MY+A LA G+ KSA+ +L 
Sbjct: 518 RKSLDFLLAACVNGKDLDNSRLIWREYQTAGFTHNVLSFLRMYQACLACGDHKSAANILH 577

Query: 421 KMPKDDPHVRFVIQACKQTYT 441
           K+PKDDPHV  VI+AC+ TY 
Sbjct: 578 KIPKDDPHVCCVIKACQTTYA 598

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493757|ref|XP_002279701.2| PREDICTED: pentatricopeptide repeat-containing protein At4g04790, mitochondrial-like [Vitis vinifera]

 Score =  585 bits (1509), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 278/441 (63%), Positives = 351/441 (79%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           +HA+L +TPSS SY KL+TY CD  KVH ALD+V+QM +  L  S E  +SIL A EES+
Sbjct: 388 LHAQLVVTPSSTSYNKLVTYCCDSFKVHAALDIVDQMCEAGLTLSIEMFHSILRASEESF 447

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EFNLV RIY +ICH +L+PN ETFR MI+L+VK+KDFD AY LL D+K++NL PTA +YN
Sbjct: 448 EFNLVHRIYSVICHQSLEPNCETFRIMINLHVKMKDFDGAYDLLKDMKKINLTPTAGIYN 507

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
           AIM GYFR+K++ G LMVLK+M  A+VKPDSQTF YL++NC  EEDIIKYYE+LK AG Q
Sbjct: 508 AIMGGYFREKNIYGGLMVLKQMGDADVKPDSQTFCYLLNNCECEEDIIKYYEKLKCAGVQ 567

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
           +TK+VFMALINAY +CG+FEKA+QVVLD  +P+KS +E+KS LVSALA HG+ SDA  +Y
Sbjct: 568 VTKHVFMALINAYASCGQFEKAKQVVLDKGVPIKSLNEIKSVLVSALALHGQISDAFDIY 627

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EEIK +G NLEP+A+I LIE+  SEG+L RL+QLLEE++DPDY ++G CR++L+CVR+  
Sbjct: 628 EEIKNSGFNLEPKAIILLIEYHQSEGDLTRLLQLLEELNDPDYRVEGSCRILLYCVRYNH 687

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
           LSSA DLLKQLKD F D+E+AME    E+F  IA  +P +++IGLDLL  IK+ELGL PS
Sbjct: 688 LSSAIDLLKQLKDTFHDNELAMEAILDEVFSLIAEIEPVNLKIGLDLLTAIKEELGLRPS 747

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RK LDFLL ACVN +DL  + LIW+EY+ AG  +NVLS+L MY+A LA G+ KSA+ +L 
Sbjct: 748 RKSLDFLLAACVNGKDLDNSRLIWREYQTAGFTHNVLSFLRMYQACLACGDHKSAANILH 807

Query: 421 KMPKDDPHVRFVIQACKQTYT 441
           K+PKDDPHV  VI+AC+ TY 
Sbjct: 808 KIPKDDPHVCCVIKACQTTYA 828

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126305|ref|XP_002319806.1| predicted protein [Populus trichocarpa] gi|222858182|gb|EEE95729.1| predicted protein [Populus trichocarpa]

 Score =  563 bits (1452), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 287/440 (65%), Positives = 372/440 (84%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           +H  ++++PSS SY+KL+ Y+C+LLKVH+ALD+V+QM +  L  S  TI+SIL+A EES+
Sbjct: 323 LHMIMKMSPSSTSYEKLVVYNCNLLKVHLALDIVDQMCKEGLTISINTIHSILNASEESF 382

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           +FNLVRRIY +I H +L PN+ETFRSMISL+VK+KDF+ AY LLDDLK++NL PTASMYN
Sbjct: 383 DFNLVRRIYSLIYHLDLTPNNETFRSMISLSVKMKDFEGAYGLLDDLKKLNLAPTASMYN 442

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
           AIM GYFR+K+++GALMVLK+M+ A+VKPDS ++SYLI NC+NEE+IIKYYE++K AG Q
Sbjct: 443 AIMGGYFREKNIRGALMVLKQMKLADVKPDSSSYSYLISNCNNEEEIIKYYEEMKVAGIQ 502

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
           ++K +FMALINAY TCG+FEKA+QV+LD E P+K  +E++S LVSALASHG+ +DA+ +Y
Sbjct: 503 VSKQIFMALINAYATCGQFEKAKQVLLDKEFPIKHLNEIRSVLVSALASHGQMTDALNLY 562

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EE+K+AG NLEP+AVI+LIEH++SEGE +RL++LLEE+ D +YW+DGC R+IL+C+R K 
Sbjct: 563 EEMKQAGSNLEPKAVISLIEHVDSEGEQSRLLKLLEELDDHNYWVDGCFRVILYCIRNKD 622

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
           L SA DLLKQLKD+F DDE+AME  F E+F Q+A T+P +V+IG+DLLQ IKDELG  PS
Sbjct: 623 LRSAVDLLKQLKDRFSDDELAMEVLFDEVFSQVAETEPANVRIGMDLLQAIKDELGASPS 682

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RKCLDFLL ACVNA+DL  + L+WKEY+ AGLPYNV SYL MY+A LASG   SA  +L+
Sbjct: 683 RKCLDFLLTACVNAKDLGNSLLVWKEYQAAGLPYNVTSYLRMYQALLASGGHVSAKVMLN 742

Query: 421 KMPKDDPHVRFVIQACKQTY 440
           K+PKDDPHVR VIQ C++TY
Sbjct: 743 KIPKDDPHVRIVIQECQRTY 762

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449468642|ref|XP_004152030.1| PREDICTED: pentatricopeptide repeat-containing protein At4g04790, mitochondrial-like [Cucumis sativus]

 Score =  518 bits (1334), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 250/449 (55%), Positives = 337/449 (75%), Gaps = 1/449 (0%)

Query: 1    MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
            MH +L I PSSASY+KLI Y C L KVH+ALD+  +M   +  PST  ++SILHA +ES 
Sbjct: 839  MHFELVINPSSASYEKLICYCCGLFKVHMALDIANEMCDADFTPSTGVLHSILHALDESC 898

Query: 61   EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
            E+NLV ++Y +IC HNLKP+SE  R MI+L+VK+KDF  AY +L + ++MN++PT ++YN
Sbjct: 899  EYNLVHQVYSLICRHNLKPDSEILRGMINLHVKMKDFKGAYDMLKEWEKMNVIPTTNLYN 958

Query: 121  AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
            AIMAGYFR+K+     MVLK+ME A+VKPDS TFSYLI NC  EEDIIKYY++L  +G Q
Sbjct: 959  AIMAGYFREKNTSDGFMVLKQMELADVKPDSITFSYLISNCECEEDIIKYYKELNHSGVQ 1018

Query: 181  ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
             TK+VFMALINAY   G+FEKA+QV+ D  IPVK+ +EV+  LVSALAS+G+T+DA+ +Y
Sbjct: 1019 ATKHVFMALINAYAAHGQFEKAKQVISDEGIPVKNLNEVRCVLVSALASNGQTADALKIY 1078

Query: 241  EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEV-HDPDYWMDGCCRLILHCVRFK 299
            +E+K+AGC+L+ +AV +LIEH   +G LNR++QLL ++ HD + W+  C R+IL  V+  
Sbjct: 1079 DEMKQAGCDLDCKAVSSLIEHYPFDGPLNRMLQLLGDLHHDLNGWIHCCSRIILFSVKHN 1138

Query: 300  QLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP 359
             LSS  DLLKQL  +  +DE  M   F E+FC IA ++P  ++IGL LL+FIK++LGL P
Sbjct: 1139 DLSSTVDLLKQLSYRCTNDETIMGVTFDEVFCLIANSEPTYLEIGLQLLKFIKNDLGLSP 1198

Query: 360  SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLL 419
             R+CLDFLLG C NA+D + + LIWKEYENAGL YN +SYL MY+A LASG+ KSA  LL
Sbjct: 1199 PRRCLDFLLGTCANAKDAESSRLIWKEYENAGLLYNTISYLKMYQALLASGDSKSAKLLL 1258

Query: 420  SKMPKDDPHVRFVIQACKQTYTIPSLQKE 448
             K+PKDD  V ++I+ C++ Y+  + +K+
Sbjct: 1259 GKIPKDDADVCYIIKECERVYSSTAKKKK 1287

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79464834|ref|NP_192388.3| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635640|sp|Q6NQ81.2|PP304_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g04790, mitochondrial; Flags: Precursor gi|332657026|gb|AEE82426.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  482 bits (1240), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 223/441 (50%), Positives = 332/441 (75%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           MH +L++ PSS SY+KL+ YSCD  +V  ALDVVE+M +  L+ S + ++S+LHA +E  
Sbjct: 363 MHEELDVMPSSTSYEKLVKYSCDSNEVVTALDVVEKMGEAGLMISADILHSLLHAIDEVL 422

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EF+LVRRI+ ++C  ++KPN+E FRS+I L  +IKDF+ AY++L +LK  NL P +SM+N
Sbjct: 423 EFDLVRRIHSIMCTKSVKPNTENFRSIIRLCTRIKDFEGAYNMLGNLKNFNLEPNSSMFN 482

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
            I+AGYFR+K+V  ALMV+K+M++A VKPDS TF YLI+NC+ E+ I KYYE++K AG Q
Sbjct: 483 CILAGYFREKNVSSALMVVKQMKEAGVKPDSITFGYLINNCTQEDAITKYYEEMKQAGVQ 542

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
            TK ++M+LI+AY   G+FEKA+QV++D ++P  +++E+KS L+SALAS G+ +DA+ +Y
Sbjct: 543 ATKRIYMSLIDAYAASGKFEKAKQVLVDPDVPAINQNELKSVLISALASRGKWADALHIY 602

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EE+++A C+++P+++I+LIE+ +S+GEL+ L+QL +++ D   W+DG  R+IL  VR K+
Sbjct: 603 EEMRKAECHVDPKSIISLIEYSDSKGELSTLVQLADDLQDDTSWIDGFFRMILFAVRNKK 662

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
            S   DLLK+ K +     + +E HF E+F  IA T+P  V +G+DLL+F+KDELG  PS
Sbjct: 663 SSDIVDLLKRNKVRLLKKGIPVEAHFDEVFWAIAETEPSKVHLGMDLLRFMKDELGFVPS 722

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RKCLDFLL ACVNA+DL+   L+WKEY++A  P NVLS+L MY+  LA+G+ + A  L+S
Sbjct: 723 RKCLDFLLHACVNAKDLEHGLLVWKEYQSAAFPCNVLSFLRMYQVLLAAGDSEGAKALVS 782

Query: 421 KMPKDDPHVRFVIQACKQTYT 441
           K+PKDD  V+ +I+  +  ++
Sbjct: 783 KIPKDDKDVQHIIEESQSAFS 803

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|34849885|gb|AAQ82839.1| At4g04790 [Arabidopsis thaliana] gi|62320126|dbj|BAD94316.1| hypothetical protein [Arabidopsis thaliana]

 Score =  481 bits (1239), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 223/441 (50%), Positives = 332/441 (75%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           MH +L++ PSS SY+KL+ YSCD  +V  ALDVVE+M +  L+ S + ++S+LHA +E  
Sbjct: 363 MHEELDVMPSSTSYEKLVKYSCDSNEVVTALDVVEKMGEAGLMISADILHSLLHAIDEVL 422

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EF+LVRRI+ ++C  ++KPN+E FRS+I L  +IKDF+ AY++L +LK  NL P +SM+N
Sbjct: 423 EFDLVRRIHSIMCTKSVKPNTENFRSIIRLCTRIKDFEGAYNMLGNLKNFNLEPNSSMFN 482

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
            I+AGYFR+K+V  ALMV+K+M++A VKPDS TF YLI+NC+ E+ I KYYE++K AG Q
Sbjct: 483 CILAGYFREKNVSSALMVVKQMKEAGVKPDSITFGYLINNCTQEDAITKYYEEMKQAGVQ 542

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
            TK ++M+LI+AY   G+FEKA+QV++D ++P  +++E+KS L+SALAS G+ +DA+ +Y
Sbjct: 543 ATKRIYMSLIDAYAASGKFEKAKQVLVDPDVPAINQNELKSVLISALASRGKWADALHIY 602

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EE+++A C+++P+++I+LIE+ +S+GEL+ L+QL +++ D   W+DG  R+IL  VR K+
Sbjct: 603 EEMRKAECHVDPKSIISLIEYSDSKGELSTLVQLADDLQDDTSWIDGFFRMILFAVRNKK 662

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
            S   DLLK+ K +     + +E HF E+F  IA T+P  V +G+DLL+F+KDELG  PS
Sbjct: 663 SSDIVDLLKRNKVRLLKKGIPVEAHFDEVFWAIAETEPSKVHLGMDLLRFMKDELGFVPS 722

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RKCLDFLL ACVNA+DL+   L+WKEY++A  P NVLS+L MY+  LA+G+ + A  L+S
Sbjct: 723 RKCLDFLLHACVNAKDLEHGLLVWKEYQSAAFPCNVLSFLRMYQVLLAAGDSEGAKALVS 782

Query: 421 KMPKDDPHVRFVIQACKQTYT 441
           K+PKDD  V+ +I+  +  ++
Sbjct: 783 KIPKDDKDVQHIIEESQSAFS 803

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297813863|ref|XP_002874815.1| hypothetical protein ARALYDRAFT_490115 [Arabidopsis lyrata subsp. lyrata] gi|297320652|gb|EFH51074.1| hypothetical protein ARALYDRAFT_490115 [Arabidopsis lyrata subsp. lyrata]

 Score =  479 bits (1234), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 221/441 (50%), Positives = 334/441 (75%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           MH +L++ PSS SY+KL+ YSCD  +V  AL++VE+M +  L+ S + ++S+LHA +E  
Sbjct: 363 MHEELDVMPSSTSYEKLVKYSCDSNEVVTALEIVEKMGEAGLIISADILHSLLHAIDEVL 422

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EF+LVRRI+ ++C  ++KPN+E FRS+I L  +IKDF+ AY++L +LK  NL P +SM+N
Sbjct: 423 EFDLVRRIHSIMCTKSVKPNTENFRSIIRLCTRIKDFEGAYNMLGNLKNFNLEPNSSMFN 482

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
            I+AGYFR+K+V  ALMV+K+M++A VKPDS TF YLI+NC+ E+ I KYY+++K AG Q
Sbjct: 483 CILAGYFREKNVCRALMVVKQMKEAGVKPDSITFGYLINNCNREDAITKYYDEMKQAGVQ 542

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
            TK ++M+LI+AY   G+FEKA+QV++D ++P  +++E+KS L+SALAS G+ +DA+ +Y
Sbjct: 543 ATKRIYMSLIDAYAASGKFEKAKQVLVDPDVPAINQNELKSVLISALASRGKWADALHIY 602

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EE+++A C+++P+++I+LIE+ +S GEL+ L+QL +++ D   W+DG  R+IL  VR ++
Sbjct: 603 EEMRKAECHVDPKSIISLIEYSDSNGELSTLVQLADDLQDDTSWIDGFFRMILFAVRNRK 662

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
             +  DLLKQ K +    ++ +E HF E+F  IA T+P  VQ+G+DLL+F+KDELG  PS
Sbjct: 663 SRNIVDLLKQNKIRLLKKDLPVETHFDEVFWAIAETEPTKVQLGMDLLRFMKDELGFVPS 722

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RKCLDFLL ACVNA+DL+   L+WKEY++A LP NVLS+L MY+  LA+G+ + A  L+S
Sbjct: 723 RKCLDFLLHACVNAKDLEHGLLVWKEYQSAALPCNVLSFLRMYQVLLAAGDSEGAKALVS 782

Query: 421 KMPKDDPHVRFVIQACKQTYT 441
           K+PKDD  V+ +I+  +  ++
Sbjct: 783 KIPKDDKDVQHIIEESQSAFS 803

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334186792|ref|NP_193919.6| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635628|sp|O49711.2|PP335_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g21880, mitochondrial; Flags: Precursor gi|332659118|gb|AEE84518.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  471 bits (1211), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 220/441 (49%), Positives = 325/441 (73%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           +H +L+I PSS SY+ L++Y C   +V  ALD+VE M +  LV S   ++S+L A E+  
Sbjct: 383 LHEELDIVPSSTSYENLVSYLCGSNEVVTALDIVENMCEAGLVISANILHSLLQAIEQIL 442

Query: 61  EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
           EFNLV+RIY ++ + ++KPNSETFR  I+L ++IKDF+ AY++L +LK  NL P +SMYN
Sbjct: 443 EFNLVQRIYSIMSNKSVKPNSETFRKSINLCIRIKDFEGAYNMLGNLKNFNLAPNSSMYN 502

Query: 121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
           +IMAGYFR+K V  AL VLKEM++A+VKPDS TFSYLI+ C  E  I KYY+++K AG +
Sbjct: 503 SIMAGYFREKKVNSALKVLKEMKEADVKPDSVTFSYLINYCGEEATIAKYYKEMKQAGVE 562

Query: 181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
           + K+V+M+L+ AY +CG+FEKA+QV++D E+P K  +E+KS L+SALAS+G  ++A+ +Y
Sbjct: 563 VNKHVYMSLVKAYASCGQFEKAKQVLMDLEVPAKDHNELKSVLISALASNGNITEALSIY 622

Query: 241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
           EE+K+  C +EP+A+++LIE+ +S  EL  L++L  E+ D  +W+DG  ++I+  VR  +
Sbjct: 623 EEMKKLRCPVEPKAILSLIENSDSNAELGTLVELTHELRDSKFWIDGFFKIIVFAVRNNR 682

Query: 301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
            SS  DLL+Q K+    D++ +EY F E+F  IA T+  DV++GLDL+ F+K+EL L PS
Sbjct: 683 SSSILDLLEQTKNHLSKDDVGVEYWFEEVFKSIAETESSDVKVGLDLVSFMKEELELCPS 742

Query: 361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
           RKCLDFLL ACVNA+D + A L+W+EY+ A LPYNV++YL MY+  +A+G+ KSA  ++S
Sbjct: 743 RKCLDFLLHACVNAKDKQSALLVWEEYQCAELPYNVINYLRMYQVLVAAGDSKSAEAIVS 802

Query: 421 KMPKDDPHVRFVIQACKQTYT 441
           K+P DD  V+ +I+  +  +T
Sbjct: 803 KIPNDDKDVKCIIKESRIVFT 823

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357474805|ref|XP_003607688.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355508743|gb|AES89885.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  446 bits (1146), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 236/460 (51%), Positives = 326/460 (70%), Gaps = 6/460 (1%)

Query: 1   MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
           +H  LE+  SS++Y+KLI Y C + KV VALD+V++M Q     ST  + SIL  CEE+Y
Sbjct: 465 LHDVLEVLLSSSAYEKLILYCCGMHKVDVALDIVDKMCQAGFELSTHVLQSILQICEEAY 524

Query: 61  EFNLVRRIYPMI-CHHN-LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASM 118
           ++ LV RI  +I CHH+ L+ N +  R ++   V++KDF+ AY ++++L E+   PT +M
Sbjct: 525 DYILVHRICSIIRCHHHYLQLNGDICRCLVHFCVRLKDFERAYKMVNELHELGFKPTTAM 584

Query: 119 YNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAG 178
           YNAIMAGYFR+K++ GAL VLK M++ANVKPDSQTFSYLI NC  ++DI  Y +++  + 
Sbjct: 585 YNAIMAGYFREKNISGALRVLKHMQEANVKPDSQTFSYLIGNCETKDDINMYRDEMTKSE 644

Query: 179 GQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAII 238
            ++TK ++MAL+NAY  CGEFE+A++VV D +   KS +E+KS LVSALASHGR S+A++
Sbjct: 645 IKLTKQIYMALVNAYAACGEFEEAKKVV-DDQSTSKSLNEIKSVLVSALASHGRLSEALV 703

Query: 239 VYEEIKEAGCNLEPRAVIALIEHLN-SEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVR 297
           +Y+EIK+AG NLEP+AVI+LI+ +    GEL+RL+ LL ++ D +YW+DGC R+I +CV+
Sbjct: 704 IYKEIKKAGHNLEPKAVISLIDAMRYRSGELDRLLLLLMDLSDQNYWVDGCFRVIQYCVQ 763

Query: 298 FKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGL 357
              LS+  DLLKQLKD F+ DE   E  F   +  IA  +   +Q GLDLL  IKDELGL
Sbjct: 764 NNHLSTTVDLLKQLKDTFESDETMTEVLFDAAYSLIAGCESTRLQFGLDLLWAIKDELGL 823

Query: 358 PPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASK 417
            PSR+CLDFLL AC  + DL  A LIW+EYE AG PYNVLSYL MY+A LASG+ +SA  
Sbjct: 824 VPSRQCLDFLLRACAISGDLNNARLIWREYEVAGFPYNVLSYLRMYQALLASGDHRSADF 883

Query: 418 LLSKMPKDDPHVRFVIQACKQTY--TIPSLQKERGFEKDR 455
           +L K+P+DD  V  +I  C++TY   + S +  +  E D+
Sbjct: 884 ILKKIPRDDADVCSIILECQKTYGDNVKSGENVKSVEGDK 923

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	465
TAIR|locus:2138882	821	AT4G04790 "AT4G04790" [Arabido	0.965	0.546	0.488	2.3e-119
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.505	0.314	0.286	1.3e-19
TAIR|locus:2155730	915	AT5G65560 "AT5G65560" [Arabido	0.584	0.297	0.256	1.7e-16
TAIR|locus:2024301	606	AT1G09820 "AT1G09820" [Arabido	0.582	0.447	0.235	7.7e-13
TAIR|locus:2116772	1112	PGR3 "AT4G31850" [Arabidopsis	0.546	0.228	0.224	1.3e-12
TAIR|locus:2024537	666	AT1G64100 [Arabidopsis thalian	0.576	0.402	0.208	1.7e-12
TAIR|locus:2020763	429	AT1G03510 [Arabidopsis thalian	0.509	0.552	0.193	1.9e-12
TAIR|locus:2053552	627	AT2G15630 "AT2G15630" [Arabido	0.877	0.650	0.209	2.5e-12
TAIR|locus:2082727	851	AT3G54980 [Arabidopsis thalian	0.565	0.309	0.224	2.9e-12
TAIR|locus:2056740	603	OTP85 "ORGANELLE TRANSCRIPT PR	0.458	0.353	0.237	4.7e-12

TAIR|locus:2138882 AT4G04790 "AT4G04790" [Arabidopsis thaliana (taxid:3702)]

 Score = 1175 (418.7 bits), Expect = 2.3e-119, P = 2.3e-119
 Identities = 220/450 (48%), Positives = 330/450 (73%)

Query:     1 MHAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY 60
             MH +L++ PSS SY+KL+ YSCD  +V  ALDVVE+M +  L+ S + ++S+LHA +E  
Sbjct:   363 MHEELDVMPSSTSYEKLVKYSCDSNEVVTALDVVEKMGEAGLMISADILHSLLHAIDEVL 422

Query:    61 EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN 120
             EF+LVRRI+ ++C  ++KPN+E FRS+I L  +IKDF+ AY++L +LK  NL P +SM+N
Sbjct:   423 EFDLVRRIHSIMCTKSVKPNTENFRSIIRLCTRIKDFEGAYNMLGNLKNFNLEPNSSMFN 482

Query:   121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ 180
              I+AGYFR+K+V  ALMV+K+M++A VKPDS TF YLI+NC+ E+ I KYYE++K AG Q
Sbjct:   483 CILAGYFREKNVSSALMVVKQMKEAGVKPDSITFGYLINNCTQEDAITKYYEEMKQAGVQ 542

Query:   181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY 240
              TK ++M+LI+AY   G+FEKA+QV++D ++P  +++E+KS L+SALAS G+ +DA+ +Y
Sbjct:   543 ATKRIYMSLIDAYAASGKFEKAKQVLVDPDVPAINQNELKSVLISALASRGKWADALHIY 602

Query:   241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ 300
             EE+++A C+++P+++I+LIE+ +S+GEL+ L+QL +++ D   W+DG  R+IL  VR K+
Sbjct:   603 EEMRKAECHVDPKSIISLIEYSDSKGELSTLVQLADDLQDDTSWIDGFFRMILFAVRNKK 662

Query:   301 LSSATXXXXXXXXXXXXXEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS 360
              S                 + +E HF E+F  IA T+P  V +G+DLL+F+KDELG  PS
Sbjct:   663 SSDIVDLLKRNKVRLLKKGIPVEAHFDEVFWAIAETEPSKVHLGMDLLRFMKDELGFVPS 722

Query:   361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS 420
             RKCLDFLL ACVNA+DL+   L+WKEY++A  P NVLS+L MY+  LA+G+ + A  L+S
Sbjct:   723 RKCLDFLLHACVNAKDLEHGLLVWKEYQSAAFPCNVLSFLRMYQVLLAAGDSEGAKALVS 782

Query:   421 KMPKDDPHVRFVIQACKQTYT-IPSLQKER 449
             K+PKDD  V+ +I+  +  ++  P+ +K +
Sbjct:   783 KIPKDDKDVQHIIEESQSAFSQAPNKKKPK 812

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 256 (95.2 bits), Expect = 1.3e-19, Sum P(2) = 1.3e-19
 Identities = 70/244 (28%), Positives = 123/244 (50%)

Query:     1 MHAKL---EITPSSASYKKLITYSCDLLKVHVALDVVEQM-VQGELVPSTETINSILHAC 56
             MHA++    +TPS  +Y  LI   C    ++ A++ ++QM V+G L P+  T  +++   
Sbjct:   332 MHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRG-LCPNERTYTTLVDGF 390

Query:    57 EESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTA 116
              +    N   R+   +  +   P+  T+ ++I+ +      + A ++L+D+KE  L P  
Sbjct:   391 SQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKGLSPDV 450

Query:   117 SMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN-CSNE--EDIIKYYEQ 173
               Y+ +++G+ R  DV  AL V +EM +  +KPD+ T+S LI   C     ++    YE+
Sbjct:   451 VSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTKEACDLYEE 510

Query:   174 LKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGR 232
             +   G    ++ + ALINAY   G+ EKA Q+  +  E  V       S L++ L    R
Sbjct:   511 MLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYSVLINGLNKQSR 570

Query:   233 TSDA 236
             T +A
Sbjct:   571 TREA 574

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

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

 Score = 236 (88.1 bits), Expect = 1.7e-16, P = 1.7e-16
 Identities = 72/281 (25%), Positives = 134/281 (47%)

Query:     6 EITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLV 65
             +++P++ +Y +LI   C    VH A+ V+ +M++ +++P   T NS++     S  F+  
Sbjct:   423 KLSPNTRTYNELIKGYCKS-NVHKAMGVLNKMLERKVLPDVVTYNSLIDGQCRSGNFDSA 481

Query:    66 RRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG 125
              R+  ++    L P+  T+ SMI    K K  + A  L D L++  + P   MY A++ G
Sbjct:   482 YRLLSLMNDRGLVPDQWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVMYTALIDG 541

Query:   126 YFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN-CSNEE--DIIKYYEQLKSAGGQIT 182
             Y +   V  A ++L++M   N  P+S TF+ LIH  C++ +  +     E++   G Q T
Sbjct:   542 YCKAGKVDEAHLMLEKMLSKNCLPNSLTFNALIHGLCADGKLKEATLLEEKMVKIGLQPT 601

Query:   183 KYVFMALINAYTTCGEFEKAR---QVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIV 239
                   LI+     G+F+ A    Q +L +    K  +   +  +      GR  DA  +
Sbjct:   602 VSTDTILIHRLLKDGDFDHAYSRFQQMLSSG--TKPDAHTYTTFIQTYCREGRLLDAEDM 659

Query:   240 YEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD 280
               +++E G + +     +LI+     G+ N    +L+ + D
Sbjct:   660 MAKMRENGVSPDLFTYSSLIKGYGDLGQTNFAFDVLKRMRD 700

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024301 AT1G09820 "AT1G09820" [Arabidopsis thaliana (taxid:3702)]

 Score = 177 (67.4 bits), Expect = 7.7e-13, Sum P(2) = 7.7e-13
 Identities = 71/302 (23%), Positives = 138/302 (45%)

Query:    16 KLITYSCD-----LLKVHVALDV---VEQMVQGELVPSTETINSILHACEESYEFNLVRR 67
             KL   SC      LLK + + DV    ++M++ ++ P+  T N +++A  ++ + N  R 
Sbjct:   185 KLSALSCKPLMIALLKENRSADVEYVYKEMIRRKIQPNVFTFNVVINALCKTGKMNKARD 244

Query:    68 IYPMICHHNLKPNSETFRSMISLNVKIKDFDSAY---SLLDDLKEMNLMPTASMYNAIMA 124
             +   +  +   PN  ++ ++I    K+      Y   ++L ++ E ++ P  + +N ++ 
Sbjct:   245 VMEDMKVYGCSPNVVSYNTLIDGYCKLGGNGKMYKADAVLKEMVENDVSPNLTTFNILID 304

Query:   125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDI---IKYYEQLKSAGGQI 181
             G+++  ++ G++ V KEM   +VKP+  +++ LI+   N   I   I   +++ SAG Q 
Sbjct:   305 GFWKDDNLPGSMKVFKEMLDQDVKPNVISYNSLINGLCNGGKISEAISMRDKMVSAGVQP 364

Query:   182 TKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSA-----LVSALASHGRTSDA 236
                 + ALIN +      ++A    LD    VK +  V +      L+ A    G+  D 
Sbjct:   365 NLITYNALINGFCKNDMLKEA----LDMFGSVKGQGAVPTTRMYNMLIDAYCKLGKIDDG 420

Query:   237 IIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD---PDY-----WMDGC 288
               + EE++  G   +      LI  L   G +    +L +++     PD       M+G 
Sbjct:   421 FALKEEMEREGIVPDVGTYNCLIAGLCRNGNIEAAKKLFDQLTSKGLPDLVTFHILMEGY 480

Query:   289 CR 290
             CR
Sbjct:   481 CR 482

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2116772 PGR3 "AT4G31850" [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 1.3e-12, Sum P(2) = 1.3e-12
 Identities = 58/258 (22%), Positives = 110/258 (42%)

Query:     9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRI 68
             P   +Y  LI   C   K+  A +V E+M  G   P   T  ++L    ++ + + V++ 
Sbjct:   291 PDVVTYTVLIDALCTARKLDCAKEVFEKMKTGRHKPDRVTYITLLDRFSDNRDLDSVKQF 350

Query:    69 YPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR 128
             +  +      P+  TF  ++    K  +F  A+  LD +++  ++P    YN ++ G  R
Sbjct:   351 WSEMEKDGHVPDVVTFTILVDALCKAGNFGEAFDTLDVMRDQGILPNLHTYNTLICGLLR 410

Query:   129 KKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDII---KYYEQLKSAGGQITKYV 185
                +  AL +   ME   VKP + T+   I       D +   + +E++K+ G       
Sbjct:   411 VHRLDDALELFGNMESLGVKPTAYTYIVFIDYYGKSGDSVSALETFEKMKTKGIAPNIVA 470

Query:   186 FMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIK 244
               A + +    G   +A+Q+     +I +   S   + ++   +  G   +AI +  E+ 
Sbjct:   471 CNASLYSLAKAGRDREAKQIFYGLKDIGLVPDSVTYNMMMKCYSKVGEIDEAIKLLSEMM 530

Query:   245 EAGCNLEPRAVIALIEHL 262
             E GC  +   V +LI  L
Sbjct:   531 ENGCEPDVIVVNSLINTL 548

GO:0008150 "biological_process" evidence=ND

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0000272 "polysaccharide catabolic process" evidence=RCA

GO:0005982 "starch metabolic process" evidence=RCA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

GO:0009664 "plant-type cell wall organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0046777 "protein autophosphorylation" evidence=RCA

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

 Score = 198 (74.8 bits), Expect = 1.7e-12, P = 1.7e-12
 Identities = 58/278 (20%), Positives = 131/278 (47%)

Query:     6 EITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHA-CEESYEFNL 64
             EI P   ++  LI+ S    K+  A  + ++M+   + P T T NS+++  C+ +  F+ 
Sbjct:   361 EINPDVLTFNALISASVKEGKLFEAEKLCDEMLHRCIFPDTVTYNSMIYGFCKHN-RFDD 419

Query:    65 VRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA 124
              + ++ ++      P+  TF ++I +  + K  D    LL ++    L+   + YN ++ 
Sbjct:   420 AKHMFDLMA----SPDVVTFNTIIDVYCRAKRVDEGMQLLREISRRGLVANTTTYNTLIH 475

Query:   125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN-CSNE--EDIIKYYEQLKSAGGQI 181
             G+    ++  A  + +EM    V PD+ T + L++  C NE  E+ ++ +E ++ +   +
Sbjct:   476 GFCEVDNLNAAQDLFQEMISHGVCPDTITCNILLYGFCENEKLEEALELFEVIQMSKIDL 535

Query:   182 TKYVFMALINAYTTCGEFEKARQVVLDAEIP-VKSRSEVKSALVSALASHGRTSDAIIVY 240
                 +  +I+      + ++A  +     I  V+   +  + ++S        SDA +++
Sbjct:   536 DTVAYNIIIHGMCKGSKVDEAWDLFCSLPIHGVEPDVQTYNVMISGFCGKSAISDANVLF 595

Query:   241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEV 278
              ++K+ G   +      LI      GE+++ I+L+ E+
Sbjct:   596 HKMKDNGHEPDNSTYNTLIRGCLKAGEIDKSIELISEM 633

GO:0003677 "DNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

TAIR|locus:2020763 AT1G03510 [Arabidopsis thaliana (taxid:3702)]

 Score = 165 (63.1 bits), Expect = 1.9e-12, Sum P(2) = 1.9e-12
 Identities = 48/248 (19%), Positives = 118/248 (47%)

Query:     1 MHAKLEITPSSASYKKLITYSCDLLK-VHVALDVVEQMVQGELVPSTETINSILHACEES 59
             ++  +++ P+ +S+  +I          + A++   +M++    P+  T+ +++ AC   
Sbjct:   136 LYEAMDVMPNESSFNAIIKGLVGTEDGSYRAIEFYRKMIEFRFKPNLITLLALVSACSAI 195

Query:    60 YEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMY 119
               F L++ I+     + ++P+ +    ++    +         + D +++ +++  +S+ 
Sbjct:   196 GAFRLIKEIHSYAFRNLIEPHPQLKSGLVEAYGRCGSIVYVQLVFDSMEDRDVVAWSSLI 255

Query:   120 NAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNE---EDIIKYYEQLKS 176
             +A    Y    D + AL   +EME A V PD   F  ++  CS+    ++ + Y+++++ 
Sbjct:   256 SA----YALHGDAESALKTFQEMELAKVTPDDIAFLNVLKACSHAGLADEALVYFKRMQG 311

Query:   177 AGG-QITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSD 235
               G + +K  +  L++  +  G FE+A +V+    +P K  ++   AL+ A  ++G    
Sbjct:   312 DYGLRASKDHYSCLVDVLSRVGRFEEAYKVI--QAMPEKPTAKTWGALLGACRNYGEIEL 369

Query:   236 AIIVYEEI 243
             A I   E+
Sbjct:   370 AEIAAREL 377

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 196 (74.1 bits), Expect = 2.5e-12, P = 2.5e-12
 Identities = 90/430 (20%), Positives = 164/430 (38%)

Query:     2 HAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYE 61
             H +LE T S+  +  L+   C L  V  A++    M +    P TET N IL        
Sbjct:   147 HDRLE-TKSTILFDLLVRCCCQLRMVDEAIECFYLMKEKGFYPKTETCNHILTLLSRLNR 205

Query:    62 FNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNA 121
                    Y  +    +K N  TF  MI++  K      A   L  ++   + PT   YN 
Sbjct:   206 IENAWVFYADMYRMEIKSNVYTFNIMINVLCKEGKLKKAKGFLGIMEVFGIKPTIVTYNT 265

Query:   122 IMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQI 181
             ++ G+  +  ++GA +++ EM+    +PD QT++ ++    NE    +   ++K  G   
Sbjct:   266 LVQGFSLRGRIEGARLIISEMKSKGFQPDMQTYNPILSWMCNEGRASEVLREMKEIGLVP 325

Query:   182 TKYVFMALINAYTTCGEFEKA----RQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAI 237
                 +  LI   +  G+ E A     ++V    +P        + L+  L    +   A 
Sbjct:   326 DSVSYNILIRGCSNNGDLEMAFAYRDEMVKQGMVPT---FYTYNTLIHGLFMENKIEAAE 382

Query:   238 IVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVH----DPDYWMDGCCRLIL 293
             I+  EI+E G  L+      LI      G+  +   L +E+      P  +       +L
Sbjct:   383 ILIREIREKGIVLDSVTYNILINGYCQHGDAKKAFALHDEMMTDGIQPTQFTYTSLIYVL 442

Query:   294 HCVRFKQLSSATXXXXXXXXXXXXXEMAMEYHFSEIFCQIATTDPP-DVQIGLDLLQFIK 352
              C R  +   A              ++ M     +  C I   D    +   +D++    
Sbjct:   443 -C-RKNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMSINP 500

Query:   353 DELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNR 412
             D++    +  CL  + G C   +  + A  +  E +  G+  + +SY  +   +   G+ 
Sbjct:   501 DDV----TYNCL--MRGLCGEGK-FEEARELMGEMKRRGIKPDHISYNTLISGYSKKGDT 553

Query:   413 KSASKLLSKM 422
             K A  +  +M
Sbjct:   554 KHAFMVRDEM 563

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082727 AT3G54980 [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 2.9e-12, Sum P(2) = 2.9e-12
 Identities = 62/276 (22%), Positives = 126/276 (45%)

Query:     8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRR 67
             +P+S ++  LI +     ++  AL+  ++M    L PS   +++I+    +  +     +
Sbjct:   371 SPNSVTFSVLIEWFRKNGEMEKALEFYKKMEVLGLTPSVFHVHTIIQGWLKGQKHEEALK 430

Query:    68 IYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYF 127
             ++       L  N     +++S   K    D A  LL  ++   + P    YN +M G+ 
Sbjct:   431 LFDESFETGLA-NVFVCNTILSWLCKQGKTDEATELLSKMESRGIGPNVVSYNNVMLGHC 489

Query:   128 RKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC---SNEEDIIKYYEQLKSAGGQITKY 184
             R+K++  A +V   + +  +KP++ T+S LI  C    +E++ ++    + S+  ++   
Sbjct:   490 RQKNMDLARIVFSNILEKGLKPNNYTYSILIDGCFRNHDEQNALEVVNHMTSSNIEVNGV 549

Query:   185 VFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVK----SALVSALASHGRTSDAIIVY 240
             V+  +IN     G+  KAR+++  A +  + R  V     ++++      G    A+  Y
Sbjct:   550 VYQTIINGLCKVGQTSKARELL--ANMIEEKRLCVSCMSYNSIIDGFFKEGEMDSAVAAY 607

Query:   241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLE 276
             EE+   G  + P  VI     +N   + NR+ Q LE
Sbjct:   608 EEM--CGNGISPN-VITYTSLMNGLCKNNRMDQALE 640

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2056740 OTP85 "ORGANELLE TRANSCRIPT PROCESSING 85" [Arabidopsis thaliana (taxid:3702)]

 Score = 181 (68.8 bits), Expect = 4.7e-12, Sum P(2) = 4.7e-12
 Identities = 54/227 (23%), Positives = 112/227 (49%)

Query:    36 QMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIK 95
             ++++  ++P   T  S+L AC  +      R+++ +     L  N     ++I++  + +
Sbjct:   119 EILEDGILPDNYTFPSLLKACAVAKALEEGRQLHCLSMKLGLDDNVYVCPTLINMYTECE 178

Query:    96 DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFS 155
             D DSA  + D + E    P    YNA++ GY R+     AL + +EM+   +KP+  T  
Sbjct:   179 DVDSARCVFDRIVE----PCVVCYNAMITGYARRNRPNEALSLFREMQGKYLKPNEITLL 234

Query:   156 YLIHNCS--NEEDIIKYYEQLKSAGGQITKYVFM--ALINAYTTCGEFEKARQVVLDAEI 211
              ++ +C+     D+ K+  +         KYV +  ALI+ +  CG  + A  V +  ++
Sbjct:   235 SVLSSCALLGSLDLGKWIHKYAKKHS-FCKYVKVNTALIDMFAKCGSLDDA--VSIFEKM 291

Query:   212 PVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIAL 258
               K  ++  SA++ A A+HG+   +++++E ++    N++P  +  L
Sbjct:   292 RYKD-TQAWSAMIVAYANHGKAEKSMLMFERMRSE--NVQPDEITFL 335

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0016556 "mRNA modification" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00027415001 SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (425 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	465
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	5e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.002

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

 Score = 64.1 bits (156), Expect = 9e-11
 Identities = 49/190 (25%), Positives = 96/190 (50%), Gaps = 11/190 (5%)

Query: 27  VHVALDVVEQMVQGE---LVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSET 83
           V  A DV+ +M + E   + P   T+ +++ AC  + + +  + +Y MI  +N+K   E 
Sbjct: 558 VDRAFDVLAEM-KAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEV 616

Query: 84  FRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIM--AGYFRKKDVQGALMVLKE 141
           +   ++   +  D+D A S+ DD+K+  + P    ++A++  AG+    D+  A  +L++
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH--AGDLDKAFEILQD 674

Query: 142 MEQANVKPDSQTFSYLIHNCSNEEDIIK---YYEQLKSAGGQITKYVFMALINAYTTCGE 198
             +  +K  + ++S L+  CSN ++  K    YE +KS   + T     ALI A     +
Sbjct: 675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ 734

Query: 199 FEKARQVVLD 208
             KA +V+ +
Sbjct: 735 LPKALEVLSE 744

Length = 1060

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

 Score = 56.6 bits (138), Expect = 9e-11
 Identities = 17/50 (34%), Positives = 27/50 (54%)

Query: 114 PTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSN 163
           P    YN ++ GY +K  V+ AL +  EM++  +KP+  T+S LI     
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 = 61.0 bits (148), Expect = 7e-10
 Identities = 39/210 (18%), Positives = 80/210 (38%), Gaps = 38/210 (18%)

Query: 7   ITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVR 66
           I P   +   L+    +  +V  A +V + + +  +  + E     +++C +  +++   
Sbjct: 575 IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFAL 634

Query: 67  RIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLD--------------------- 105
            IY  +    +KP+   F +++ +     D D A+ +L                      
Sbjct: 635 SIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Query: 106 --------------DLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS 151
                         D+K + L PT S  NA++        +  AL VL EM++  + P++
Sbjct: 695 SNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT 754

Query: 152 QTFSYLIHNCSNEEDI---IKYYEQLKSAG 178
            T+S L+     ++D    +    Q K  G
Sbjct: 755 ITYSILLVASERKDDADVGLDLLSQAKEDG 784

Length = 1060

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

 Score = 59.9 bits (145), Expect = 2e-09
 Identities = 68/312 (21%), Positives = 134/312 (42%), Gaps = 18/312 (5%)

Query: 14  YKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMIC 73
           Y  LI+      KV    +V  +MV   +  +  T  +++  C  + +       Y ++ 
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 74  HHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMN--LMPTASMYNAIMAGYFRKKD 131
             N+KP+   F ++IS   +    D A+ +L ++K     + P      A+M        
Sbjct: 535 SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ 594

Query: 132 VQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDI---IKYYEQLKSAGGQITKYVFMA 188
           V  A  V + + + N+K   + ++  +++CS + D    +  Y+ +K  G +  +  F A
Sbjct: 595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA 654

Query: 189 LINAYTTCGEFEKARQVVLDAEIP-VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG 247
           L++     G+ +KA +++ DA    +K  +   S+L+ A ++      A+ +YE+IK   
Sbjct: 655 LVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIK 714

Query: 248 CNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD----PD---YWMDGCCRLILHCVRFKQ 300
                  + ALI  L    +L + +++L E+      P+   Y +     L++   R   
Sbjct: 715 LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI-----LLVASERKDD 769

Query: 301 LSSATDLLKQLK 312
                DLL Q K
Sbjct: 770 ADVGLDLLSQAK 781

Length = 1060

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

 Score = 57.2 bits (138), Expect = 1e-08
 Identities = 46/209 (22%), Positives = 94/209 (44%), Gaps = 12/209 (5%)

Query: 47  ETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDD 106
            T ++++ AC        V+ +Y  +     +P+      ++ ++VK      A  L D+
Sbjct: 124 STYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDE 183

Query: 107 LKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED 166
           + E NL      +  I+ G     + + A  + +EM +     + +TF  ++   S    
Sbjct: 184 MPERNLAS----WGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLR-ASAGLG 238

Query: 167 IIKYYEQLKS----AGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSA 222
             +  +QL       G     +V  ALI+ Y+ CG+ E AR V     +P K+     S 
Sbjct: 239 SARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVF--DGMPEKTTVAWNS- 295

Query: 223 LVSALASHGRTSDAIIVYEEIKEAGCNLE 251
           +++  A HG + +A+ +Y E++++G +++
Sbjct: 296 MLAGYALHGYSEEALCLYYEMRDSGVSID 324

Length = 697

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

 Score = 56.8 bits (137), Expect = 2e-08
 Identities = 73/314 (23%), Positives = 120/314 (38%), Gaps = 53/314 (16%)

Query: 77  LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGAL 136
             P   TF  ++S+    +D D A  +L  ++E  L     +Y  +++   +   V    
Sbjct: 433 RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMF 492

Query: 137 MVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK---YYEQLKSAGGQITKYVFMALINAY 193
            V  EM  A V+ +  TF  LI  C+    + K    Y  ++S   +  + VF ALI+A 
Sbjct: 493 EVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC 552

Query: 194 TTCGEFEKARQVVLD--AEI-PVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNL 250
              G  ++A  V+ +  AE  P+        AL+ A A+ G+   A  VY+ I E     
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 251 EPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQ 310
            P      +   + +G+              D+                 LS   D+   
Sbjct: 613 TPEVYTIAVNSCSQKGDW-------------DF----------------ALSIYDDM--- 640

Query: 311 LKDKFKDDEMAMEYHFSEIFCQIATTD----PPDVQIGLDLLQFIKDELGLPPSRKCLDF 366
            K   K DE+     FS      A  D      D+    ++LQ  + + G+         
Sbjct: 641 KKKGVKPDEV----FFS------ALVDVAGHAGDLDKAFEILQDARKQ-GIKLGTVSYSS 689

Query: 367 LLGACVNARDLKRA 380
           L+GAC NA++ K+A
Sbjct: 690 LMGACSNAKNWKKA 703

Length = 1060

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

 Score = 51.0 bits (122), Expect = 1e-06
 Identities = 44/212 (20%), Positives = 90/212 (42%), Gaps = 6/212 (2%)

Query: 42  LVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAY 101
             P+  T N ++  C  S + +   R+  ++    LK + + + ++IS   K    D+ +
Sbjct: 433 RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMF 492

Query: 102 SLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC 161
            +  ++    +      + A++ G  R   V  A      M   NVKPD   F+ LI  C
Sbjct: 493 EVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC 552

Query: 162 SNEEDIIKYYEQLKSAGGQIT-----KYVFMALINAYTTCGEFEKARQVV-LDAEIPVKS 215
                + + ++ L     +            AL+ A    G+ ++A++V  +  E  +K 
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 216 RSEVKSALVSALASHGRTSDAIIVYEEIKEAG 247
             EV +  V++ +  G    A+ +Y+++K+ G
Sbjct: 613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKG 644

Length = 1060

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

 Score = 50.6 bits (121), Expect = 1e-06
 Identities = 53/235 (22%), Positives = 105/235 (44%), Gaps = 21/235 (8%)

Query: 28  HVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM 87
              L++   M +  + P   TI S++ ACE   +  L R ++  +       +     S+
Sbjct: 270 LEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSL 329

Query: 88  ISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANV 147
           I + + +  +  A  +   ++  + +     + A+++GY +      AL     MEQ NV
Sbjct: 330 IQMYLSLGSWGEAEKVFSRMETKDAVS----WTAMISGYEKNGLPDKALETYALMEQDNV 385

Query: 148 KPDSQTFSYLIHNCSNEEDI---IKYYEQLKSAGGQITKYVFMA--LINAYTTCGEFEKA 202
            PD  T + ++  C+   D+   +K +E  +  G  +  YV +A  LI  Y+ C   +KA
Sbjct: 386 SPDEITIASVLSACACLGDLDVGVKLHELAERKG--LISYVVVANALIEMYSKCKCIDKA 443

Query: 203 RQVVLDAEIPVKSRSEVKS--ALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAV 255
            +V     IP     +V S  ++++ L  + R  +A+I + ++      L+P +V
Sbjct: 444 LEVF--HNIP---EKDVISWTSIIAGLRLNNRCFEALIFFRQML---LTLKPNSV 490

Length = 857

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

 Score = 41.7 bits (99), Expect = 1e-05
 Identities = 11/34 (32%), Positives = 20/34 (58%)

Query: 118 MYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS 151
            YN ++ G  +   V+ AL + KEM++  ++PD 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 46.8 bits (111), Expect = 2e-05
 Identities = 87/388 (22%), Positives = 152/388 (39%), Gaps = 63/388 (16%)

Query: 114 PTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYE- 172
           PT S +N +M+     +D+ GAL VL+ +++A +K D + ++ LI  C+    +   +E 
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 173 --QLKSAGGQITKYVFMALINAYTTCGEFEKARQV--VLDAEIPVKSRSEVKSALVSALA 228
             ++ +AG +   + F ALI+     G+  KA     ++ ++  VK    V +AL+SA  
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK-NVKPDRVVFNALISACG 553

Query: 229 SHGRTSDAIIVYEEIKEAGCNLEPRAVI--ALIEHLNSEGELNRLIQLLEEVHDPDYWMD 286
             G    A  V  E+K     ++P  +   AL++   + G+++R  ++ + +H+  Y + 
Sbjct: 554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHE--YNIK 611

Query: 287 GCCRLILHCVRFKQLSSATDL-LKQLKDKFKDDEMAMEYHFSEIFCQIATTD----PPDV 341
           G   +    V         D  L    D  K      E  FS      A  D      D+
Sbjct: 612 GTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFS------ALVDVAGHAGDL 665

Query: 342 QIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARD------------------------- 376
               ++LQ  + + G+         L+GAC NA++                         
Sbjct: 666 DKAFEILQDARKQ-GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNA 724

Query: 377 ----------LKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDD 426
                     L +A  +  E +  GL  N ++Y  +  A     +      LLS+  +D 
Sbjct: 725 LITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDG 784

Query: 427 PHVRFVIQACKQTYTIPSLQKERGFEKD 454
                V+  C     I  L   R FEK 
Sbjct: 785 IKPNLVMCRC-----ITGLCLRR-FEKA 806

Length = 1060

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

 Score = 46.4 bits (110), Expect = 2e-05
 Identities = 45/171 (26%), Positives = 76/171 (44%), Gaps = 22/171 (12%)

Query: 86  SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA 145
           ++I +  K  D + A  + D + E     T   +N+++AGY      + AL +  EM  +
Sbjct: 264 ALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDS 319

Query: 146 NVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVF-------MALINAYTTCGE 198
            V  D  TFS +I   S     +   E  K A   + +  F        AL++ Y+  G 
Sbjct: 320 GVSIDQFTFSIMIRIFSR----LALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR 375

Query: 199 FEKARQVVLDAEIPVKSRSEVKS--ALVSALASHGRTSDAIIVYEEIKEAG 247
            E AR V     +P K+   + S  AL++   +HGR + A+ ++E +   G
Sbjct: 376 MEDARNVF--DRMPRKN---LISWNALIAGYGNHGRGTKAVEMFERMIAEG 421

Length = 697

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

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 24/125 (19%), Positives = 56/125 (44%)

Query: 26  KVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR 85
            +  A ++++   +  +   T + +S++ AC  +  +     +Y  I    L+P   T  
Sbjct: 664 DLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMN 723

Query: 86  SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA 145
           ++I+   +      A  +L ++K + L P    Y+ ++    RK D    L +L + ++ 
Sbjct: 724 ALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED 783

Query: 146 NVKPD 150
            +KP+
Sbjct: 784 GIKPN 788

Length = 1060

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

 Score = 38.5 bits (91), Expect = 2e-04
 Identities = 10/48 (20%), Positives = 23/48 (47%)

Query: 79  PNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGY 126
           P+  T+ ++I    K    + A  L +++K+  + P    Y+ ++ G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 37.2 bits (87), Expect = 5e-04
 Identities = 12/31 (38%), Positives = 19/31 (61%)

Query: 119 YNAIMAGYFRKKDVQGALMVLKEMEQANVKP 149
           YNA++    +  D   AL VL+EM+ + +KP
Sbjct: 4   YNALLLALAKAGDPDLALAVLEEMKASGLKP 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 41.8 bits (98), Expect = 7e-04
 Identities = 50/256 (19%), Positives = 107/256 (41%), Gaps = 22/256 (8%)

Query: 30  ALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS 89
           AL +  +M+   + P   T   +L  C    +    R ++  +     + + +   ++I+
Sbjct: 171 ALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALIT 230

Query: 90  LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKP 149
           + VK  D  SA  + D +   + +     +NA+++GYF   +    L +   M + +V P
Sbjct: 231 MYVKCGDVVSARLVFDRMPRRDCIS----WNAMISGYFENGECLEGLELFFTMRELSVDP 286

Query: 150 DSQTFSYLIHNCSNEEDIIKYYEQLKS----AGGQITKYVFMALINAYTTCGEFEKARQV 205
           D  T + +I  C    D  +   ++       G  +   V  +LI  Y + G + +A +V
Sbjct: 287 DLMTITSVISACELLGD-ERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKV 345

Query: 206 VLDAEIPVKSRSEVK-----SALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIE 260
                    SR E K     +A++S    +G    A+  Y  +++   + +   + +++ 
Sbjct: 346 F--------SRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS 397

Query: 261 HLNSEGELNRLIQLLE 276
                G+L+  ++L E
Sbjct: 398 ACACLGDLDVGVKLHE 413

Length = 857

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 10/31 (32%), Positives = 20/31 (64%)

Query: 117 SMYNAIMAGYFRKKDVQGALMVLKEMEQANV 147
             YN++++GY +   ++ AL + KEM++  V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	465
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.88
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.87
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.86
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.83
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.81
PRK14574	822	hmsH outer membrane protein; Provisional	99.81
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.73
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.73
PRK14574	822	hmsH outer membrane protein; Provisional	99.71
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.7
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.62
KOG2076	895	consensus RNA polymerase III transcription factor	99.6
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.59
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.59
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.58
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.57
KOG2003	840	consensus TPR repeat-containing protein [General f	99.57
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.56
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.53
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.53
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.53
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.52
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.52
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.52
KOG1126	638	consensus DNA-binding cell division cycle control	99.48
PF13041	50	PPR_2: PPR repeat family	99.47
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.47
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.47
KOG2076	895	consensus RNA polymerase III transcription factor	99.45
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.43
PF13041	50	PPR_2: PPR repeat family	99.43
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.43
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.4
KOG1126	638	consensus DNA-binding cell division cycle control	99.4
KOG2003	840	consensus TPR repeat-containing protein [General f	99.39
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.39
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.38
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.36
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.35
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.32
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.32
PRK12370	553	invasion protein regulator; Provisional	99.29
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.27
PRK12370	553	invasion protein regulator; Provisional	99.24
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.24
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.22
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.22
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.21
KOG1129	478	consensus TPR repeat-containing protein [General f	99.21
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.2
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.2
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.2
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.18
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.17
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.15
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.14
KOG1129	478	consensus TPR repeat-containing protein [General f	99.02
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.0
PRK11189	296	lipoprotein NlpI; Provisional	99.0
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.99
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.99
PF12854	34	PPR_1: PPR repeat	98.98
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.96
PRK11189	296	lipoprotein NlpI; Provisional	98.96
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.94
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.93
PF12854	34	PPR_1: PPR repeat	98.91
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.91
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.87
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.87
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.86
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.86
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.84
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.78
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.76
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.74
PRK04841	903	transcriptional regulator MalT; Provisional	98.7
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.7
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.69
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.68
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.66
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.6
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.59
PLN02789	320	farnesyltranstransferase	98.57
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.53
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.52
KOG1125	579	consensus TPR repeat-containing protein [General f	98.52
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.51
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.5
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.48
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.47
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.47
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.45
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.42
PRK15359	144	type III secretion system chaperone protein SscB;	98.4
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.39
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.39
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.38
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.37
PRK15359	144	type III secretion system chaperone protein SscB;	98.36
PRK04841	903	transcriptional regulator MalT; Provisional	98.35
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.34
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.34
PLN02789	320	farnesyltranstransferase	98.34
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.32
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.32
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.32
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.3
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.29
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.28
KOG1125	579	consensus TPR repeat-containing protein [General f	98.27
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.27
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.26
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.24
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.21
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.21
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.2
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.18
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.18
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.15
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.13
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.11
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.11
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.11
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.1
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.09
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.08
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.07
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.04
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.99
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.99
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.99
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.98
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.92
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.9
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.89
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.86
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.81
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.81
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.79
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.77
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.76
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.72
KOG0553	304	consensus TPR repeat-containing protein [General f	97.71
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.69
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.59
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.59
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.58
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.58
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.55
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.54
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.54
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.54
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.52
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.49
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.49
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.47
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.44
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.41
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.4
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.37
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.33
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.28
PF12688	120	TPR_5: Tetratrico peptide repeat	97.26
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.25
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.23
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.22
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.17
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	97.17
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.16
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.13
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.12
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.1
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.08
KOG0553	304	consensus TPR repeat-containing protein [General f	96.99
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.96
PF13371	73	TPR_9: Tetratricopeptide repeat	96.95
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.92
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.91
PF12688	120	TPR_5: Tetratrico peptide repeat	96.87
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.83
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.77
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.76
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.74
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.74
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.73
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.7
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.64
KOG3941	406	consensus Intermediate in Toll signal transduction	96.55
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.52
PRK10803	263	tol-pal system protein YbgF; Provisional	96.51
PF13371	73	TPR_9: Tetratricopeptide repeat	96.43
PRK10803	263	tol-pal system protein YbgF; Provisional	96.4
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.36
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.33
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.3
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.16
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.04
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.95
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.94
KOG3941	406	consensus Intermediate in Toll signal transduction	95.85
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	95.78
PRK15331	165	chaperone protein SicA; Provisional	95.71
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.71
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.67
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.57
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.56
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.54
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.52
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.52
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.5
PF13428	44	TPR_14: Tetratricopeptide repeat	95.46
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.44
PRK15331	165	chaperone protein SicA; Provisional	95.42
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.41
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.29
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.24
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.19
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.03
PF13428	44	TPR_14: Tetratricopeptide repeat	94.77
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.75
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.71
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.56
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.55
COG1747	711	Uncharacterized N-terminal domain of the transcrip	94.5
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.46
KOG4555	175	consensus TPR repeat-containing protein [Function	94.45
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.39
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.35
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.22
PF13431	34	TPR_17: Tetratricopeptide repeat	94.2
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.18
PF13929	292	mRNA_stabil: mRNA stabilisation	94.17
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.01
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.99
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.96
PF13512	142	TPR_18: Tetratricopeptide repeat	93.88
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.79
KOG1585	308	consensus Protein required for fusion of vesicles	93.7
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.57
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.57
PRK11906	458	transcriptional regulator; Provisional	93.5
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.31
KOG4555	175	consensus TPR repeat-containing protein [Function	93.24
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	93.02
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.92
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.9
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.75
PF13929	292	mRNA_stabil: mRNA stabilisation	92.74
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.73
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.56
KOG1585	308	consensus Protein required for fusion of vesicles	92.43
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.33
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.24
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	92.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.12
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.1
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.77
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	91.76
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.69
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.64
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.45
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.28
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.19
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	90.96
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	90.89
COG3118	304	Thioredoxin domain-containing protein [Posttransla	90.89
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.86
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.74
KOG2610	491	consensus Uncharacterized conserved protein [Funct	90.69
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	90.53
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.91
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	89.86
PF13512	142	TPR_18: Tetratricopeptide repeat	89.48
PRK11906	458	transcriptional regulator; Provisional	89.27
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.26
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.12
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	88.35
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.29
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.24
PF13431	34	TPR_17: Tetratricopeptide repeat	88.09
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	87.98
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	87.75
COG0457	291	NrfG FOG: TPR repeat [General function prediction	87.04
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.56
KOG1258	577	consensus mRNA processing protein [RNA processing	86.55
PF13762	145	MNE1: Mitochondrial splicing apparatus component	85.85
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	85.83
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	85.24
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	85.17
COG4105	254	ComL DNA uptake lipoprotein [General function pred	85.06
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	85.0
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	84.97
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.52
KOG4234	271	consensus TPR repeat-containing protein [General f	83.93
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	83.62
COG0457	291	NrfG FOG: TPR repeat [General function prediction	83.6
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	83.16
COG4455	273	ImpE Protein of avirulence locus involved in tempe	82.78
KOG4234	271	consensus TPR repeat-containing protein [General f	82.54
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	82.48
COG4455	273	ImpE Protein of avirulence locus involved in tempe	82.04
KOG3364	149	consensus Membrane protein involved in organellar	81.72
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	80.94
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.07

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.5e-62  Score=487.51  Aligned_cols=441  Identities=17%  Similarity=0.262  Sum_probs=396.1

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      ||..+|+.+|.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--CCCCCCHHHHHHHHHhhCChhH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ--ANVKPDSQTFSYLIHNCSNEED  166 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~p~~~~~~~ll~~~~~~~~  166 (465)
                      .+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999986  6789999999999999876654


Q ss_pred             ---HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCC-CCChHHHHHHHHHHHHcCCChhHHHHHHHH
Q 012365          167 ---IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIP-VKSRSEVKSALVSALASHGRTSDAIIVYEE  242 (465)
Q Consensus       167 ---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  242 (465)
                         +.++++.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|... ..++..+|+.++.+|++.|++++|.++|++
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence               6679999999999999999999999999999999999999986543 455666899999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc--chhhHhhHhhhcCChhHHHHHHHHHHH-cccchh
Q 012365          243 IKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD--GCCRLILHCVRFKQLSSATDLLKQLKD-KFKDDE  319 (465)
Q Consensus       243 m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~  319 (465)
                      |.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.+..|+  .|+.++.+|++.|++++|.++|++|.. +..|+.
T Consensus       675 M~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~  754 (1060)
T PLN03218        675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT  754 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999999999999999999999999988776665  678999999999999999999999987 467888


Q ss_pred             HHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHh----hh-------------------h
Q 012365          320 MAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVN----AR-------------------D  376 (465)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~----~g-------------------~  376 (465)
                      .+++.++..+..      .|++++|.+++++|. +.|+.||..+|++++..|.+    ++                   .
T Consensus       755 ~Ty~sLL~a~~k------~G~le~A~~l~~~M~-k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w  827 (1060)
T PLN03218        755 ITYSILLVASER------KDDADVGLDLLSQAK-EDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKW  827 (1060)
T ss_pred             HHHHHHHHHHHH------CCCHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccch
Confidence            888888865443      399999999999999 99999999999999876432    11                   2


Q ss_pred             hhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCC-----ChhHHHHHHHh----hccccchhh
Q 012365          377 LKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDP-----HVRFVIQACKQ----TYTIPSLQK  447 (465)
Q Consensus       377 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~-----~~~~~l~~~~~----~~~~~~~~~  447 (465)
                      .+.|..+|++|.+.|+.||..||+.++.++++.+..+.+..++++|...+.     ++++++.+|+.    +....++|.
T Consensus       828 ~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~~~~A~~l~~em~  907 (1060)
T PLN03218        828 TSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSLLEEAA  907 (1060)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccChHHHHHHHHHHH
Confidence            367999999999999999999999999888899999999999998875432     57899998863    466668999


Q ss_pred             hcCCCCCcc
Q 012365          448 ERGFEKDRD  456 (465)
Q Consensus       448 ~~~~~pd~~  456 (465)
                      +.|+.|+..
T Consensus       908 ~~Gi~p~~~  916 (1060)
T PLN03218        908 SLGVVPSVS  916 (1060)
T ss_pred             HcCCCCCcc
Confidence            999999975

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=9.9e-63  Score=488.71  Aligned_cols=443  Identities=19%  Similarity=0.263  Sum_probs=368.1

Q ss_pred             CCCCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHH
Q 012365            6 EITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGEL-VPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETF   84 (465)
Q Consensus         6 ~~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   84 (465)
                      .-.++...|..++..+++.|++++|+++|++|.+.|+ .|+..+++.++.+|.+.|.+++|..+++.|..    ||..+|
T Consensus       365 ~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Ty  440 (1060)
T PLN03218        365 SGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTF  440 (1060)
T ss_pred             CCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHH
Confidence            3456778888888899999999999999999988885 45677777888888888888888888888764    888888


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCCh
Q 012365           85 RSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNE  164 (465)
Q Consensus        85 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  164 (465)
                      +.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.
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            88888888888888888888888888888888888888888888888888888888888888888888888888887765


Q ss_pred             hH---HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcC---CCCChHHHHHHHHHHHHcCCChhHHHH
Q 012365          165 ED---IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEI---PVKSRSEVKSALVSALASHGRTSDAII  238 (465)
Q Consensus       165 ~~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~  238 (465)
                      |+   +.++++.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..   ...++..+|+++|.+|++.|++++|.+
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            54   456788888888888888888888888888888888888888642   345556678888888888888888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc--chhhHhhHhhhcCChhHHHHHHHHHHHc-c
Q 012365          239 VYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD--GCCRLILHCVRFKQLSSATDLLKQLKDK-F  315 (465)
Q Consensus       239 ~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~  315 (465)
                      +|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.|+  +|+.++.+|++.|++++|.++|++|.+. .
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            888888888888888888888888888888888888888888887776  5678888888888888888888888884 4


Q ss_pred             cchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCC
Q 012365          316 KDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYN  395 (465)
Q Consensus       316 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~  395 (465)
                      .|+..+++.++..+...      |++++|.++|++|. ..|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||
T Consensus       681 ~pd~~tynsLI~ay~k~------G~~eeA~~lf~eM~-~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd  753 (1060)
T PLN03218        681 KLGTVSYSSLMGACSNA------KNWKKALELYEDIK-SIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN  753 (1060)
T ss_pred             CCCHHHHHHHHHHHHhC------CCHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            56666777777655444      88888888888888 788888888888888888888888888888888888888888


Q ss_pred             hhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC-----hhHHHHHHHh-----------------------------hcc
Q 012365          396 VLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH-----VRFVIQACKQ-----------------------------TYT  441 (465)
Q Consensus       396 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~-----~~~~l~~~~~-----------------------------~~~  441 (465)
                      ..+|+.++.+|++.|++++|.+++++|.+.++.     ++++++.|..                             +..
T Consensus       754 ~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~  833 (1060)
T PLN03218        754 TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALM  833 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHH
Confidence            888888888888888888888888888877663     4566655432                             223


Q ss_pred             ccchhhhcCCCCCcchhh
Q 012365          442 IPSLQKERGFEKDRDTLL  459 (465)
Q Consensus       442 ~~~~~~~~~~~pd~~t~~  459 (465)
                      ...+|++.|+.||..||.
T Consensus       834 lf~eM~~~Gi~Pd~~T~~  851 (1060)
T PLN03218        834 VYRETISAGTLPTMEVLS  851 (1060)
T ss_pred             HHHHHHHCCCCCCHHHHH
Confidence            347889999999999986

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=9.3e-63  Score=497.55  Aligned_cols=434  Identities=17%  Similarity=0.210  Sum_probs=405.1

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      .||..+||++|.+|++.|++++|+++|++|...|+.||..||+.++++|+..+++..+.+++..|.+.|+.||..+||+|
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~L  228 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNAL  228 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhH-
Q 012365           88 ISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED-  166 (465)
Q Consensus        88 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-  166 (465)
                      |.+|++.|+++.|.++|++|.    .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.++ 
T Consensus       229 i~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~  304 (857)
T PLN03077        229 ITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE  304 (857)
T ss_pred             HHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh
Confidence            999999999999999999998    489999999999999999999999999999999999999999999999887655 


Q ss_pred             --HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q 012365          167 --IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIK  244 (465)
Q Consensus       167 --~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  244 (465)
                        +.+++..+.+.|+.||..+|+.|+.+|++.|++++|.++|++|..  + +..+||.+|.+|++.|++++|+++|++|.
T Consensus       305 ~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~--~-d~~s~n~li~~~~~~g~~~~A~~lf~~M~  381 (857)
T PLN03077        305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET--K-DAVSWTAMISGYEKNGLPDKALETYALME  381 (857)
T ss_pred             HHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CeeeHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence              567999999999999999999999999999999999999997643  2 33469999999999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc--chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHH
Q 012365          245 EAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD--GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAM  322 (465)
Q Consensus       245 ~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  322 (465)
                      +.|+.||..||+.++.+|++.|+++.|.++++.+.+.|..++  .++.++..|++.|++++|.++|++|.+   ++..+|
T Consensus       382 ~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~---~d~vs~  458 (857)
T PLN03077        382 QDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE---KDVISW  458 (857)
T ss_pred             HhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC---CCeeeH
Confidence            999999999999999999999999999999999999987765  568899999999999999999999987   788899


Q ss_pred             HHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHH
Q 012365          323 EYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWM  402 (465)
Q Consensus       323 ~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  402 (465)
                      ++++..+...      |+.++|+.+|++|. . ++.||..||++++.+|++.|+++.+.+++..+.+.|+.+|..++++|
T Consensus       459 ~~mi~~~~~~------g~~~eA~~lf~~m~-~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naL  530 (857)
T PLN03077        459 TSIIAGLRLN------NRCFEALIFFRQML-L-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNAL  530 (857)
T ss_pred             HHHHHHHHHC------CCHHHHHHHHHHHH-h-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHH
Confidence            9998876554      99999999999998 4 69999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHhh------ccccchhhhcCCCCCcchhh
Q 012365          403 YKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQT------YTIPSLQKERGFEKDRDTLL  459 (465)
Q Consensus       403 ~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~~------~~~~~~~~~~~~~pd~~t~~  459 (465)
                      +++|+++|++++|.++|+++...-.+|++++.+|...      ....++|++.|+.||.+||.
T Consensus       531 i~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~  593 (857)
T PLN03077        531 LDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFI  593 (857)
T ss_pred             HHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHH
Confidence            9999999999999999999944444799999998775      44447888999999999997

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8e-61  Score=483.50  Aligned_cols=413  Identities=19%  Similarity=0.245  Sum_probs=385.7

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.+.+++..|.+.|+.||..+||.|
T Consensus       250 ~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~L  329 (857)
T PLN03077        250 RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSL  329 (857)
T ss_pred             CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHH
Confidence            47889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhH-
Q 012365           88 ISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED-  166 (465)
Q Consensus        88 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-  166 (465)
                      |.+|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.++ 
T Consensus       330 i~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~  405 (857)
T PLN03077        330 IQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL  405 (857)
T ss_pred             HHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchH
Confidence            999999999999999999997    589999999999999999999999999999999999999999999999987765 


Q ss_pred             --HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q 012365          167 --IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIK  244 (465)
Q Consensus       167 --~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  244 (465)
                        +.++++.+.+.|+.|+..+|+.|+++|++.|++++|.++|+++..  ++ ..+|+.+|.+|++.|+.++|+++|++|.
T Consensus       406 ~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~--~d-~vs~~~mi~~~~~~g~~~eA~~lf~~m~  482 (857)
T PLN03077        406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE--KD-VISWTSIIAGLRLNNRCFEALIFFRQML  482 (857)
T ss_pred             HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC--CC-eeeHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence              556899999999999999999999999999999999999996543  33 3469999999999999999999999998


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc--chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHH
Q 012365          245 EAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD--GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAM  322 (465)
Q Consensus       245 ~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  322 (465)
                      . ++.||..||+.++.+|++.|.++.+.+++..+.+.|..++  .++.++..|+++|++++|.++|+.+    .++..+|
T Consensus       483 ~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~----~~d~~s~  557 (857)
T PLN03077        483 L-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH----EKDVVSW  557 (857)
T ss_pred             h-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc----CCChhhH
Confidence            6 6899999999999999999999999999999999987766  4578999999999999999999998    3899999


Q ss_pred             HHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHH-HcCCCCChhHHHH
Q 012365          323 EYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYE-NAGLPYNVLSYLW  401 (465)
Q Consensus       323 ~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~  401 (465)
                      ++++..+...      |+.++|+++|++|. +.|+.||..||+.++.+|++.|++++|.++|+.|. +.|+.|+..+|+.
T Consensus       558 n~lI~~~~~~------G~~~~A~~lf~~M~-~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~  630 (857)
T PLN03077        558 NILLTGYVAH------GKGSMAVELFNRMV-ESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYAC  630 (857)
T ss_pred             HHHHHHHHHc------CCHHHHHHHHHHHH-HcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHH
Confidence            9999876554      99999999999999 99999999999999999999999999999999999 6899999999999


Q ss_pred             HHHHHHhcCChhhHHHHHhccC-CCCC-ChhHHHHHHHhh
Q 012365          402 MYKAFLASGNRKSASKLLSKMP-KDDP-HVRFVIQACKQT  439 (465)
Q Consensus       402 l~~~~~~~g~~~~A~~~~~~m~-~~~~-~~~~~l~~~~~~  439 (465)
                      ++++|++.|++++|.+++++|. +.++ .|+++|++|...
T Consensus       631 lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~  670 (857)
T PLN03077        631 VVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIH  670 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Confidence            9999999999999999999995 4444 589999999763

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

Probab=100.00  E-value=2.3e-60  Score=469.18  Aligned_cols=416  Identities=16%  Similarity=0.244  Sum_probs=387.8

Q ss_pred             CCCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365            7 ITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGE-LVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus         7 ~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      ..++..+|+.+|.++.+.|++++|+++|+.|...+ ..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+
T Consensus        83 ~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n  162 (697)
T PLN03081         83 IRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMN  162 (697)
T ss_pred             CCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHH
Confidence            44566799999999999999999999999998764 78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChh
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEE  165 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  165 (465)
                      .++.+|++.|+++.|.++|++|.    .||..+||++|.+|++.|++++|+++|++|.+.|+.|+..||+.++.+|++.+
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~  238 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLG  238 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCC
Confidence            99999999999999999999997    48999999999999999999999999999999999999999999999988766


Q ss_pred             H---HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHH
Q 012365          166 D---IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEE  242 (465)
Q Consensus       166 ~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  242 (465)
                      .   ..+++..+.+.|+.||..+|++|+++|++.|++++|.++|+++.  .+ +..+||.+|.+|++.|++++|+++|++
T Consensus       239 ~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~--~~-~~vt~n~li~~y~~~g~~~eA~~lf~~  315 (697)
T PLN03081        239 SARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP--EK-TTVAWNSMLAGYALHGYSEEALCLYYE  315 (697)
T ss_pred             cHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC--CC-ChhHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            5   45688889999999999999999999999999999999999653  33 444699999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc--chhhHhhHhhhcCChhHHHHHHHHHHHcccchhH
Q 012365          243 IKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD--GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEM  320 (465)
Q Consensus       243 m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  320 (465)
                      |.+.|+.||..||++++.+|++.|++++|.+++..|.+.|..++  .++.++..|+++|++++|.++|++|.+   |+..
T Consensus       316 M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~---~d~~  392 (697)
T PLN03081        316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR---KNLI  392 (697)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC---CCee
Confidence            99999999999999999999999999999999999999887665  678999999999999999999999987   8899


Q ss_pred             HHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHH-cCCCCChhHH
Q 012365          321 AMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYEN-AGLPYNVLSY  399 (465)
Q Consensus       321 ~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~~~  399 (465)
                      +|++++..+...      |+.++|+++|++|. ..|+.||..||++++.+|++.|++++|.++|+.|.+ .|+.|+..+|
T Consensus       393 t~n~lI~~y~~~------G~~~~A~~lf~~M~-~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y  465 (697)
T PLN03081        393 SWNALIAGYGNH------GRGTKAVEMFERMI-AEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHY  465 (697)
T ss_pred             eHHHHHHHHHHc------CCHHHHHHHHHHHH-HhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccch
Confidence            999999876554      99999999999999 999999999999999999999999999999999986 6999999999


Q ss_pred             HHHHHHHHhcCChhhHHHHHhccCCCC--CChhHHHHHHHhh
Q 012365          400 LWMYKAFLASGNRKSASKLLSKMPKDD--PHVRFVIQACKQT  439 (465)
Q Consensus       400 ~~l~~~~~~~g~~~~A~~~~~~m~~~~--~~~~~~l~~~~~~  439 (465)
                      +.++++|++.|++++|.+++++|....  .+|+++|++|...
T Consensus       466 ~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~  507 (697)
T PLN03081        466 ACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIH  507 (697)
T ss_pred             HhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Confidence            999999999999999999999997432  2589999999875

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

Probab=100.00  E-value=4.5e-56  Score=438.78  Aligned_cols=433  Identities=12%  Similarity=0.115  Sum_probs=391.8

Q ss_pred             cccCCCCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHH
Q 012365            3 AKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSE   82 (465)
Q Consensus         3 ~~~~~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   82 (465)
                      ...++.||..+|+.++.+|++.++++.|.+++..|.+.|+.||..+|+.++.+|++.|+++.|.++|++|.+    ||..
T Consensus       115 ~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~  190 (697)
T PLN03081        115 AGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLA  190 (697)
T ss_pred             hcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC----CCee
Confidence            344688999999999999999999999999999999999999999999999999999999999999999964    7999


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhC
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCS  162 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  162 (465)
                      +||.+|.+|++.|++++|.++|++|...|+.|+..+|+.++.++++.|..+.+.+++..+.+.|+.||..+|+.++.+|+
T Consensus       191 t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~  270 (697)
T PLN03081        191 SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYS  270 (697)
T ss_pred             eHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             ChhHHH---HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhc-CCCCChHHHHHHHHHHHHcCCChhHHHH
Q 012365          163 NEEDII---KYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAE-IPVKSRSEVKSALVSALASHGRTSDAII  238 (465)
Q Consensus       163 ~~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~  238 (465)
                      +.|+.+   ++|+.|.    .+|..+|++++.+|++.|++++|.++|++|. ....++..||+.++.+|++.|++++|.+
T Consensus       271 k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~  346 (697)
T PLN03081        271 KCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQ  346 (697)
T ss_pred             HCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHH
Confidence            776654   5666553    5689999999999999999999999999874 4456677789999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHH-cccc
Q 012365          239 VYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKD-KFKD  317 (465)
Q Consensus       239 ~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~  317 (465)
                      ++..|.+.|+.||..+++.|+.+|++.|++++|.++|++|.+.  +..+|+.++.+|++.|+.++|.++|++|.+ +..|
T Consensus       347 i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~--d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~P  424 (697)
T PLN03081        347 AHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK--NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAP  424 (697)
T ss_pred             HHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCC--CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999999999999999999999999999874  456899999999999999999999999998 5778


Q ss_pred             hhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChh
Q 012365          318 DEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVL  397 (465)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  397 (465)
                      +..+++.++.++..      .|.+++|.++|+.|....|+.|+..+|+.++++|++.|++++|.+++++|   +++|+..
T Consensus       425 d~~T~~~ll~a~~~------~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~  495 (697)
T PLN03081        425 NHVTFLAVLSACRY------SGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVN  495 (697)
T ss_pred             CHHHHHHHHHHHhc------CCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHH
Confidence            88888888775443      49999999999999845799999999999999999999999999998765   6899999


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHhccCCCCC----ChhHHHHHHHhh------ccccchhhhcCCCCC
Q 012365          398 SYLWMYKAFLASGNRKSASKLLSKMPKDDP----HVRFVIQACKQT------YTIPSLQKERGFEKD  454 (465)
Q Consensus       398 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~----~~~~~l~~~~~~------~~~~~~~~~~~~~pd  454 (465)
                      +|++|+.+|...|+++.|..+++++.+.+|    .|..+++.+...      ....+.|++.|+.+.
T Consensus       496 ~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~  562 (697)
T PLN03081        496 MWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMH  562 (697)
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccC
Confidence            999999999999999999999999987666    356666666554      333477788887654

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

Probab=99.96  E-value=4e-25  Score=228.56  Aligned_cols=405  Identities=13%  Similarity=0.069  Sum_probs=232.2

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      ++..+|+.+...+...|++++|.+.|+++.+... .+...+..+...+...|++++|.+.++.+.+.+ +.+..++..+.
T Consensus       463 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  540 (899)
T TIGR02917       463 DNASLHNLLGAIYLGKGDLAKAREAFEKALSIEP-DFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALA  540 (899)
T ss_pred             CCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            3445555566666666666666666666555322 234445555555555666666666666655543 34455566666


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCCh---h
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNE---E  165 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---~  165 (465)
                      ..+.+.|+.++|..+|+++...+ +.+...+..+...+.+.|++++|.++++++.+.. +.+..++..+...+.+.   +
T Consensus       541 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  618 (899)
T TIGR02917       541 GLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLN  618 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            66666666666666666655443 3445555566666666666666666666665432 33444555555444333   3


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          166 DIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                      ++...++.+.+.. +.+...+..+..++.+.|++++|...|++.....+....++..+...+...|++++|.++++.+.+
T Consensus       619 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  697 (899)
T TIGR02917       619 KAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQK  697 (899)
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3334444444433 224455556666666666666666666653222222233466666666666666666666666666


Q ss_pred             cCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHH
Q 012365          246 AGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYH  325 (465)
Q Consensus       246 ~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  325 (465)
                      .+ +.+...+..+...+...|++++|...++.+.........+..+...+...|++++|.+.++.+.+..+.+...++.+
T Consensus       698 ~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~l  776 (899)
T TIGR02917       698 QH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTAL  776 (899)
T ss_pred             hC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            54 23455555666666666777777777766665554444555556666666777777777666666443333333322


Q ss_pred             HHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 012365          326 FSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKA  405 (465)
Q Consensus       326 l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  405 (465)
                      .. ++..     .|+.++|.+.|+++. .. .++++..++.+...+...|+ ++|+..++++.+. .+.+..++..+...
T Consensus       777 a~-~~~~-----~g~~~~A~~~~~~~~-~~-~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~-~~~~~~~~~~~~~~  846 (899)
T TIGR02917       777 AE-LYLA-----QKDYDKAIKHYRTVV-KK-APDNAVVLNNLAWLYLELKD-PRALEYAEKALKL-APNIPAILDTLGWL  846 (899)
T ss_pred             HH-HHHH-----CcCHHHHHHHHHHHH-Hh-CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh-CCCCcHHHHHHHHH
Confidence            22 2222     267777777777766 22 12355566666666666666 6677777776665 34455566666667


Q ss_pred             HHhcCChhhHHHHHhccCCCCCCh
Q 012365          406 FLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       406 ~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      |...|++++|.++++++.+.+|..
T Consensus       847 ~~~~g~~~~A~~~~~~a~~~~~~~  870 (899)
T TIGR02917       847 LVEKGEADRALPLLRKAVNIAPEA  870 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhhCCCC
Confidence            777777777777777777666643

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=99.96  E-value=5.2e-25  Score=227.74  Aligned_cols=397  Identities=13%  Similarity=0.052  Sum_probs=330.4

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...+..+...+...|++++|.+.|+.+.+... .+..++..+...+...|+.++|..+++++.+.+ +.+...+..+..
T Consensus       498 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  575 (899)
T TIGR02917       498 FFPAAANLARIDIQEGNPDDAIQRFEKVLTIDP-KNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQ  575 (899)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHH
Confidence            466788888999999999999999999988653 478889999999999999999999999998876 567788899999


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh---CChhH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC---SNEED  166 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~---~~~~~  166 (465)
                      .+.+.|++++|..+++.+.... +.+...|..+...+...|++++|...|+++.+.. +.+...+..+...+   ++.+.
T Consensus       576 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  653 (899)
T TIGR02917       576 YYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAK  653 (899)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999998754 6788899999999999999999999999998753 23445555555554   44555


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          167 IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                      +...++.+.+.. +.+..++..+...+...|++++|.++++.+....+.....+..+...+...|++++|.+.|..+...
T Consensus       654 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  732 (899)
T TIGR02917       654 AITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR  732 (899)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            666777776654 3467889999999999999999999999865555555556888999999999999999999999987


Q ss_pred             CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHH
Q 012365          247 GCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYH  325 (465)
Q Consensus       247 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  325 (465)
                      +  |+..++..+..++.+.|++++|.+.++.+.+..+ .+..+..+...|...|++++|...|+++.+..+++...++.+
T Consensus       733 ~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  810 (899)
T TIGR02917       733 A--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNL  810 (899)
T ss_pred             C--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            6  6667888899999999999999999999876543 345667778888899999999999999998665555555554


Q ss_pred             HHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          326 FSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       326 l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      ...+..      .|+ .+|+..+++.. .  ..| ++.++..+...+...|++++|..+++++.+.+ +.+..++..++.
T Consensus       811 ~~~~~~------~~~-~~A~~~~~~~~-~--~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~l~~  879 (899)
T TIGR02917       811 AWLYLE------LKD-PRALEYAEKAL-K--LAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA-PEAAAIRYHLAL  879 (899)
T ss_pred             HHHHHh------cCc-HHHHHHHHHHH-h--hCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCChHHHHHHHH
Confidence            443333      377 78999999998 3  334 45567788888999999999999999999975 568999999999


Q ss_pred             HHHhcCChhhHHHHHhccCC
Q 012365          405 AFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       405 ~~~~~g~~~~A~~~~~~m~~  424 (465)
                      +|.+.|++++|.+++++|++
T Consensus       880 ~~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       880 ALLATGRKAEARKELDKLLN  899 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHhC
Confidence            99999999999999999864

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=1.2e-20  Score=175.37  Aligned_cols=233  Identities=15%  Similarity=0.088  Sum_probs=166.3

Q ss_pred             HHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---HHHHHHHHHHHhccC
Q 012365           19 TYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPN---SETFRSMISLNVKIK   95 (465)
Q Consensus        19 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g   95 (465)
                      ..+...|++++|+..|+++.+.+. .+..++..+...+...|++++|..+++.+.+.+..++   ..++..+...|.+.|
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g  121 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG  121 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC
Confidence            345567888899999999888643 3566788888888888999999999888877542221   246778888888889


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHH
Q 012365           96 DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLK  175 (465)
Q Consensus        96 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~  175 (465)
                      ++++|..+|+++.+.. +++..+++.++..+.+.|++++|.+.++.+.+.+..+....                      
T Consensus       122 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----------------------  178 (389)
T PRK11788        122 LLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE----------------------  178 (389)
T ss_pred             CHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH----------------------
Confidence            9999999998888653 45677888888888999999999988888876432111100                      


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHH
Q 012365          176 SAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAV  255 (465)
Q Consensus       176 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  255 (465)
                            ....+..+...+.+.|++++|.+.|++.....+.....+..+...+.+.|++++|.++|+++...+......++
T Consensus       179 ------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  252 (389)
T PRK11788        179 ------IAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVL  252 (389)
T ss_pred             ------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHH
Confidence                  01224456667778888888888888743322333335777888888888888888888888876522224556


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHcCC
Q 012365          256 IALIEHLNSEGELNRLIQLLEEVHDP  281 (465)
Q Consensus       256 ~~ll~~~~~~g~~~~a~~~~~~~~~~  281 (465)
                      ..+..+|.+.|++++|...++.+.+.
T Consensus       253 ~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        253 PKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            67777777777777777777766543

>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=99.88  E-value=8.5e-18  Score=164.55  Aligned_cols=405  Identities=11%  Similarity=0.043  Sum_probs=280.3

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHh
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNV   92 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~   92 (465)
                      .+...-..+.+.|++++|+..|++..+.  .|+...|..+..++...|++++|.+.++...+.. +.+...+..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            3456677788899999999999998874  5678889899999999999999999999998875 456788999999999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH-------------
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIH-------------  159 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~-------------  159 (465)
                      ..|++++|..-|......+- .+......++..+........+...++.-  ....|..........             
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~a~~~~~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~  282 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDG-FRNEQSAQAVERLLKKFAESKAKEILETK--PENLPSVTFVGNYLQSFRPKPRPAGLED  282 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCC-CccHHHHHHHHHHHHHHHHHHHHHHHhcC--CCCCCCHHHHHHHHHHccCCcchhhhhc
Confidence            99999999988876654321 11111111111111110011111111100  000011110000000             


Q ss_pred             -----------------------hhCChhHHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCC
Q 012365          160 -----------------------NCSNEEDIIKYYEQLKSAG-GQI-TKYVFMALINAYTTCGEFEKARQVVLDA-EIPV  213 (465)
Q Consensus       160 -----------------------~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~  213 (465)
                                             ......++.+.++...+.+ ..| ....+..+...+...|++++|...|++. ...+
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                                   0112344556677666654 233 4567788888899999999999999983 3444


Q ss_pred             CChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHh
Q 012365          214 KSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLI  292 (465)
Q Consensus       214 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~  292 (465)
                      . ....|..+...+...|++++|...|++..+... .++..+..+...+...|++++|...|++..+..+. ...+..+.
T Consensus       363 ~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la  440 (615)
T TIGR00990       363 R-VTQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLG  440 (615)
T ss_pred             C-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHH
Confidence            3 333588889999999999999999999988752 35778888999999999999999999999876543 34456677


Q ss_pred             hHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcH-------H-HH
Q 012365          293 LHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSR-------K-CL  364 (465)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~-------~-~~  364 (465)
                      ..+.+.|++++|+..|++.....+.+...++. +..++..     .|++++|+..|++.. .  +.|+.       . .+
T Consensus       441 ~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~-lg~~~~~-----~g~~~~A~~~~~~Al-~--l~p~~~~~~~~~~~l~  511 (615)
T TIGR00990       441 VTQYKEGSIASSMATFRRCKKNFPEAPDVYNY-YGELLLD-----QNKFDEAIEKFDTAI-E--LEKETKPMYMNVLPLI  511 (615)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCChHHHHH-HHHHHHH-----ccCHHHHHHHHHHHH-h--cCCccccccccHHHHH
Confidence            77889999999999999988754333333433 3333333     499999999999988 3  33321       1 11


Q ss_pred             HHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHH
Q 012365          365 DFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQA  435 (465)
Q Consensus       365 ~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~  435 (465)
                      +..+..+...|++++|.+++++..+.. +.+...+..+...+.+.|++++|.++|++..+...+....+.+
T Consensus       512 ~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e~~~a  581 (615)
T TIGR00990       512 NKALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGELVQA  581 (615)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHHHHHH
Confidence            222223344699999999999998863 5556689999999999999999999999988766654444443

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

Probab=99.87  E-value=2.2e-19  Score=160.50  Aligned_cols=370  Identities=14%  Similarity=0.082  Sum_probs=259.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHH-HHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN-AIM  123 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-~li  123 (465)
                      -..+|..+.+.+...|+++.|+.+|+.+.+.. +-.+..|..+..++...|+.+.|.+.|.+..+.  .|+..... .+.
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lg  191 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLG  191 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--Ccchhhhhcchh
Confidence            34566666666666666666666666666653 334566666666666666666666666666554  24433322 233


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHhhCChhHHHHHHHHHHH-cCCCCC-HHHHHHHHHHHHhcCCHH
Q 012365          124 AGYFRKKDVQGALMVLKEMEQANVKPD-SQTFSYLIHNCSNEEDIIKYYEQLKS-AGGQIT-KYVFMALINAYTTCGEFE  200 (465)
Q Consensus       124 ~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~l~~~~~~~g~~~  200 (465)
                      ..+...|++++|...|.+..+.  .|. ...|+-+-..+...|+....+....+ ..+.|+ ...|-.|-+.|...+.++
T Consensus       192 nLlka~Grl~ea~~cYlkAi~~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  192 NLLKAEGRLEEAKACYLKAIET--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             HHHHhhcccchhHHHHHHHHhh--CCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcch
Confidence            3344456666666666665543  221 11122222222233443332222222 123343 567788888899999999


Q ss_pred             HHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHc
Q 012365          201 KARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE-PRAVIALIEHLNSEGELNRLIQLLEEVH  279 (465)
Q Consensus       201 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~  279 (465)
                      .|...+.+.....+.....+..+...|...|+.+-|++.+++..+..  |+ +..|+.|..++-..|++.+|...+.+..
T Consensus       270 ~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~--P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL  347 (966)
T KOG4626|consen  270 RAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ--PNFPDAYNNLANALKDKGSVTEAVDCYNKAL  347 (966)
T ss_pred             HHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcC--CCchHHHhHHHHHHHhccchHHHHHHHHHHH
Confidence            99999887433333334457788888999999999999999998865  55 6789999999999999999999999887


Q ss_pred             CCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCC
Q 012365          280 DPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLP  358 (465)
Q Consensus       280 ~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~  358 (465)
                      ...+ .+++.+.+...|...|.+++|..+|....+-. |.-....+-+...+..     +|++++|+..|++..   .++
T Consensus       348 ~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kq-----qgnl~~Ai~~Ykeal---rI~  418 (966)
T KOG4626|consen  348 RLCPNHADAMNNLGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQ-----QGNLDDAIMCYKEAL---RIK  418 (966)
T ss_pred             HhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHh-----cccHHHHHHHHHHHH---hcC
Confidence            7654 46788889999999999999999999888733 3333333334444444     699999999999998   788


Q ss_pred             CcH-HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhH
Q 012365          359 PSR-KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRF  431 (465)
Q Consensus       359 p~~-~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  431 (465)
                      |+. ..|+.+...|-..|+++.|.+.+.+....+ |--....+.|...|-..|+..+|+.-+++.++..|+++.
T Consensus       419 P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~n-Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpd  491 (966)
T KOG4626|consen  419 PTFADALSNMGNTYKEMGDVSAAIQCYTRAIQIN-PTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPD  491 (966)
T ss_pred             chHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcC-cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCch
Confidence            975 578889999999999999999999999853 444558999999999999999999999999999887643

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.87  E-value=2.4e-19  Score=166.73  Aligned_cols=293  Identities=15%  Similarity=0.116  Sum_probs=167.1

Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKY  170 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~  170 (465)
                      +...|++++|...|+++.+.+ +.+..++..+...+...|++++|..+++.+...+..++..                  
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~------------------  105 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQ------------------  105 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHH------------------
Confidence            344556666666666665543 3344455556666666666666666666555421111000                  


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCC
Q 012365          171 YEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNL  250 (465)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  250 (465)
                                 ....+..+...|.+.|++++|..+|+++....+....+++.++..+...|++++|.+.++.+...+..+
T Consensus       106 -----------~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~  174 (389)
T PRK11788        106 -----------RLLALQELGQDYLKAGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDS  174 (389)
T ss_pred             -----------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCc
Confidence                       112344455555555666666666655332222233345555666666666666666666655544222


Q ss_pred             CH----HHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhH-HHHH
Q 012365          251 EP----RAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEM-AMEY  324 (465)
Q Consensus       251 ~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~  324 (465)
                      +.    ..+..+...+.+.|++++|...++++.+.... ...+..+...+.+.|++++|.++|+++....+.+.. .++.
T Consensus       175 ~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~  254 (389)
T PRK11788        175 LRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPK  254 (389)
T ss_pred             chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHH
Confidence            11    12334444555566666666666665543322 223344445555666666666666666653222211 1222


Q ss_pred             HHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          325 HFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       325 ~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      +.. .+..     .|++++|...++++.   ...|+...+..+...+.+.|++++|..+++++.+.  .|+..++..++.
T Consensus       255 l~~-~~~~-----~g~~~~A~~~l~~~~---~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~  323 (389)
T PRK11788        255 LME-CYQA-----LGDEAEGLEFLRRAL---EEYPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLD  323 (389)
T ss_pred             HHH-HHHH-----cCCHHHHHHHHHHHH---HhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHH
Confidence            222 2222     378888888888877   33566666777888888999999999999988875  578888888887


Q ss_pred             HHHh---cCChhhHHHHHhccCC
Q 012365          405 AFLA---SGNRKSASKLLSKMPK  424 (465)
Q Consensus       405 ~~~~---~g~~~~A~~~~~~m~~  424 (465)
                      .+..   .|+..+|..++++|.+
T Consensus       324 ~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        324 YHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             HhhhccCCccchhHHHHHHHHHH
Confidence            7664   4588888888888775

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.86  E-value=3.8e-17  Score=170.36  Aligned_cols=391  Identities=11%  Similarity=0.042  Sum_probs=227.5

Q ss_pred             HHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC-CHHHHH-----------
Q 012365           18 ITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKP-NSETFR-----------   85 (465)
Q Consensus        18 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~-----------   85 (465)
                      -..+...|++++|+..|++..+... -+...+..+..++.+.|++++|...|++..+..-.. ....+.           
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            4456778999999999999988643 378888899999999999999999999988764211 112221           


Q ss_pred             -HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHhhC-
Q 012365           86 -SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD-SQTFSYLIHNCS-  162 (465)
Q Consensus        86 -~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~-  162 (465)
                       .....+.+.|++++|...|++..+.. +.+...+..+...+...|++++|++.|++..+..  |+ ...+..+...+. 
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYRQ  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHh
Confidence             22345678899999999999998875 5567788889999999999999999999998642  33 333333333221 


Q ss_pred             -ChhHHHHHHHHHHHcCC--------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCC
Q 012365          163 -NEEDIIKYYEQLKSAGG--------QITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGR  232 (465)
Q Consensus       163 -~~~~~~~~~~~~~~~~~--------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~  232 (465)
                       +.+++..+++.+.....        ......+..+...+...|++++|.+.|++. ...+.. ...+..+...|.+.|+
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~-~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGS-VWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHcCC
Confidence             22333333332211100        001123444556667777777777777763 333332 2235667777777777


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCC-------------------------------
Q 012365          233 TSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDP-------------------------------  281 (465)
Q Consensus       233 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-------------------------------  281 (465)
                      +++|...++++.+... .++..+..+...+...++.++|...++.+...                               
T Consensus       511 ~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~  589 (1157)
T PRK11447        511 RSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKE  589 (1157)
T ss_pred             HHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCH
Confidence            7777777777765431 12333323333334455555555555443321                               


Q ss_pred             ----------CCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHH
Q 012365          282 ----------DYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFI  351 (465)
Q Consensus       282 ----------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m  351 (465)
                                +..+.....+...+.+.|++++|+..|++.....+.+...+..+...+..      .|+.++|++.++..
T Consensus       590 ~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~------~g~~~eA~~~l~~l  663 (1157)
T PRK11447        590 AEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIA------QGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH------CCCHHHHHHHHHHH
Confidence                      12222334444455556666666666666555433333333333332222      26666666666655


Q ss_pred             HhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCC--CC---ChhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          352 KDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGL--PY---NVLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       352 ~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~--~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      .   ...| +...+..+..++...|++++|.++++++....-  +|   +...+..+...+...|++++|.+.+++.+
T Consensus       664 l---~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        664 P---ATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             h---ccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4   2333 223344455555556666666666666554311  11   11244444555556666666666666554

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

Probab=99.85  E-value=2.4e-18  Score=154.03  Aligned_cols=405  Identities=13%  Similarity=0.026  Sum_probs=313.4

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVK   93 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~   93 (465)
                      -..|.+-..+.|++++|++.-...-++... +....-.+-..+....+.+.....-....+.. +.-..+|+.+...+-.
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d~t-~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDPT-NTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCCC-cccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            345666667788999998877766554322 33333333344555566666555444444433 4567899999999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHhhCChhHHHH
Q 012365           94 IKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQ----TFSYLIHNCSNEEDIIK  169 (465)
Q Consensus        94 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~----~~~~ll~~~~~~~~~~~  169 (465)
                      .|++++|..+++.+.+.. +..+..|..+..++...|+.+.|...|.+..+.  .|+..    ....++.+.++..++..
T Consensus       129 rg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~  205 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKA  205 (966)
T ss_pred             hchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHH
Confidence            999999999999999875 456889999999999999999999999998764  45543    35567777777777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGC  248 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  248 (465)
                      -+....+... --...|+.|...+-..|++..|+..|++ ...++.-.. .|-.|...|-..+.++.|...+.+..... 
T Consensus       206 cYlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~d-AYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-  282 (966)
T KOG4626|consen  206 CYLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLD-AYINLGNVYKEARIFDRAVSCYLRALNLR-  282 (966)
T ss_pred             HHHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchH-HHhhHHHHHHHHhcchHHHHHHHHHHhcC-
Confidence            6655555432 2346778888888999999999999998 344444443 58889999999999999999998877654 


Q ss_pred             CCC-HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHH
Q 012365          249 NLE-PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHF  326 (465)
Q Consensus       249 ~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (465)
                       |+ ...+..+...|...|.+|.|+..+++..+..+. +++|+.+..+....|++.+|.+.+.....-.+......+.+-
T Consensus       283 -pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLg  361 (966)
T KOG4626|consen  283 -PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLG  361 (966)
T ss_pred             -CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHH
Confidence             55 556788888899999999999999999887654 779999999999999999999999998884444444444444


Q ss_pred             HHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcH-HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChh-HHHHHHH
Q 012365          327 SEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSR-KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVL-SYLWMYK  404 (465)
Q Consensus       327 ~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~l~~  404 (465)
                      ...-.      .|.+++|..+|....   .+.|.- ..++.|...|..+|++++|...+++..+  +.|+.. +|+.+..
T Consensus       362 ni~~E------~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGn  430 (966)
T KOG4626|consen  362 NIYRE------QGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGN  430 (966)
T ss_pred             HHHHH------hccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcch
Confidence            33333      499999999999988   677754 5678899999999999999999999998  466654 9999999


Q ss_pred             HHHhcCChhhHHHHHhccCCCCCChhHHHHHHHh
Q 012365          405 AFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       405 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                      .|-..|+...|.+.+.+....+|++...-+..+.
T Consensus       431 t~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLas  464 (966)
T KOG4626|consen  431 TYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLAS  464 (966)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHH
Confidence            9999999999999999999999987544443333

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.85  E-value=7.2e-17  Score=160.94  Aligned_cols=409  Identities=11%  Similarity=0.006  Sum_probs=288.9

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      -+.....-.+......|+.++|++++....... +.+...+..+..++...|++++|.+++++..+.. +.+...+..+.
T Consensus        13 ~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la   90 (765)
T PRK10049         13 LSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLI   90 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            344555566777778999999999999997632 4456678889999999999999999999998875 55678888899


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHhhCChhHH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS-QTFSYLIHNCSNEEDI  167 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~  167 (465)
                      .++...|++++|...+++..+.. +.+.. +..+...+...|+.++|+..++++.+.  .|+. ..+..+...+...+..
T Consensus        91 ~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~  166 (765)
T PRK10049         91 LTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLS  166 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCh
Confidence            99999999999999999998764 45666 888899999999999999999999875  4443 3333333333333333


Q ss_pred             HHHHHHHHHcCCCCCH------HHHHHHHHHHH-----hcCCH---HHHHHHHHHhcC----CCCChHH---HHHHHHHH
Q 012365          168 IKYYEQLKSAGGQITK------YVFMALINAYT-----TCGEF---EKARQVVLDAEI----PVKSRSE---VKSALVSA  226 (465)
Q Consensus       168 ~~~~~~~~~~~~~~~~------~~~~~l~~~~~-----~~g~~---~~a~~~~~~~~~----~~~~~~~---~~~~l~~~  226 (465)
                      ...++.+.+....|+.      .....++....     ..+++   ++|++.++.+..    .+.....   .....+.+
T Consensus       167 e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~  246 (765)
T PRK10049        167 APALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGA  246 (765)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHH
Confidence            3333333332222221      11222222222     22234   677777776331    1111111   11112345


Q ss_pred             HHcCCChhHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCc-----cchhhHhhHhhhcCC
Q 012365          227 LASHGRTSDAIIVYEEIKEAGCN-LEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWM-----DGCCRLILHCVRFKQ  300 (465)
Q Consensus       227 ~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~  300 (465)
                      +...|++++|+..|+.+.+.+.. |+. .-..+..++...|++++|...++.+...+...     .....+..++...++
T Consensus       247 Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~  325 (765)
T PRK10049        247 LLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESEN  325 (765)
T ss_pred             HHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhccc
Confidence            56779999999999999987632 332 22235678999999999999999987654322     233455666789999


Q ss_pred             hhHHHHHHHHHHHcccc------------hh--HHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHH
Q 012365          301 LSSATDLLKQLKDKFKD------------DE--MAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLD  365 (465)
Q Consensus       301 ~~~a~~~~~~~~~~~~~------------~~--~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~  365 (465)
                      +++|..+++.+....++            +.  .....+...++..     .|+.++|++.++++.   ...| +...+.
T Consensus       326 ~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~-----~g~~~eA~~~l~~al---~~~P~n~~l~~  397 (765)
T PRK10049        326 YPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKY-----SNDLPQAEMRARELA---YNAPGNQGLRI  397 (765)
T ss_pred             HHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHH-----cCCHHHHHHHHHHHH---HhCCCCHHHHH
Confidence            99999999999875321            11  1112222223332     599999999999998   3344 566778


Q ss_pred             HHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHH
Q 012365          366 FLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVI  433 (465)
Q Consensus       366 ~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l  433 (465)
                      .+...+...|++++|++.+++..+.. |.+...+..++..+.+.|++++|.++++++++..|....+.
T Consensus       398 ~lA~l~~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~  464 (765)
T PRK10049        398 DYASVLQARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQ  464 (765)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            88889999999999999999999863 66677888888899999999999999999999888664443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=1.8e-17  Score=161.71  Aligned_cols=359  Identities=9%  Similarity=0.002  Sum_probs=202.5

Q ss_pred             hcccCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHH
Q 012365           22 CDLLKVHVALDVVEQMVQGE--LVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDS   99 (465)
Q Consensus        22 ~~~g~~~~A~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~   99 (465)
                      .+..+|+...-.|..-.++-  -.-+..-...++..+.+.|+++.|..+++...... +-+...+..++.+....|+++.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHH
Confidence            44556655555554432210  01122334455667778888888888888887765 3345555556666677888888


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCC
Q 012365          100 AYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGG  179 (465)
Q Consensus       100 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  179 (465)
                      |...|+++.... |.+...+..+...+...|++++|...|++..+.  .|+                             
T Consensus        95 A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~-----------------------------  142 (656)
T PRK15174         95 VLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSG-----------------------------  142 (656)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC-----------------------------
Confidence            888888888764 456677888888888888888888888888753  333                             


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365          180 QITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIAL  258 (465)
Q Consensus       180 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  258 (465)
                        +...+..+...+...|+.++|...++.+ ...+.+.. .+..+ ..+...|++++|...++.+.+....++......+
T Consensus       143 --~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~-a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l  218 (656)
T PRK15174        143 --NSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGD-MIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLA  218 (656)
T ss_pred             --cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHH-HHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHH
Confidence              2333444555556666666666655542 22222222 12222 2345556666666666665554322233333344


Q ss_pred             HHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhH----HHHHHHHHHHcccchhHHHHHHHHHHHHhh
Q 012365          259 IEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSS----ATDLLKQLKDKFKDDEMAMEYHFSEIFCQI  333 (465)
Q Consensus       259 l~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  333 (465)
                      ..++...|++++|...++......+. +..+..+...+...|++++    |...|++.....+.+...+.. +..++.. 
T Consensus       219 ~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~-lg~~l~~-  296 (656)
T PRK15174        219 VDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTL-YADALIR-  296 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHH-HHHHHHH-
Confidence            45555666666666666655543322 2233445555555666554    566666665532222222222 2222222 


Q ss_pred             hcCCCCchhhhHHhHHHHHhhcCCCCc-HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh
Q 012365          334 ATTDPPDVQIGLDLLQFIKDELGLPPS-RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNR  412 (465)
Q Consensus       334 ~~~~~~~~~~A~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  412 (465)
                          .|++++|+..+++..   ...|+ ...+..+..++...|++++|...++++.+.+ |.+...+..+..++...|++
T Consensus       297 ----~g~~~eA~~~l~~al---~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~-P~~~~~~~~~a~al~~~G~~  368 (656)
T PRK15174        297 ----TGQNEKAIPLLQQSL---ATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK-GVTSKWNRYAAAALLQAGKT  368 (656)
T ss_pred             ----CCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHCCCH
Confidence                366666666666666   23343 3344555666666777777777777666542 22223333345566667777


Q ss_pred             hhHHHHHhccCCCCC
Q 012365          413 KSASKLLSKMPKDDP  427 (465)
Q Consensus       413 ~~A~~~~~~m~~~~~  427 (465)
                      ++|.+.+++..+.+|
T Consensus       369 deA~~~l~~al~~~P  383 (656)
T PRK15174        369 SEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHHHHHHHHhCh
Confidence            777777776665544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.85  E-value=8.8e-17  Score=167.68  Aligned_cols=410  Identities=13%  Similarity=0.043  Sum_probs=273.0

Q ss_pred             CCC-CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHH----------------HHHHHHHHhcCCHHHHHHHH
Q 012365            7 ITP-SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETI----------------NSILHACEESYEFNLVRRIY   69 (465)
Q Consensus         7 ~~p-~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~----------------~~ll~~~~~~~~~~~a~~~~   69 (465)
                      +.| |+..+..++..+.+.|+.++|.+.++++.+..+. +....                ..+...+...|++++|.+.|
T Consensus        57 ~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~-~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~  135 (1157)
T PRK11447         57 IDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPD-SNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASY  135 (1157)
T ss_pred             cCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHH
Confidence            344 5677888888999999999999999999886532 33221                22334577889999999999


Q ss_pred             HHHhhCCCCCCHHH-HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 012365           70 PMICHHNLKPNSET-FRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK  148 (465)
Q Consensus        70 ~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  148 (465)
                      +.+.+.+ +|+... ...+.......|+.++|.+.++++.+.. |.+...+..+...+...|+.++|+..++++.+....
T Consensus       136 ~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~  213 (1157)
T PRK11447        136 DKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAG  213 (1157)
T ss_pred             HHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCc
Confidence            9998765 445432 1112222334599999999999998875 556778888999999999999999999998653210


Q ss_pred             C----------------CH---HHHHHHHHhhCChhHHH---HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 012365          149 P----------------DS---QTFSYLIHNCSNEEDII---KYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVV  206 (465)
Q Consensus       149 p----------------~~---~~~~~ll~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  206 (465)
                      .                +.   ..+...+..+.....+.   ..++........|.... ......+...|++++|+..|
T Consensus       214 ~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~-~~~G~~~~~~g~~~~A~~~l  292 (1157)
T PRK11447        214 RDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA-RAQGLAAVDSGQGGKAIPEL  292 (1157)
T ss_pred             hHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH-HHHHHHHHHCCCHHHHHHHH
Confidence            0                00   01111122222222222   22222222222333221 23356678899999999999


Q ss_pred             HHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCC-CHHHH---------H---HHHHHHHccCcHHHHH
Q 012365          207 LDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNL-EPRAV---------I---ALIEHLNSEGELNRLI  272 (465)
Q Consensus       207 ~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~---------~---~ll~~~~~~g~~~~a~  272 (465)
                      ++. ...+.. ...+..+...+.+.|++++|+..|++..+..... ....+         .   .....+.+.|++++|.
T Consensus       293 ~~aL~~~P~~-~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~  371 (1157)
T PRK11447        293 QQAVRANPKD-SEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAE  371 (1157)
T ss_pred             HHHHHhCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHH
Confidence            984 334433 4458889999999999999999999998765221 11111         1   2234667899999999


Q ss_pred             HHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHH
Q 012365          273 QLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFI  351 (465)
Q Consensus       273 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m  351 (465)
                      ..++++.+..+. +..+..+...+...|++++|++.|++..+..+.+...+..+. .++..      ++.++|+..++.+
T Consensus       372 ~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~-~l~~~------~~~~~A~~~l~~l  444 (1157)
T PRK11447        372 RLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLA-NLYRQ------QSPEKALAFIASL  444 (1157)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH-HHHHh------cCHHHHHHHHHhC
Confidence            999999876543 345566777888999999999999999885444443333322 22222      5677887777665


Q ss_pred             HhhcCCC--------CcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          352 KDELGLP--------PSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       352 ~~~~~~~--------p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      . .....        -....+..+...+...|++++|.+.+++..+. .|.+...+..+...|.+.|++++|...++++.
T Consensus       445 ~-~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~-~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al  522 (1157)
T PRK11447        445 S-ASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL-DPGSVWLTYRLAQDLRQAGQRSQADALMRRLA  522 (1157)
T ss_pred             C-HHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4 11100        00123444566677788888888888888876 25566677788888888888888888888887


Q ss_pred             CCCCChh
Q 012365          424 KDDPHVR  430 (465)
Q Consensus       424 ~~~~~~~  430 (465)
                      +..|...
T Consensus       523 ~~~P~~~  529 (1157)
T PRK11447        523 QQKPNDP  529 (1157)
T ss_pred             HcCCCCH
Confidence            7666543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=1.4e-16  Score=155.53  Aligned_cols=328  Identities=12%  Similarity=0.006  Sum_probs=251.2

Q ss_pred             HHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc
Q 012365           15 KKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI   94 (465)
Q Consensus        15 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~   94 (465)
                      ..++..+.+.|+++.|+.+++........ +...+..++.+....|+++.|.+.++.+.+.. +.+...+..+...+...
T Consensus        46 ~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~  123 (656)
T PRK15174         46 ILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKS  123 (656)
T ss_pred             HHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHc
Confidence            34677788899999999999999887555 45556666677778999999999999999875 56678899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH-HHHhhCChhHHHHHHHH
Q 012365           95 KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSY-LIHNCSNEEDIIKYYEQ  173 (465)
Q Consensus        95 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~~~~~  173 (465)
                      |++++|...+++..... +.+...+..+...+...|++++|...++.+....-.+....+.. .+...++..++...++.
T Consensus       124 g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~~~l~~~g~~~eA~~~~~~  202 (656)
T PRK15174        124 KQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATCLSFLNKSRLPEDHDLARA  202 (656)
T ss_pred             CCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999999998764 55678889999999999999999999998876432222222221 12223455667777777


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhH----HHHHHHHHHHcCCC
Q 012365          174 LKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSD----AIIVYEEIKEAGCN  249 (465)
Q Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~~~m~~~~~~  249 (465)
                      +.+....++......+...+...|++++|...+++.....+.....+..+...+...|++++    |...|++..+... 
T Consensus       203 ~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P-  281 (656)
T PRK15174        203 LLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNS-  281 (656)
T ss_pred             HHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCC-
Confidence            76665444455556667888999999999999998433333344457889999999999986    8999999988652 


Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHH
Q 012365          250 LEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSE  328 (465)
Q Consensus       250 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  328 (465)
                      .+...+..+...+...|++++|...+++.....+. +.....+...+...|++++|+..|+++.... |+...+......
T Consensus       282 ~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~-P~~~~~~~~~a~  360 (656)
T PRK15174        282 DNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK-GVTSKWNRYAAA  360 (656)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-ccchHHHHHHHH
Confidence            24667888999999999999999999998876543 3455667788889999999999999988743 333333333333


Q ss_pred             HHHhhhcCCCCchhhhHHhHHHHH
Q 012365          329 IFCQIATTDPPDVQIGLDLLQFIK  352 (465)
Q Consensus       329 ~~~~~~~~~~~~~~~A~~~~~~m~  352 (465)
                      ++..     .|+.++|...|++..
T Consensus       361 al~~-----~G~~deA~~~l~~al  379 (656)
T PRK15174        361 ALLQ-----AGKTSEAESVFEHYI  379 (656)
T ss_pred             HHHH-----CCCHHHHHHHHHHHH
Confidence            3333     499999999999988

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.83  E-value=9.4e-17  Score=137.80  Aligned_cols=365  Identities=14%  Similarity=0.150  Sum_probs=207.5

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +..+|..+|.++|+--..++|.++|++-.....+.+..+||.+|.+-+-..    ..+++.+|.+..+.||..|+|++++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHH
Confidence            345555555555555555555555555555444555555555554433221    1445555555555555555555555


Q ss_pred             HHhccCCHHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCCCCCCHHHHHHHHHhhCCh
Q 012365           90 LNVKIKDFDS----AYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQG-ALMVLKEMEQANVKPDSQTFSYLIHNCSNE  164 (465)
Q Consensus        90 ~~~~~g~~~~----a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  164 (465)
                      +.++.|+++.    |.+++.+|++.|+.|+..+|..+|..+++.++..+ |..++.++..                    
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N--------------------  341 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQN--------------------  341 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHH--------------------
Confidence            5555554443    23344455555555555555555555555444432 2222222221                    


Q ss_pred             hHHHHHHHHHHHcCCC---C-CHHHHHHHHHHHHhcCCHHHHHHHHHHhc-------CCCCChHH-HHHHHHHHHHcCCC
Q 012365          165 EDIIKYYEQLKSAGGQ---I-TKYVFMALINAYTTCGEFEKARQVVLDAE-------IPVKSRSE-VKSALVSALASHGR  232 (465)
Q Consensus       165 ~~~~~~~~~~~~~~~~---~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~-~~~~l~~~~~~~g~  232 (465)
                              .+....++   | |...|...+..|.+..+.+-|.++..-..       +++..... -|..+....|+...
T Consensus       342 --------~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es  413 (625)
T KOG4422|consen  342 --------SLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMES  413 (625)
T ss_pred             --------hhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHH
Confidence                    11111111   1 34455566677777777777766654321       11111111 26677888889999


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHH
Q 012365          233 TSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLK  312 (465)
Q Consensus       233 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  312 (465)
                      .+.....|+.|..+-+-|++.+...++++....+.++-..++|.++...|....              -+--+.++..+.
T Consensus       414 ~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r--------------~~l~eeil~~L~  479 (625)
T KOG4422|consen  414 IDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFR--------------SDLREEILMLLA  479 (625)
T ss_pred             HHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhh--------------HHHHHHHHHHHh
Confidence            999999999999988889999999999999999999999999999987664321              112223333333


Q ss_pred             Hcc-cchhHHHHHHHHHHHHhhhcCCCCchhhhH-HhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          313 DKF-KDDEMAMEYHFSEIFCQIATTDPPDVQIGL-DLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       313 ~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~-~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      ... .|. .+-..-+...+..++    -++.++. .--.+|+ +..+  .....+.++-.+.+.|...+|.+++..+.+.
T Consensus       480 ~~k~hp~-tp~r~Ql~~~~ak~a----ad~~e~~e~~~~R~r-~~~~--~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~  551 (625)
T KOG4422|consen  480 RDKLHPL-TPEREQLQVAFAKCA----ADIKEAYESQPIRQR-AQDW--PATSLNCIAILLLRAGRTQKAWEMLGLFLRK  551 (625)
T ss_pred             cCCCCCC-ChHHHHHHHHHHHHH----HHHHHHHHhhHHHHH-hccC--ChhHHHHHHHHHHHcchHHHHHHHHHHHHhc
Confidence            321 121 222222222233321    1222222 2233444 3333  4445566666788999999999999999655


Q ss_pred             C-CCCChhHHH---HHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          391 G-LPYNVLSYL---WMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       391 g-~~p~~~~~~---~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      + --|-....+   .+++.-.+.+....|...++-|...+..
T Consensus       552 ~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~  593 (625)
T KOG4422|consen  552 HNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLP  593 (625)
T ss_pred             CCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCch
Confidence            3 233344444   5666677788899999999988766653

>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=1.2e-15  Score=149.42  Aligned_cols=376  Identities=10%  Similarity=-0.009  Sum_probs=259.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR  128 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  128 (465)
                      +......+.+.|++++|...|++..+.  .|+...|..+..+|.+.|++++|...++...+.+ +.+...|..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            445666788899999999999998876  5788899999999999999999999999998765 4567789999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHc------------------------------C
Q 012365          129 KKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSA------------------------------G  178 (465)
Q Consensus       129 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~------------------------------~  178 (465)
                      .|++++|+.-|......+-..+.. ...++...............+...                              .
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccc
Confidence            999999999887765432111111 111111110000000000000000                              0


Q ss_pred             CCCCH-HHHHHHHHH---HHhcCCHHHHHHHHHHhc-CC--CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC
Q 012365          179 GQITK-YVFMALINA---YTTCGEFEKARQVVLDAE-IP--VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE  251 (465)
Q Consensus       179 ~~~~~-~~~~~l~~~---~~~~g~~~~a~~~~~~~~-~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~  251 (465)
                      ..+.. ..+..+...   ....+++++|.+.|+... ..  .+.....|+.+...+...|++++|+..+++..+..  |+
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~--P~  363 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD--PR  363 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CC
Confidence            00000 000001000   123467899999998732 22  22333357888888999999999999999998865  55


Q ss_pred             -HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHH
Q 012365          252 -PRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEI  329 (465)
Q Consensus       252 -~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (465)
                       ...|..+...+...|++++|...++...+..+ .++.+..+...+...|++++|...|++.....+.+...+.. +..+
T Consensus       364 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~-la~~  442 (615)
T TIGR00990       364 VTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQ-LGVT  442 (615)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHH-HHHH
Confidence             56788888889999999999999999876543 35677788888889999999999999998854444444333 3333


Q ss_pred             HHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhH-------HHH
Q 012365          330 FCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLS-------YLW  401 (465)
Q Consensus       330 ~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-------~~~  401 (465)
                      +..     .|++++|+..|++..   ...| ++..|+.+...+...|++++|...|++..+.. +.+...       ++.
T Consensus       443 ~~~-----~g~~~eA~~~~~~al---~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~-p~~~~~~~~~~~l~~~  513 (615)
T TIGR00990       443 QYK-----EGSIASSMATFRRCK---KNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE-KETKPMYMNVLPLINK  513 (615)
T ss_pred             HHH-----CCCHHHHHHHHHHHH---HhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CccccccccHHHHHHH
Confidence            332     499999999999988   3345 46788888999999999999999999998753 211111       122


Q ss_pred             HHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHhhc
Q 012365          402 MYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTY  440 (465)
Q Consensus       402 l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~~~  440 (465)
                      .+..+...|++++|.+++++.++.+|.....+...+..+
T Consensus       514 a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~  552 (615)
T TIGR00990       514 ALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLL  552 (615)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            222344479999999999999888886544444444443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.81  E-value=5.7e-15  Score=147.87  Aligned_cols=174  Identities=11%  Similarity=0.000  Sum_probs=114.0

Q ss_pred             HHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCC
Q 012365          260 EHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPP  339 (465)
Q Consensus       260 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  339 (465)
                      ..+...|++++|...++.+............+...+.+.|++++|...++...+.. |+.......+.....     ..|
T Consensus       517 ~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~-----~~G  590 (987)
T PRK09782        517 YQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRY-----IPG  590 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHH-----hCC
Confidence            33346667777777776665443333334444455566777777777777666533 222221111111111     137


Q ss_pred             chhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHH
Q 012365          340 DVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLL  419 (465)
Q Consensus       340 ~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  419 (465)
                      ++++|+..+++..   ...|+...|..+..++.+.|+.++|...+++..+. -|.+...++.+..++...|++++|.+.+
T Consensus       591 r~~eAl~~~~~AL---~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l-~Pd~~~a~~nLG~aL~~~G~~eeAi~~l  666 (987)
T PRK09782        591 QPELALNDLTRSL---NIAPSANAYVARATIYRQRHNVPAAVSDLRAALEL-EPNNSNYQAALGYALWDSGDIAQSREML  666 (987)
T ss_pred             CHHHHHHHHHHHH---HhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            8888888888887   55677777788888888888888888888888876 3667778888888888888888888888


Q ss_pred             hccCCCCCChhHHHHHHHhhcccc
Q 012365          420 SKMPKDDPHVRFVIQACKQTYTIP  443 (465)
Q Consensus       420 ~~m~~~~~~~~~~l~~~~~~~~~~  443 (465)
                      ++.++.+|....+....+..+...
T Consensus       667 ~~AL~l~P~~~~a~~nLA~al~~l  690 (987)
T PRK09782        667 ERAHKGLPDDPALIRQLAYVNQRL  690 (987)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHC
Confidence            888888887665555555554433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.81  E-value=6.3e-15  Score=144.57  Aligned_cols=395  Identities=12%  Similarity=0.043  Sum_probs=269.8

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHH
Q 012365           21 SCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSA  100 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  100 (465)
                      ..+.|+++.|++.|++..+....-....+ .++..+...|+.++|..++++..... +........+...+...|++++|
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            35678888888888888775432112233 67777777888888888888877221 22333444445677778888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh---CChhHHHHHHHHHHHc
Q 012365          101 YSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC---SNEEDIIKYYEQLKSA  177 (465)
Q Consensus       101 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~---~~~~~~~~~~~~~~~~  177 (465)
                      .++|+++.+.. |-+...+..++..+...++.++|++.++++...  .|+...+..+...+   .+..++.+.++.+.+.
T Consensus       122 iely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        122 LALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            88888887765 445667777778888888888888888887754  45555553333333   2332355566666655


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH------------------------------------------------h
Q 012365          178 GGQITKYVFMALINAYTTCGEFEKARQVVLD------------------------------------------------A  209 (465)
Q Consensus       178 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~------------------------------------------------~  209 (465)
                      . +-+...+..++.++.+.|-...|.++.++                                                +
T Consensus       199 ~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l  277 (822)
T PRK14574        199 A-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNL  277 (822)
T ss_pred             C-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHH
Confidence            4 22455555555666666555555444321                                                1


Q ss_pred             cC--CCCChH-----HHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          210 EI--PVKSRS-----EVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       210 ~~--~~~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      ..  +..|..     .+..-.+-++...|+..++++.|+.+...+.+....+-..+..+|...++.++|..+++.+....
T Consensus       278 ~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~  357 (822)
T PRK14574        278 LTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSD  357 (822)
T ss_pred             HhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcc
Confidence            10  111110     01123455677889999999999999998866566788899999999999999999999986543


Q ss_pred             C-----Cccc--hhhHhhHhhhcCChhHHHHHHHHHHHccc-----------chhHH---HHHHHHHHHHhhhcCCCCch
Q 012365          283 Y-----WMDG--CCRLILHCVRFKQLSSATDLLKQLKDKFK-----------DDEMA---MEYHFSEIFCQIATTDPPDV  341 (465)
Q Consensus       283 ~-----~~~~--~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~~---~~~~l~~~~~~~~~~~~~~~  341 (465)
                      .     .++.  ...+.-++...+++++|..+++.+.+..+           .++..   ...+....+..     .|++
T Consensus       358 ~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~-----~gdl  432 (822)
T PRK14574        358 GKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVA-----LNDL  432 (822)
T ss_pred             ccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHH-----cCCH
Confidence            1     1111  24567788899999999999999987311           01111   12222222222     4999


Q ss_pred             hhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHh
Q 012365          342 QIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS  420 (465)
Q Consensus       342 ~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  420 (465)
                      .+|++.++++.   ...| |......+...+...|.+.+|++.++..... -|-+..+....+.++...|++.+|.++.+
T Consensus       433 ~~Ae~~le~l~---~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l-~P~~~~~~~~~~~~al~l~e~~~A~~~~~  508 (822)
T PRK14574        433 PTAQKKLEDLS---STAPANQNLRIALASIYLARDLPRKAEQELKAVESL-APRSLILERAQAETAMALQEWHQMELLTD  508 (822)
T ss_pred             HHHHHHHHHHH---HhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh-CCccHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            99999999998   4455 6777788889999999999999999777765 46677788888999999999999999998


Q ss_pred             ccCCCCCChh
Q 012365          421 KMPKDDPHVR  430 (465)
Q Consensus       421 ~m~~~~~~~~  430 (465)
                      ++....|...
T Consensus       509 ~l~~~~Pe~~  518 (822)
T PRK14574        509 DVISRSPEDI  518 (822)
T ss_pred             HHHhhCCCch
Confidence            8887777543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=2.7e-15  Score=149.79  Aligned_cols=378  Identities=7%  Similarity=-0.004  Sum_probs=269.4

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      .+...+..+...+.+.|++++|.++|++..+.. +.+...+..+..++...|++++|...++++.+.. +.+.. +..+.
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la  123 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALA  123 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHH
Confidence            345568999999999999999999999998863 3356777788888999999999999999998874 55667 88889


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHh-h
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS------QTFSYLIHN-C  161 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~------~~~~~ll~~-~  161 (465)
                      .++...|+.++|...+++..+.. |.+...+..+...+...|..++|++.++....   .|+.      ......+.. .
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~  199 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSF  199 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhc
Confidence            99999999999999999999875 45666777788888899999999998876553   2331      011111111 1


Q ss_pred             ----CC---h---hHHHHHHHHHHHc-CCCCCHH-HH----HHHHHHHHhcCCHHHHHHHHHHhcCCCCC-hHHHHHHHH
Q 012365          162 ----SN---E---EDIIKYYEQLKSA-GGQITKY-VF----MALINAYTTCGEFEKARQVVLDAEIPVKS-RSEVKSALV  224 (465)
Q Consensus       162 ----~~---~---~~~~~~~~~~~~~-~~~~~~~-~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~l~  224 (465)
                          ..   .   +++.+.++.+.+. ...|+.. .+    ...+..+...|++++|+..|+.+.....+ +......+.
T Consensus       200 ~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la  279 (765)
T PRK10049        200 MPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVA  279 (765)
T ss_pred             ccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHH
Confidence                11   1   3344455565543 2233221 11    11134556779999999999985443321 211223367


Q ss_pred             HHHHcCCChhHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-----------cc----
Q 012365          225 SALASHGRTSDAIIVYEEIKEAGCNL---EPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-----------MD----  286 (465)
Q Consensus       225 ~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-----------~~----  286 (465)
                      .+|...|++++|+..|+++.......   .......+..++...|++++|...++.+....+.           |+    
T Consensus       280 ~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~  359 (765)
T PRK10049        280 SAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWL  359 (765)
T ss_pred             HHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHH
Confidence            78999999999999999987654211   1344666777889999999999999998765321           11    


Q ss_pred             -chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc-HHHH
Q 012365          287 -GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS-RKCL  364 (465)
Q Consensus       287 -~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~-~~~~  364 (465)
                       ........+...|++++|+++++++....+.+...+..+.. ++..     .|++++|++.+++..   ...|+ ...+
T Consensus       360 ~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~-l~~~-----~g~~~~A~~~l~~al---~l~Pd~~~l~  430 (765)
T PRK10049        360 QGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYAS-VLQA-----RGWPRAAENELKKAE---VLEPRNINLE  430 (765)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH-HHHh-----cCCHHHHHHHHHHHH---hhCCCChHHH
Confidence             23455667788999999999999998865444433333333 3322     499999999999998   56675 4555


Q ss_pred             HHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          365 DFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       365 ~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      ......+...|++++|..+++++.+.  .|+......+-.
T Consensus       431 ~~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~~~~~~~~  468 (765)
T PRK10049        431 VEQAWTALDLQEWRQMDVLTDDVVAR--EPQDPGVQRLAR  468 (765)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            66667888999999999999999986  455554444443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.73  E-value=6.1e-13  Score=133.53  Aligned_cols=400  Identities=10%  Similarity=0.003  Sum_probs=264.3

Q ss_pred             CCCHHHHHHH-HHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365            8 TPSSASYKKL-ITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEE-SYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus         8 ~p~~~~y~~l-i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      .|+..+.... ...|.+.|++++|++++..+.+.+.. +..-...|..++.. .++ +.+..++..    .++.++..+.
T Consensus       178 ~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~  251 (987)
T PRK09782        178 SPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRI  251 (987)
T ss_pred             CCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHH
Confidence            3445555555 88999999999999999999998644 45556666667776 366 777777542    3346788888


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCC-CCHHHHH------------------------------HHHHHHHh------
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLM-PTASMYN------------------------------AIMAGYFR------  128 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~------------------------------~li~~~~~------  128 (465)
                      .+...|.+.|+.++|.++++++...... |...+|-                              .++..+.+      
T Consensus       252 ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (987)
T PRK09782        252 TYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDA  331 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHH
Confidence            9999999999999999988887643111 2212111                              01222222      


Q ss_pred             ---------------------------------------------------------cCCHHHHHHHHHHHHHC-C-CCC
Q 012365          129 ---------------------------------------------------------KKDVQGALMVLKEMEQA-N-VKP  149 (465)
Q Consensus       129 ---------------------------------------------------------~g~~~~a~~~~~~m~~~-~-~~p  149 (465)
                                                                               .|+.++|.++|+..... + -.+
T Consensus       332 ~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  411 (987)
T PRK09782        332 AQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARL  411 (987)
T ss_pred             HHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCccccc
Confidence                                                                     34444444444444321 0 111


Q ss_pred             CHHHHHHHHHhhCChhH------H----------------------HHHHHHHHH-cCC-CC--CHHHHHHHHHHHHhcC
Q 012365          150 DSQTFSYLIHNCSNEED------I----------------------IKYYEQLKS-AGG-QI--TKYVFMALINAYTTCG  197 (465)
Q Consensus       150 ~~~~~~~ll~~~~~~~~------~----------------------~~~~~~~~~-~~~-~~--~~~~~~~l~~~~~~~g  197 (465)
                      +.....-++..+...+.      +                      ....+.... .+. ++  +...+..+..++.. +
T Consensus       412 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~  490 (987)
T PRK09782        412 SQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-T  490 (987)
T ss_pred             CHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-C
Confidence            22222223332221110      0                      111111111 111 23  56777777777776 8


Q ss_pred             CHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 012365          198 EFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLE  276 (465)
Q Consensus       198 ~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  276 (465)
                      +.++|...+.+ ....+. . .....+...+...|++++|...|+++....  |+...+..+..++.+.|+.++|...++
T Consensus       491 ~~~eAi~a~~~Al~~~Pd-~-~~~L~lA~al~~~Gr~eeAi~~~rka~~~~--p~~~a~~~la~all~~Gd~~eA~~~l~  566 (987)
T PRK09782        491 LPGVALYAWLQAEQRQPD-A-WQHRAVAYQAYQVEDYATALAAWQKISLHD--MSNEDLLAAANTAQAAGNGAARDRWLQ  566 (987)
T ss_pred             CcHHHHHHHHHHHHhCCc-h-HHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CCcHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            88889997776 333332 2 123334555568999999999999986643  555556677788899999999999999


Q ss_pred             HHcCCCCCcc-chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhc
Q 012365          277 EVHDPDYWMD-GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDEL  355 (465)
Q Consensus       277 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~  355 (465)
                      +..+..+... ....+.......|++++|...+++.....+ +...+.. +..++..     .|++++|+..+++..   
T Consensus       567 qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P-~~~a~~~-LA~~l~~-----lG~~deA~~~l~~AL---  636 (987)
T PRK09782        567 QAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAP-SANAYVA-RATIYRQ-----RHNVPAAVSDLRAAL---  636 (987)
T ss_pred             HHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-CHHHHHH-HHHHHHH-----CCCHHHHHHHHHHHH---
Confidence            9987653221 112222233355999999999999987443 4333333 3333333     499999999999998   


Q ss_pred             CCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          356 GLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       356 ~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      ...| +...++.+..++...|+.++|...+++..+. .|-+...+..+..++...|++++|...+++..+..|..
T Consensus       637 ~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l-~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~  710 (987)
T PRK09782        637 ELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKG-LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQ  710 (987)
T ss_pred             HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC
Confidence            5566 4556677888899999999999999999987 47788899999999999999999999999999887744

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.73  E-value=2.2e-13  Score=117.48  Aligned_cols=384  Identities=13%  Similarity=0.119  Sum_probs=246.9

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--CCHHHH-HHHHHHHhhCC-----------
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEES--YEFNLV-RRIYPMICHHN-----------   76 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~--~~~~~a-~~~~~~~~~~~-----------   76 (465)
                      +.+=|.|+.. ...|.++.+.-+|+.|.+.|++.+...--.|++..+-.  .++--+ .+-|-.|...|           
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            3445556554 55899999999999999999988887766666653322  221111 12222222221           


Q ss_pred             --------CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 012365           77 --------LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK  148 (465)
Q Consensus        77 --------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  148 (465)
                              .+-+..+|.++|.+.|+....+.|.+++++-.....+.+..+||.+|.+-.-.    ...+++.+|....+.
T Consensus       195 vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  195 VADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMT  270 (625)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcC
Confidence                    24567889999999999999999999999888777788889999888764432    227788999988899


Q ss_pred             CCHHHHHHHHHhhCChhH-------HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHH-----hc--CCC
Q 012365          149 PDSQTFSYLIHNCSNEED-------IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEK-ARQVVLD-----AE--IPV  213 (465)
Q Consensus       149 p~~~~~~~ll~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~-----~~--~~~  213 (465)
                      ||..|||+++.+.++.|.       +.+++.+|++.|+.|...+|..+|..+++.++..+ +..++.+     ++  ..+
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp  350 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKP  350 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccC
Confidence            999999999998666553       34588889999999999999999988888887654 3333332     11  111


Q ss_pred             --CChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc----CCCCCH---HHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC
Q 012365          214 --KSRSEVKSALVSALASHGRTSDAIIVYEEIKEA----GCNLEP---RAVIALIEHLNSEGELNRLIQLLEEVHDPDYW  284 (465)
Q Consensus       214 --~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~p~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  284 (465)
                        +.+...|..-+..|.+..+.+-|..+-.-+...    -+.|+.   .-|..+....|+....+.-...++.|.-.-.-
T Consensus       351 ~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~  430 (625)
T KOG4422|consen  351 ITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYF  430 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceec
Confidence              112223666777777777777777766555432    123332   23566777788888888888899888765544


Q ss_pred             ccch--hhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHH
Q 012365          285 MDGC--CRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRK  362 (465)
Q Consensus       285 ~~~~--~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~  362 (465)
                      |+.+  ..++.+....++++-.-+++..+..    -..+.+.                 +-.++++..+. ..+..|+..
T Consensus       431 p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~----~ght~r~-----------------~l~eeil~~L~-~~k~hp~tp  488 (625)
T KOG4422|consen  431 PHSQTMIHLLRALDVANRLEVIPRIWKDSKE----YGHTFRS-----------------DLREEILMLLA-RDKLHPLTP  488 (625)
T ss_pred             CCchhHHHHHHHHhhcCcchhHHHHHHHHHH----hhhhhhH-----------------HHHHHHHHHHh-cCCCCCCCh
Confidence            4433  3455566666777777777766655    1112221                 22233444444 334444323


Q ss_pred             ---HHHHHHHHhHhhhhhhHHH-HHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCC
Q 012365          363 ---CLDFLLGACVNARDLKRAH-LIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKD  425 (465)
Q Consensus       363 ---~~~~ll~~~~~~g~~~~A~-~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  425 (465)
                         -+.....-|+  -++.++. .--.+|.+.  .......+...-.+.|.|+.++|.+++.-..+.
T Consensus       489 ~r~Ql~~~~ak~a--ad~~e~~e~~~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~  551 (625)
T KOG4422|consen  489 EREQLQVAFAKCA--ADIKEAYESQPIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRK  551 (625)
T ss_pred             HHHHHHHHHHHHH--HHHHHHHHhhHHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhc
Confidence               3333322221  1222222 223344443  445566777888889999999999999988643

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.71  E-value=2.3e-12  Score=126.76  Aligned_cols=381  Identities=12%  Similarity=0.042  Sum_probs=258.7

Q ss_pred             CCCCCH--HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHH
Q 012365            6 EITPSS--ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSET   83 (465)
Q Consensus         6 ~~~p~~--~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   83 (465)
                      ...|+.  ..+ .++..+...|+.++|+..+++..... ..+......+...+...|++++|.++|+++.+.. +-++..
T Consensus        62 ~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~  138 (822)
T PRK14574         62 KAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDL  138 (822)
T ss_pred             hhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHH
Confidence            345654  234 77888888899999999999887321 2233344444567778899999999999998876 456777


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHhhC
Q 012365           84 FRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD-SQTFSYLIHNCS  162 (465)
Q Consensus        84 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~  162 (465)
                      +..++..+...++.++|++.++++...  .|+...+-.++..+...++..+|++.++++.+..  |+ ...+..++.+..
T Consensus       139 l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~--P~n~e~~~~~~~~l~  214 (822)
T PRK14574        139 ISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA--PTSEEVLKNHLEILQ  214 (822)
T ss_pred             HHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH
Confidence            778888889999999999999998876  4666666444444444666666999999988753  43 222222222211


Q ss_pred             Chh------------------------------------------------HHHHHH---HHHHH-cCCCCCH-H----H
Q 012365          163 NEE------------------------------------------------DIIKYY---EQLKS-AGGQITK-Y----V  185 (465)
Q Consensus       163 ~~~------------------------------------------------~~~~~~---~~~~~-~~~~~~~-~----~  185 (465)
                      +.+                                                .+++.+   +.+.. .+-.|.. .    .
T Consensus       215 ~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~  294 (822)
T PRK14574        215 RNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRA  294 (822)
T ss_pred             HcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHH
Confidence            100                                                011111   12221 1222321 1    2


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhcCCCCC-hHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC-----CCCCHHHHHHHH
Q 012365          186 FMALINAYTTCGEFEKARQVVLDAEIPVKS-RSEVKSALVSALASHGRTSDAIIVYEEIKEAG-----CNLEPRAVIALI  259 (465)
Q Consensus       186 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-----~~p~~~~~~~ll  259 (465)
                      ..-.+-++...|+..++++.|+.+.....+ +..+-..+..+|...+++++|..++..+....     ..++......|.
T Consensus       295 ~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~  374 (822)
T PRK14574        295 RIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLY  374 (822)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHH
Confidence            223456788899999999999987655532 33346789999999999999999999986653     122333457889


Q ss_pred             HHHHccCcHHHHHHHHHHHcCCCCC-----------cc-----chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHH
Q 012365          260 EHLNSEGELNRLIQLLEEVHDPDYW-----------MD-----GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAME  323 (465)
Q Consensus       260 ~~~~~~g~~~~a~~~~~~~~~~~~~-----------~~-----~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  323 (465)
                      -++...+++++|..+++.+.+..+.           |+     .....+..+.-.|++.+|++.++++....+.+.-...
T Consensus       375 yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~  454 (822)
T PRK14574        375 YSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRI  454 (822)
T ss_pred             HHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            9999999999999999999874321           11     2345666778899999999999999875444444433


Q ss_pred             HHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc-HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHH
Q 012365          324 YHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS-RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWM  402 (465)
Q Consensus       324 ~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  402 (465)
                      ..-. +...     .|.+.+|++.++...   ...|+ ..+......++...|++.+|..+.+.+.+.  .|+......|
T Consensus       455 ~~A~-v~~~-----Rg~p~~A~~~~k~a~---~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~--~Pe~~~~~~l  523 (822)
T PRK14574        455 ALAS-IYLA-----RDLPRKAEQELKAVE---SLAPRSLILERAQAETAMALQEWHQMELLTDDVISR--SPEDIPSQEL  523 (822)
T ss_pred             HHHH-HHHh-----cCCHHHHHHHHHHHh---hhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--CCCchhHHHH
Confidence            3332 2222     599999999997777   55675 455567788888999999999999999986  4555444443


Q ss_pred             HH
Q 012365          403 YK  404 (465)
Q Consensus       403 ~~  404 (465)
                      -.
T Consensus       524 ~r  525 (822)
T PRK14574        524 DR  525 (822)
T ss_pred             HH
Confidence            33

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

Probab=99.70  E-value=4.7e-13  Score=126.66  Aligned_cols=441  Identities=12%  Similarity=0.052  Sum_probs=288.5

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--HHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELV--PSTETINSILHACEESYEFNLVRRIYPMICHHNLKPN--SETF   84 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~   84 (465)
                      -|+...+.|-..|.-.|++..++.+...+......  .-..+|-.+.+++-..|++++|...|.+..+..  ++  +..+
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~  345 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPL  345 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccccc
Confidence            35667777777777888888888888877653211  123456667778888888888888887776654  33  3344


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHh
Q 012365           85 RSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK----DVQGALMVLKEMEQANVKPDSQTFSYLIHN  160 (465)
Q Consensus        85 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  160 (465)
                      --|...+.+.|+++.+...|+.+.... |-+..+..+|...|...+    ..+.|..++.+..+.. +.|...|..+-..
T Consensus       346 ~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql  423 (1018)
T KOG2002|consen  346 VGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQL  423 (1018)
T ss_pred             cchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHH
Confidence            456777888888888888888877653 445566666666676664    3455555555554432 3344444444333


Q ss_pred             hCC------hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCC------CC----ChHHHHHHHH
Q 012365          161 CSN------EEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIP------VK----SRSEVKSALV  224 (465)
Q Consensus       161 ~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~----~~~~~~~~l~  224 (465)
                      +-.      .+-.....+.+...+..+.+...|.+...+...|++++|...|++....      ..    ...++-..+.
T Consensus       424 ~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNla  503 (1018)
T KOG2002|consen  424 LEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLA  503 (1018)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHH
Confidence            322      1222334555666666788888898888889999999999988762111      11    1111222355


Q ss_pred             HHHHcCCChhHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHccCcHHHHHHHHHHHcCCC-CCccchhhHhhHhhhcCChh
Q 012365          225 SALASHGRTSDAIIVYEEIKEAGCNLEPRA-VIALIEHLNSEGELNRLIQLLEEVHDPD-YWMDGCCRLILHCVRFKQLS  302 (465)
Q Consensus       225 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  302 (465)
                      ..+-..++++.|.+.|..+....  |.... |.-+....-..+...+|...+++....+ ..|+.+..+...+.....+.
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~  581 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWK  581 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhc
Confidence            55666778889999999888876  55443 3334333344577788888888876654 56778888887888888888


Q ss_pred             HHHHHHHHHHHc--ccchhHHHHHHHHHHHHhhhcC------CCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHh
Q 012365          303 SATDLLKQLKDK--FKDDEMAMEYHFSEIFCQIATT------DPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVN  373 (465)
Q Consensus       303 ~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~------~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~  373 (465)
                      .|.+-|..+.+.  ..++..+.-++-.-++......      ..+..++|+++|.++.   ...| |...-|.+.-.++.
T Consensus       582 ~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL---~~dpkN~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  582 PAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVL---RNDPKNMYAANGIGIVLAE  658 (1018)
T ss_pred             ccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHH---hcCcchhhhccchhhhhhh
Confidence            888888777763  2234444433333333332211      1345778889998888   4445 66666778888899


Q ss_pred             hhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCC-CC-hhHHHHHHHhhccccchhhh---
Q 012365          374 ARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDD-PH-VRFVIQACKQTYTIPSLQKE---  448 (465)
Q Consensus       374 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~-~~-~~~~l~~~~~~~~~~~~~~~---  448 (465)
                      .|+++.|..+|.+..+.. ..+..+|..+.++|..+|+|-.|.+.|+..++.- .. -..+|.-.+.++...+..++   
T Consensus       659 kg~~~~A~dIFsqVrEa~-~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~  737 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREAT-SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKE  737 (1018)
T ss_pred             ccCchHHHHHHHHHHHHH-hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHH
Confidence            999999999999999874 4567789999999999999999999999877543 22 24455555555444433322   


Q ss_pred             -----cCCCCCcchhh
Q 012365          449 -----RGFEKDRDTLL  459 (465)
Q Consensus       449 -----~~~~pd~~t~~  459 (465)
                           ..+.|...++.
T Consensus       738 ~ll~a~~~~p~~~~v~  753 (1018)
T KOG2002|consen  738 ALLKARHLAPSNTSVK  753 (1018)
T ss_pred             HHHHHHHhCCccchHH
Confidence                 44666655543

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

Probab=99.62  E-value=9.4e-12  Score=118.06  Aligned_cols=409  Identities=10%  Similarity=0.018  Sum_probs=273.8

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      .+|-.+-++|-..|++++|...|.+..+....-....+--|...+.+.|+++.+...|+.+.+.. +-+..+...|...|
T Consensus       308 es~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Ly  386 (1018)
T KOG2002|consen  308 ESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLY  386 (1018)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHH
Confidence            45667888999999999999999888765332123344557788999999999999999998875 55678888888888


Q ss_pred             hccC----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----HCCCCCCHHHHHHHHHhh--
Q 012365           92 VKIK----DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME----QANVKPDSQTFSYLIHNC--  161 (465)
Q Consensus        92 ~~~g----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~----~~~~~p~~~~~~~ll~~~--  161 (465)
                      +..+    ..+.|..++.+....- +.|...|-.+...+-... ...++.+|....    ..+-.+.+...|.+-...  
T Consensus       387 a~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d-~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~  464 (1018)
T KOG2002|consen  387 AHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTD-PWASLDAYGNALDILESKGKQIPPEVLNNVASLHFR  464 (1018)
T ss_pred             HhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHH
Confidence            8775    4566777776666543 567777877777665544 444476666543    344445555555554432  


Q ss_pred             -CChhHHHHHHHHHHHc---CCC------CCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCC
Q 012365          162 -SNEEDIIKYYEQLKSA---GGQ------ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHG  231 (465)
Q Consensus       162 -~~~~~~~~~~~~~~~~---~~~------~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  231 (465)
                       +..+.+...+......   ...      ++..+--.+...+-..++.+.|.+.+..+-...+.-...|-.+.......+
T Consensus       465 ~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~  544 (1018)
T KOG2002|consen  465 LGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKN  544 (1018)
T ss_pred             hcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhcc
Confidence             3344444444444332   112      222233345556667788999999998754444444334555553444457


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhH--hh------------
Q 012365          232 RTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILH--CV------------  296 (465)
Q Consensus       232 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~--~~------------  296 (465)
                      ...+|...+++....+ .-++..++.+-..+.+...+..|.+-|..+.+.... .++|..+..+  |.            
T Consensus       545 ~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek  623 (1018)
T KOG2002|consen  545 NLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEK  623 (1018)
T ss_pred             CcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHH
Confidence            7888888888877654 224444444445677777777777755555443322 4666543332  21            


Q ss_pred             hcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhh
Q 012365          297 RFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARD  376 (465)
Q Consensus       297 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~  376 (465)
                      ..+..+.|+..|.++.+..+.|....+.+-. .+..     .|++.+|..+|.+++ +... -...+|-.+.++|..+|+
T Consensus       624 ~kk~~~KAlq~y~kvL~~dpkN~yAANGIgi-VLA~-----kg~~~~A~dIFsqVr-Ea~~-~~~dv~lNlah~~~e~~q  695 (1018)
T KOG2002|consen  624 EKKHQEKALQLYGKVLRNDPKNMYAANGIGI-VLAE-----KGRFSEARDIFSQVR-EATS-DFEDVWLNLAHCYVEQGQ  695 (1018)
T ss_pred             HHHHHHHHHHHHHHHHhcCcchhhhccchhh-hhhh-----ccCchHHHHHHHHHH-HHHh-hCCceeeeHHHHHHHHHH
Confidence            3456778889999888866666666555433 3333     499999999999999 4332 334467789999999999


Q ss_pred             hhHHHHHHHHHHHc-CCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHH
Q 012365          377 LKRAHLIWKEYENA-GLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFV  432 (465)
Q Consensus       377 ~~~A~~~~~~m~~~-g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  432 (465)
                      +..|.+.|+...+. .-..++.....|.+++.+.|++.+|.+.+.......|..+++
T Consensus       696 y~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v  752 (1018)
T KOG2002|consen  696 YRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSV  752 (1018)
T ss_pred             HHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchH
Confidence            99999999988765 445677789999999999999999999998888776654443

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

Probab=99.60  E-value=5.2e-11  Score=112.32  Aligned_cols=199  Identities=12%  Similarity=0.105  Sum_probs=132.8

Q ss_pred             CCCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHH
Q 012365            7 ITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRS   86 (465)
Q Consensus         7 ~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   86 (465)
                      +.|.+...-.....+.-.|+.++|.+++.+..+.... +...|-.|...|-..|+.+++...+-.+...+ +.|...|-.
T Consensus       135 l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~  212 (895)
T KOG2076|consen  135 LAPELRQLLGEANNLFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKR  212 (895)
T ss_pred             cCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHH
Confidence            3443444333444444459999999999999887544 77889999999999999999988776555444 667899999


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh----hC
Q 012365           87 MISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN----CS  162 (465)
Q Consensus        87 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~----~~  162 (465)
                      +-....+.|+++.|.-.|.+.++.. |++...+---+..|-+.|+...|.+.|.++....-+.|..-+..++..    +.
T Consensus       213 ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~  291 (895)
T KOG2076|consen  213 LADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFI  291 (895)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999876 667666667778899999999999999999875322222222222221    11


Q ss_pred             Ch---hHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          163 NE---EDIIKYYEQLK-SAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       163 ~~---~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                      ..   ..+.+.++... +.+-..+...++.++..+.+..+++.|......
T Consensus       292 ~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~  341 (895)
T KOG2076|consen  292 THNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVD  341 (895)
T ss_pred             HhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHH
Confidence            11   11222222222 122233444555566666666666666555543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.59  E-value=1.8e-11  Score=113.09  Aligned_cols=290  Identities=11%  Similarity=0.055  Sum_probs=198.9

Q ss_pred             HHHHHHHHhc--ccCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH--HHH
Q 012365           14 YKKLITYSCD--LLKVHVALDVVEQMVQGELVPSTET-INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR--SMI   88 (465)
Q Consensus        14 y~~li~~~~~--~g~~~~A~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~li   88 (465)
                      +..+..++..  .|+++.|.+.+....+..-  ++.. |.....+....|+++.+.+.+.++.+.  .|+.....  ...
T Consensus        85 ~~~~~~gl~a~~eGd~~~A~k~l~~~~~~~~--~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a  160 (398)
T PRK10747         85 RKQTEQALLKLAEGDYQQVEKLMTRNADHAE--QPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRV  160 (398)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHhccc--chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHH
Confidence            3344454443  5999999988887665422  2233 323334447889999999999999875  45554333  336


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-------HHHHHHHhh
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQ-------TFSYLIHNC  161 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-------~~~~ll~~~  161 (465)
                      ..+...|+++.|...++++.+.+ |-+......+...|.+.|++++|.+++..+.+.+..++..       .|..++...
T Consensus       161 ~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~  239 (398)
T PRK10747        161 RIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQA  239 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            68889999999999999998876 6678889999999999999999999999999876553321       222222222


Q ss_pred             CCh---hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHH
Q 012365          162 SNE---EDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAII  238 (465)
Q Consensus       162 ~~~---~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  238 (465)
                      ...   ....++++.+-+. .+.++.....+...+...|+.++|.+++++.-..+.+.   --.++.+....++++++++
T Consensus       240 ~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~---~l~~l~~~l~~~~~~~al~  315 (398)
T PRK10747        240 MADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDE---RLVLLIPRLKTNNPEQLEK  315 (398)
T ss_pred             HHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH---HHHHHHhhccCCChHHHHH
Confidence            122   2222333333222 24467777888888888888888888887632222222   1234455556688888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          239 VYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       239 ~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      ..+...+... -|+..+..+-..|.+.+++++|.+.|+...+..++...+..+...+.+.|+.++|.+.+++-..
T Consensus       316 ~~e~~lk~~P-~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        316 VLRQQIKQHG-DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            8888887652 2455566777888888888888888888887766655566677777778888888777776543

>TIGR00540 hemY_coli hemY protein

Probab=99.59  E-value=4.9e-12  Score=117.38  Aligned_cols=292  Identities=14%  Similarity=0.025  Sum_probs=176.2

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHH
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTAS-MYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYY  171 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~  171 (465)
                      ..|+++.|++.+.+..+.  .|+.. .+-....++.+.|+.+.|.+.+.+..+..  |+.                    
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~--------------------  151 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GND--------------------  151 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcC--------------------
Confidence            457777777777666554  34432 23333456666777777777777765421  221                    


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC
Q 012365          172 EQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE  251 (465)
Q Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~  251 (465)
                                ...+.......+...|+++.|.+.++.+....+.....+..+...+...|++++|.+.+..+.+.++. +
T Consensus       152 ----------~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~  220 (409)
T TIGR00540       152 ----------NILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-D  220 (409)
T ss_pred             ----------chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-C
Confidence                      11122233556667777777777777643333333334667777777788888888888777777643 3


Q ss_pred             HHHHH-HHHHHH---HccCcHHHHHHHHHHHcCCCC-----CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHH
Q 012365          252 PRAVI-ALIEHL---NSEGELNRLIQLLEEVHDPDY-----WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAM  322 (465)
Q Consensus       252 ~~~~~-~ll~~~---~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  322 (465)
                      +..+. .-..++   ...+..+++.+.+..+.+..+     .+..+......+...|+.++|.+++++..+..+++....
T Consensus       221 ~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~  300 (409)
T TIGR00540       221 DEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAIS  300 (409)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccch
Confidence            33221 111111   222222222223333222221     344455566667778888888888888777444333221


Q ss_pred             HHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHH
Q 012365          323 EYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWM  402 (465)
Q Consensus       323 ~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  402 (465)
                      ...+.    .......++.+.+++.++.......-.|+.....++.+.|.+.|++++|.+.|+........|+...+..+
T Consensus       301 ~~~l~----~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~L  376 (409)
T TIGR00540       301 LPLCL----PIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMA  376 (409)
T ss_pred             hHHHH----HhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHH
Confidence            11222    12222347778888888877722222232255678899999999999999999964444458999999999


Q ss_pred             HHHHHhcCChhhHHHHHhccC
Q 012365          403 YKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       403 ~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      ...+.+.|+.++|.+++++.+
T Consensus       377 a~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       377 ADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHcCCHHHHHHHHHHHH
Confidence            999999999999999999743

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=99.58  E-value=3.2e-12  Score=119.86  Aligned_cols=275  Identities=19%  Similarity=0.213  Sum_probs=172.7

Q ss_pred             ccccCCCCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCC------------------------CCCCHHHHHHHHHHHH
Q 012365            2 HAKLEITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGE------------------------LVPSTETINSILHACE   57 (465)
Q Consensus         2 ~~~~~~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~------------------------~~p~~~~~~~ll~~~~   57 (465)
                      ++..|+.|+.+||..+|..||..|+++.|- +|..|.-..                        -.|.+.||..|..+|.
T Consensus        16 ~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr   94 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYR   94 (1088)
T ss_pred             HHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHH
Confidence            356799999999999999999999999998 777775322                        1356789999999999


Q ss_pred             hcCCHHHHHHH---HHHHh----hCCC-----------------CCCHH----------HHHHHHHHHhcc------CC-
Q 012365           58 ESYEFNLVRRI---YPMIC----HHNL-----------------KPNSE----------TFRSMISLNVKI------KD-   96 (465)
Q Consensus        58 ~~~~~~~a~~~---~~~~~----~~~~-----------------~~~~~----------~~~~li~~~~~~------g~-   96 (465)
                      ..||+.....+   ++.+.    ..|+                 -||..          .|..++....+.      +. 
T Consensus        95 ~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~  174 (1088)
T KOG4318|consen   95 IHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPF  174 (1088)
T ss_pred             hccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchH
Confidence            99987653322   22222    1221                 22222          122222222111      11 


Q ss_pred             ----------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhH
Q 012365           97 ----------FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED  166 (465)
Q Consensus        97 ----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  166 (465)
                                ....+++.+..++..-.|+..+|.+++..-..+|+.+.|..++.+|++.|++.+.+.|..++-+-....-
T Consensus       175 ~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g~~~~q~  254 (1088)
T KOG4318|consen  175 QVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLGINAAQV  254 (1088)
T ss_pred             HHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhcCccchH
Confidence                      1112222222222111589999999999999999999999999999999999999999999988666677


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhH-----HHHHHH
Q 012365          167 IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSD-----AIIVYE  241 (465)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-----a~~~~~  241 (465)
                      ++.+.+.|.+.|+.|+..|+...+-.+.++|....+.+..+.   ....+...+..+..+...+.+.+.     ....+.
T Consensus       255 ~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~---~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k  331 (1088)
T KOG4318|consen  255 FEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQL---AHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTK  331 (1088)
T ss_pred             HHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccch---hhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhh
Confidence            788999999999999999999998888887764433332210   001111113333333222222221     122222


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCC
Q 012365          242 EIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDP  281 (465)
Q Consensus       242 ~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  281 (465)
                      +..-.|+......| +++.-....|+-+...++...+...
T Consensus       332 ~~fLlg~d~~~aiw-s~c~~l~hQgk~e~veqlvg~l~np  370 (1088)
T KOG4318|consen  332 KLFLLGTDILEAIW-SMCEKLRHQGKGEEVEQLVGQLLNP  370 (1088)
T ss_pred             HHHHhccccchHHH-HHHHHHHHcCCCchHHHHHhhhcCC
Confidence            22223444444333 4444445578888888887777543

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

Probab=99.57  E-value=4.3e-10  Score=102.59  Aligned_cols=398  Identities=11%  Similarity=0.019  Sum_probs=238.4

Q ss_pred             HHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh----hCCCCCCHHHHHHHHHHHhcc
Q 012365           19 TYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMIC----HHNLKPNSETFRSMISLNVKI   94 (465)
Q Consensus        19 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~li~~~~~~   94 (465)
                      -+|.+..-++.|..+++..++. ++.+...|.+-...=-..|+.+.+.++++.-.    ..|+..+...|-.=...|-..
T Consensus       414 lAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~a  492 (913)
T KOG0495|consen  414 LALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDA  492 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhc
Confidence            3455556677777777777664 55566666665555556677777777665533    456667777777666677777


Q ss_pred             CCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh---hCChhHHHH
Q 012365           95 KDFDSAYSLLDDLKEMNLMP--TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN---CSNEEDIIK  169 (465)
Q Consensus        95 g~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~---~~~~~~~~~  169 (465)
                      |..-.+..+......-|+.-  -..||+.-...|.+.+.++-|..+|....+- .+-+...|......   ++..+....
T Consensus       493 gsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~A  571 (913)
T KOG0495|consen  493 GSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEA  571 (913)
T ss_pred             CChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHH
Confidence            77777777777666655432  2456777777788888888888888777653 12233344433332   555566666


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCC
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCN  249 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  249 (465)
                      +++.....- +-....|......+...|++..|..++.+.-...+++...|-+-+.....+.+++.|..+|.+....+  
T Consensus       572 llqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~s--  648 (913)
T KOG0495|consen  572 LLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSIS--  648 (913)
T ss_pred             HHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccC--
Confidence            666666553 33456666677777888888888888877333333344457777888888888888888888877654  


Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc-chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHH
Q 012365          250 LEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD-GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSE  328 (465)
Q Consensus       250 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  328 (465)
                      |+...|..-+..-.-.++.++|.+++++..+.-+... .|..+...+-+.++.+.|.+.|..-.+ ..|+..+.-.++..
T Consensus       649 gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k-~cP~~ipLWllLak  727 (913)
T KOG0495|consen  649 GTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK-KCPNSIPLWLLLAK  727 (913)
T ss_pred             CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc-cCCCCchHHHHHHH
Confidence            6777776666666667778888888777665432221 233333444555555555555554433 23333333333333


Q ss_pred             HHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc------------------
Q 012365          329 IFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA------------------  390 (465)
Q Consensus       329 ~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~------------------  390 (465)
                      +=..     .|.+-+|..++++.+  ..-+-+...|-..|+.-.+.|+.+.|..+..+..+.                  
T Consensus       728 leEk-----~~~~~rAR~ildrar--lkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~  800 (913)
T KOG0495|consen  728 LEEK-----DGQLVRARSILDRAR--LKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRP  800 (913)
T ss_pred             HHHH-----hcchhhHHHHHHHHH--hcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCc
Confidence            2222     255666666666655  122224555556666666666666665554444432                  


Q ss_pred             -----------CCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          391 -----------GLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       391 -----------g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                                 ...-|+...-.+...+....+++.|.+.|++..+.++.+
T Consensus       801 ~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~  850 (913)
T KOG0495|consen  801 QRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDN  850 (913)
T ss_pred             ccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCcc
Confidence                       012233344444455555566666666666666666644

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

Probab=99.57  E-value=5.5e-12  Score=109.80  Aligned_cols=413  Identities=14%  Similarity=0.135  Sum_probs=263.8

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHHhhCCCCC----CHHHHHHHH
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETIN-SILHACEESYEFNLVRRIYPMICHHNLKP----NSETFRSMI   88 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~li   88 (465)
                      ...|.+-|..+....+|+..|+-+.+..+-|+..... .+...+.+...+.+|.++|......-...    ...+.+.+-
T Consensus       204 l~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nig  283 (840)
T KOG2003|consen  204 LFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIG  283 (840)
T ss_pred             HHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcC
Confidence            3345566777888999999999999888888876544 34566889999999999998877642111    234556666


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC------------CCHHHHHH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK------------PDSQTFSY  156 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~------------p~~~~~~~  156 (465)
                      -.+.+.|.++.|...|+...+.  .|+-.+--.|+-++..-|+.++..+.|.+|..-...            |+....+.
T Consensus       284 vtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~e  361 (840)
T KOG2003|consen  284 VTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNE  361 (840)
T ss_pred             eeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHH
Confidence            6788999999999999998776  488776666666677789999999999999754322            34444444


Q ss_pred             HHHh--h---CC--hhHHHHHHH---HHHHcCCCCCH-------------HHHH--------HHHHHHHhcCCHHHHHHH
Q 012365          157 LIHN--C---SN--EEDIIKYYE---QLKSAGGQITK-------------YVFM--------ALINAYTTCGEFEKARQV  205 (465)
Q Consensus       157 ll~~--~---~~--~~~~~~~~~---~~~~~~~~~~~-------------~~~~--------~l~~~~~~~g~~~~a~~~  205 (465)
                      .|..  +   -+  ..++++..-   .+..--+.|+-             ..+.        .-...+.+.|+++.|.++
T Consensus       362 ai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aiei  441 (840)
T KOG2003|consen  362 AIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEI  441 (840)
T ss_pred             HHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHH
Confidence            3332  1   11  112222111   11111112211             0011        112357889999999998


Q ss_pred             HHHhcCCCCChHH-HHHHH--HHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          206 VLDAEIPVKSRSE-VKSAL--VSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       206 ~~~~~~~~~~~~~-~~~~l--~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      ++-.........+ .-+.|  +..+....++.+|..+-+...... +-++...+.--......|++++|.+.+++....+
T Consensus       442 lkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~nd  520 (840)
T KOG2003|consen  442 LKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNND  520 (840)
T ss_pred             HHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCc
Confidence            8754333322221 12222  222222446777777776665432 1233333222233456789999999999987765


Q ss_pred             CC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcH
Q 012365          283 YW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSR  361 (465)
Q Consensus       283 ~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~  361 (465)
                      .. ......+...+...|+.++|++.|-++..-...+ ......+...+..+     .+..+|++++.+..  .-++.|+
T Consensus       521 asc~ealfniglt~e~~~~ldeald~f~klh~il~nn-~evl~qianiye~l-----ed~aqaie~~~q~~--slip~dp  592 (840)
T KOG2003|consen  521 ASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNN-AEVLVQIANIYELL-----EDPAQAIELLMQAN--SLIPNDP  592 (840)
T ss_pred             hHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhh-HHHHHHHHHHHHHh-----hCHHHHHHHHHHhc--ccCCCCH
Confidence            43 4455667777788999999999988776532222 22223334444442     67788888887776  3344467


Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCC---ChhHHHHHHHh
Q 012365          362 KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDP---HVRFVIQACKQ  438 (465)
Q Consensus       362 ~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~---~~~~~l~~~~~  438 (465)
                      ....-|...|-+.|+-.+|.+.+-+-.+. +|.|..+...|..-|....-+++|+.+|++.--..|   .|..++.+|-.
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~r  671 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFR  671 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHH
Confidence            77788888888888888888777666655 677777777777777777778888888877543333   46777777755

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.56  E-value=1.3e-11  Score=113.91  Aligned_cols=282  Identities=12%  Similarity=0.051  Sum_probs=174.7

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHH
Q 012365           94 IKDFDSAYSLLDDLKEMNLMPTASMYNAI-MAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYE  172 (465)
Q Consensus        94 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~  172 (465)
                      .|+++.|++.+.......  +++..+..+ ..+..+.|+++.|.+.+.++.+.  .|+...                   
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~-------------------  153 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQL-------------------  153 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchH-------------------
Confidence            477777776666554431  222222222 33446677777777777776643  222211                   


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCH
Q 012365          173 QLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEP  252 (465)
Q Consensus       173 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  252 (465)
                                 .........+...|+++.|.+.+++.....+........+...|.+.|++++|.+++..+.+.+..++.
T Consensus       154 -----------~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~  222 (398)
T PRK10747        154 -----------PVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE  222 (398)
T ss_pred             -----------HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH
Confidence                       111122455667777777777777643333333334667777777777777777777777776644222


Q ss_pred             -------HHHHHHHHHHHccCcHHHHHHHHHHHcCC-CCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHH
Q 012365          253 -------RAVIALIEHLNSEGELNRLIQLLEEVHDP-DYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEY  324 (465)
Q Consensus       253 -------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  324 (465)
                             .+|..++.......+.+...++++.+.+. ...+.....+...+...|+.++|.+++++..+. .++... - 
T Consensus       223 ~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~-~~~~~l-~-  299 (398)
T PRK10747        223 HRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR-QYDERL-V-  299 (398)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-CCCHHH-H-
Confidence                   12223333333444455555666655332 123444556666667778888888877777662 222211 0 


Q ss_pred             HHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHH
Q 012365          325 HFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMY  403 (465)
Q Consensus       325 ~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  403 (465)
                         .++   .....++.+++++..+...   ...| |+..+..+...|...|++++|.+.|+...+.  .|+...+..+.
T Consensus       300 ---~l~---~~l~~~~~~~al~~~e~~l---k~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La  368 (398)
T PRK10747        300 ---LLI---PRLKTNNPEQLEKVLRQQI---KQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLA  368 (398)
T ss_pred             ---HHH---hhccCCChHHHHHHHHHHH---hhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHH
Confidence               011   1112378888888888887   4445 4556778888999999999999999999985  79999999999


Q ss_pred             HHHHhcCChhhHHHHHhccC
Q 012365          404 KAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       404 ~~~~~~g~~~~A~~~~~~m~  423 (465)
                      ..+.+.|+.++|.+++++-+
T Consensus       369 ~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        369 DALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            99999999999999998754

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

Probab=99.53  E-value=2.8e-14  Score=125.83  Aligned_cols=261  Identities=16%  Similarity=0.131  Sum_probs=83.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 012365          121 AIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFE  200 (465)
Q Consensus       121 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  200 (465)
                      .+...+.+.|++++|++++++......+|+...|..                               .+.......++.+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~-------------------------------~~a~La~~~~~~~   61 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWR-------------------------------LLADLAWSLGDYD   61 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccc-------------------------------ccccccccccccc
Confidence            456777788888888888866543322344333322                               2233333444555


Q ss_pred             HHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcC
Q 012365          201 KARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD  280 (465)
Q Consensus       201 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  280 (465)
                      .|.+.++++-...+.....+..++.. ...+++++|.+++....+..  +++..+..++..+...++++++..+++.+..
T Consensus        62 ~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~  138 (280)
T PF13429_consen   62 EAIEAYEKLLASDKANPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEE  138 (280)
T ss_dssp             -----------------------------------------------------------H-HHHTT-HHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHh
Confidence            55555544322222222223444444 45555555555555443332  3444444555555555555555555555432


Q ss_pred             CC---CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCC
Q 012365          281 PD---YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGL  357 (465)
Q Consensus       281 ~~---~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~  357 (465)
                      ..   ..+..+......+.+.|+.++|++.+++..+..+.+......++..++.      .|+.+++.++++... ... 
T Consensus       139 ~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~------~~~~~~~~~~l~~~~-~~~-  210 (280)
T PF13429_consen  139 LPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLID------MGDYDEAREALKRLL-KAA-  210 (280)
T ss_dssp             -T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCT------TCHHHHHHHHHHHHH-HH--
T ss_pred             ccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH------CCChHHHHHHHHHHH-HHC-
Confidence            21   1122233344445556666666666666665433334444443333222      377777777777766 322 


Q ss_pred             CCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          358 PPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       358 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      ..|+..+..+..++...|+.++|...|++..+. .|.|+.....+.+++...|+.++|.++.++..+
T Consensus       211 ~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  211 PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-NPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHT-----------------
T ss_pred             cCHHHHHHHHHHHhccccccccccccccccccc-ccccccccccccccccccccccccccccccccc
Confidence            445567788889999999999999999999886 377888999999999999999999999887654

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.53  E-value=6.6e-11  Score=98.79  Aligned_cols=294  Identities=13%  Similarity=0.075  Sum_probs=198.1

Q ss_pred             ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---HHHHHHHHHHHhccCCHHHH
Q 012365           24 LLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPN---SETFRSMISLNVKIKDFDSA  100 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a  100 (465)
                      +.++++|.++|-+|.+.... +..+--+|.+.+.+.|..++|++++..+.++.--+.   ....-.|..-|...|-+|.|
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 SNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            56789999999999885322 445556677888899999999999999887531111   12444566678889999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCC
Q 012365          101 YSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ  180 (465)
Q Consensus       101 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  180 (465)
                      +.+|..+.+.+ .--......|+..|-+..+|++|+++-+++...+-.+.    +.-|.                     
T Consensus       127 E~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~----~~eIA---------------------  180 (389)
T COG2956         127 EDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTY----RVEIA---------------------  180 (389)
T ss_pred             HHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccc----hhHHH---------------------
Confidence            99999998755 34566788899999999999999999998887643332    22221                     


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 012365          181 ITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALI  259 (465)
Q Consensus       181 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  259 (465)
                         ..|..|...+....+.+.|..++.+. ...++..- .--.+.......|+++.|.+.|+...+.+..--+.+...|.
T Consensus       181 ---qfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvR-Asi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~  256 (389)
T COG2956         181 ---QFYCELAQQALASSDVDRARELLKKALQADKKCVR-ASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLY  256 (389)
T ss_pred             ---HHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcccee-hhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHH
Confidence               22344445555666777777777762 33333222 23445667778888888888888888877444456677788


Q ss_pred             HHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCC
Q 012365          260 EHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPP  339 (465)
Q Consensus       260 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  339 (465)
                      .+|.+.|+.++...++..+.+....++....+...-......+.|...+.+-.. ..|....++.++..-+   ...+.|
T Consensus       257 ~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~-r~Pt~~gf~rl~~~~l---~daeeg  332 (389)
T COG2956         257 ECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLR-RKPTMRGFHRLMDYHL---ADAEEG  332 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHh-hCCcHHHHHHHHHhhh---cccccc
Confidence            888888888888888888776655555444333333344445555555544433 2366666666665333   233456


Q ss_pred             chhhhHHhHHHHH
Q 012365          340 DVQIGLDLLQFIK  352 (465)
Q Consensus       340 ~~~~A~~~~~~m~  352 (465)
                      ...+.+..++.|.
T Consensus       333 ~~k~sL~~lr~mv  345 (389)
T COG2956         333 RAKESLDLLRDMV  345 (389)
T ss_pred             chhhhHHHHHHHH
Confidence            6777777777777

>TIGR00540 hemY_coli hemY protein

Probab=99.53  E-value=2.7e-10  Score=105.90  Aligned_cols=306  Identities=11%  Similarity=0.028  Sum_probs=178.1

Q ss_pred             HHHHHHHHh--cccCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           14 YKKLITYSC--DLLKVHVALDVVEQMVQGELVPSTE-TINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        14 y~~li~~~~--~~g~~~~A~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      +..+.+++.  ..|+++.|.+.+....+..  |+.. .+-....+....|+.+.+.+.+....+..-.++....-.....
T Consensus        85 ~~~~~~glla~~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l  162 (409)
T TIGR00540        85 QKQTEEALLKLAEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRI  162 (409)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHH
Confidence            344444443  3688888888888776643  3332 2333445566778888888888887665312222334445677


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKY  170 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~  170 (465)
                      +...|+++.|...++.+.+.+ |-+...+..+...+...|++++|.+.+..+.+.++.++ ..+..+-.           
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~-~~~~~l~~-----------  229 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDD-EEFADLEQ-----------  229 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCH-HHHHHHHH-----------
Confidence            778888888888888888765 55677788888888888888888888888887754322 22211100           


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCC
Q 012365          171 YEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNL  250 (465)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  250 (465)
                                   ..+..++..-......+...+.++......+.....+..+...+...|++++|.+++++..+..  |
T Consensus       230 -------------~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--p  294 (409)
T TIGR00540       230 -------------KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--G  294 (409)
T ss_pred             -------------HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--C
Confidence                         0011111111111122333333432111112233346777788888888888888888888765  4


Q ss_pred             CHHHHH-HHHHH--HHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhH--HHHHH
Q 012365          251 EPRAVI-ALIEH--LNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEM--AMEYH  325 (465)
Q Consensus       251 ~~~~~~-~ll~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~  325 (465)
                      |..... .++..  ....++.                                 +.+.+.++...+. .|+..  .....
T Consensus       295 d~~~~~~~~l~~~~~l~~~~~---------------------------------~~~~~~~e~~lk~-~p~~~~~~ll~s  340 (409)
T TIGR00540       295 DDRAISLPLCLPIPRLKPEDN---------------------------------EKLEKLIEKQAKN-VDDKPKCCINRA  340 (409)
T ss_pred             CcccchhHHHHHhhhcCCCCh---------------------------------HHHHHHHHHHHHh-CCCChhHHHHHH
Confidence            433110 01111  1222333                                 3344444433332 12222  22222


Q ss_pred             HHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHH
Q 012365          326 FSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYEN  389 (465)
Q Consensus       326 l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~  389 (465)
                      +..++..     .|++++|.+.|+... .....|+...+..+...+.+.|+.++|.++|++...
T Consensus       341 Lg~l~~~-----~~~~~~A~~~le~a~-a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       341 LGQLLMK-----HGEFIEAADAFKNVA-ACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHH-----cccHHHHHHHHHHhH-HhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2222222     377777777777533 335679888888999999999999999999998654

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.

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.52  E-value=2.1e-10  Score=98.79  Aligned_cols=208  Identities=13%  Similarity=0.091  Sum_probs=142.8

Q ss_pred             HHHHHhc--ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc
Q 012365           17 LITYSCD--LLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI   94 (465)
Q Consensus        17 li~~~~~--~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~   94 (465)
                      +..++.+  .|++..|+++..+-.+.+-.| ...|..-..+.-..|+.+.+-.++.+..+..-.++...+-+........
T Consensus        88 ~~egl~~l~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~  166 (400)
T COG3071          88 LNEGLLKLFEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNR  166 (400)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhC
Confidence            4444444  588999999888877766553 3344445566677889999999988888763356677777778888888


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHH
Q 012365           95 KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQL  174 (465)
Q Consensus        95 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~  174 (465)
                      |+.+.|..-++++...+ +.++........+|.+.|++.....++..|.+.|+--|...-.                   
T Consensus       167 ~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~-------------------  226 (400)
T COG3071         167 RDYPAARENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR-------------------  226 (400)
T ss_pred             CCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH-------------------
Confidence            99898888888888776 6677888888899999999999999999988887644432100                   


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC
Q 012365          175 KSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE  251 (465)
Q Consensus       175 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~  251 (465)
                            ....+|..+++-....+..+.-...+++.....+.....-.+++.-+.+.|+.++|.++..+..+++..|+
T Consensus       227 ------le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~  297 (400)
T COG3071         227 ------LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR  297 (400)
T ss_pred             ------HHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh
Confidence                  01234444555444444555545555543333344333456677777788888888888887777775544

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

Probab=99.52  E-value=4.1e-14  Score=124.78  Aligned_cols=263  Identities=16%  Similarity=0.191  Sum_probs=74.2

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPS-TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      |+...+ .+-..+.+.|++++|+++++.......+|+ ...|..+...+...++++.|.+.++++.+.+ +-++..+..+
T Consensus         7 ~~~~~l-~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l   84 (280)
T PF13429_consen    7 PSEEAL-RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERL   84 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccc
Confidence            443334 457777888999999999966554432344 4444444455666788999999999998876 3467777788


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHhhCCh--
Q 012365           88 ISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN-VKPDSQTFSYLIHNCSNE--  164 (465)
Q Consensus        88 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~--  164 (465)
                      +.. ...+++++|.++++..-+.  .++...+..++..+...++++++.++++++.... .+++...|..+-..+.+.  
T Consensus        85 ~~l-~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~  161 (280)
T PF13429_consen   85 IQL-LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGD  161 (280)
T ss_dssp             ------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCH
T ss_pred             ccc-ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCC
Confidence            877 7889999999888776544  3566777888888889999999999998877532 233444444443333333  


Q ss_pred             -hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHH
Q 012365          165 -EDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEI  243 (465)
Q Consensus       165 -~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  243 (465)
                       ..+.+.++...+... -|..+.+.++..+...|+.+++.++++......+.+...|..+..+|...|++++|+.+|++.
T Consensus       162 ~~~A~~~~~~al~~~P-~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~  240 (280)
T PF13429_consen  162 PDKALRDYRKALELDP-DDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKA  240 (280)
T ss_dssp             HHHHHHHHHHHHHH-T-T-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccc
Confidence             334445555544431 245566666666666777666666655422221111123566666666677777777777776


Q ss_pred             HHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHH
Q 012365          244 KEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEV  278 (465)
Q Consensus       244 ~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  278 (465)
                      ..... .|+.+...+..++...|+.++|..+.+++
T Consensus       241 ~~~~p-~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  241 LKLNP-DDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHST-T-HHHHHHHHHHHT---------------
T ss_pred             ccccc-ccccccccccccccccccccccccccccc
Confidence            66541 25556666666666666666666665544

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

Probab=99.52  E-value=4.8e-09  Score=95.93  Aligned_cols=413  Identities=13%  Similarity=0.066  Sum_probs=209.3

Q ss_pred             CCCCHHHHHHHHHHHhcccCHHHHHHHHHHH----HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-----
Q 012365            7 ITPSSASYKKLITYSCDLLKVHVALDVVEQM----VQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNL-----   77 (465)
Q Consensus         7 ~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m----~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----   77 (465)
                      ++.+...|-+-...=-.+|+.+...+++++-    ...|+..+..-|-.=...|-..|..-....+....+..|+     
T Consensus       436 iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~  515 (913)
T KOG0495|consen  436 IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDR  515 (913)
T ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchh
Confidence            4444455554444444555555555555543    2345555554444444444444444444444444444333     


Q ss_pred             -------------------------------CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365           78 -------------------------------KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGY  126 (465)
Q Consensus        78 -------------------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  126 (465)
                                                     +-+...|..+...--..|..+....+|++.... ++.....|-...+.+
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~  594 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEK  594 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHH
Confidence                                           233344444444333444445555555444432 123333444444444


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCCh---hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 012365          127 FRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNE---EDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKAR  203 (465)
Q Consensus       127 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  203 (465)
                      -..|+...|..++.+..+..- -+...+-..+..-...   +.+..++....  +..|+..+|.--++.....+..++|.
T Consensus       595 w~agdv~~ar~il~~af~~~p-nseeiwlaavKle~en~e~eraR~llakar--~~sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANP-NSEEIWLAAVKLEFENDELERARDLLAKAR--SISGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHh--ccCCcchhhHHHhHHHHHhhhHHHHH
Confidence            455555555555555444321 1222232222222222   22222322222  23445555555555555555555555


Q ss_pred             HHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          204 QVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRA-VIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      +++++.-...+.....|..+.+.+-+.++.+.|.+.|..-.+.-  |+... |..|...=-+.|.+-+|..+++...-.+
T Consensus       672 rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~c--P~~ipLWllLakleEk~~~~~rAR~ildrarlkN  749 (913)
T KOG0495|consen  672 RLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKC--PNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN  749 (913)
T ss_pred             HHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccC--CCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC
Confidence            55554222222323335555555555555555555554433321  33322 2223333344455556666665554444


Q ss_pred             CCc-cchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcH
Q 012365          283 YWM-DGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSR  361 (465)
Q Consensus       283 ~~~-~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~  361 (465)
                      +.. ..|...+..-.+.|+.+.|..+..+..+.++.+..-|..-|--         .++..+--...+.++   ...-|+
T Consensus       750 Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~l---------e~~~~rkTks~DALk---kce~dp  817 (913)
T KOG0495|consen  750 PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWL---------EPRPQRKTKSIDALK---KCEHDP  817 (913)
T ss_pred             CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHh---------ccCcccchHHHHHHH---hccCCc
Confidence            332 2333344444456666666666655555444444444333210         011111112222222   344566


Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHh
Q 012365          362 KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       362 ~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                      ...-.+...+....+++.|++-|.+.++.+ +.+..+|..+...+.+.|.-++-.+++.+.....|++.....+.++
T Consensus       818 hVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~~EP~hG~~W~avSK  893 (913)
T KOG0495|consen  818 HVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAEPTHGELWQAVSK  893 (913)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCcHHHHHhh
Confidence            666677778888999999999999999874 7778899999999999999888899999888877766554444433

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.48  E-value=2.1e-11  Score=111.29  Aligned_cols=286  Identities=12%  Similarity=0.037  Sum_probs=153.3

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHhhCChhHHHHHHHH
Q 012365           96 DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN--VKPDSQTFSYLIHNCSNEEDIIKYYEQ  173 (465)
Q Consensus        96 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~~~~~  173 (465)
                      +..+|...|..+.+. +.-+......+..+|...+++++|.++|+..++..  ..-+..+|++.+-.+-+.-..--+-+.
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            457888888886554 23334556677889999999999999999988642  223455666666544332222223333


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHH
Q 012365          174 LKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPR  253 (465)
Q Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  253 (465)
                      +.+.. +-.+.+|.++.++|.-.++.+.|++.|++.-.-.+....+|+.+..-+.....+|.|...|+.......+ +..
T Consensus       413 Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYn  490 (638)
T KOG1126|consen  413 LIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYN  490 (638)
T ss_pred             HHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhH
Confidence            33332 3345666666666666666677766666532222223334555555556666666666666665543211 122


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc-chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHh
Q 012365          254 AVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD-GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQ  332 (465)
Q Consensus       254 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (465)
                      .|..+...|.+.++++.|+-.|+...+-++.-. ..+.+...+.+.|+.++|++++++.....+.+..+-+-        
T Consensus       491 AwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~--------  562 (638)
T KOG1126|consen  491 AWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYH--------  562 (638)
T ss_pred             HHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHH--------
Confidence            333444556666666666666666555332211 12233333444555555555555544432233222222        


Q ss_pred             hhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh
Q 012365          333 IATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNR  412 (465)
Q Consensus       333 ~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  412 (465)
                                                        ....+...+++++|++.++++.+. +|.+...+..+...|.+.|+.
T Consensus       563 ----------------------------------~~~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~  607 (638)
T KOG1126|consen  563 ----------------------------------RASILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNT  607 (638)
T ss_pred             ----------------------------------HHHHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccc
Confidence                                              223334445555555555555554 344444555555555555555


Q ss_pred             hhHHHHHhccCCCCC
Q 012365          413 KSASKLLSKMPKDDP  427 (465)
Q Consensus       413 ~~A~~~~~~m~~~~~  427 (465)
                      +.|..-|-=+...+|
T Consensus       608 ~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  608 DLALLHFSWALDLDP  622 (638)
T ss_pred             hHHHHhhHHHhcCCC
Confidence            555555555554444

>PF13041 PPR_2: PPR repeat family

Probab=99.47  E-value=1.4e-13  Score=85.29  Aligned_cols=50  Identities=24%  Similarity=0.394  Sum_probs=44.3

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEE   58 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~   58 (465)
                      ||+.+||++|++|++.|++++|+++|++|.+.|++||..||+.+|++|++
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            88889999999999999999999999999998999999999999888864

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.47  E-value=4.9e-09  Score=92.06  Aligned_cols=305  Identities=14%  Similarity=0.117  Sum_probs=199.1

Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-C-CCCHHHHHHHHHhhCChhH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN-V-KPDSQTFSYLIHNCSNEED  166 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~-~p~~~~~~~ll~~~~~~~~  166 (465)
                      .++-.....+++..-.+...+.|++.+...-+....+.-...++++|+.+|+++.+.. . .-|..+|+.++-.-.+...
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            3444556677777777788888876665555555556667789999999999998763 1 1256777777655333222


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          167 IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                      +--+-...... -+--+.|+..+.+-|.-.++.++|...|++ +...++... .|+.+..-|....+...|++-++...+
T Consensus       315 Ls~LA~~v~~i-dKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~-aWTLmGHEyvEmKNt~AAi~sYRrAvd  392 (559)
T KOG1155|consen  315 LSYLAQNVSNI-DKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLS-AWTLMGHEYVEMKNTHAAIESYRRAVD  392 (559)
T ss_pred             HHHHHHHHHHh-ccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhH-HHHHhhHHHHHhcccHHHHHHHHHHHh
Confidence            22111111111 123345677777888888888999999987 344444443 588888888888888889988888888


Q ss_pred             cCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHH
Q 012365          246 AGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEY  324 (465)
Q Consensus       246 ~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  324 (465)
                      .+. -|...|-.|-++|.-.+...-|+-.|++.....+ ++..+..+..+|.+.++.++|++-|.+...           
T Consensus       393 i~p-~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~-----------  460 (559)
T KOG1155|consen  393 INP-RDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAIL-----------  460 (559)
T ss_pred             cCc-hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHh-----------
Confidence            763 3677788888888888888888888877766433 234455666666666666666666665544           


Q ss_pred             HHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CC-CC-ChhH
Q 012365          325 HFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA----GL-PY-NVLS  398 (465)
Q Consensus       325 ~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~-~p-~~~~  398 (465)
                                                    .+ ..+...+..|.+.|-+.++.++|.+.|++-++.    |. .| ...+
T Consensus       461 ------------------------------~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka  509 (559)
T KOG1155|consen  461 ------------------------------LG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKA  509 (559)
T ss_pred             ------------------------------cc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHH
Confidence                                          11 124456777777888888888888877777652    22 22 2334


Q ss_pred             HHHHHHHHHhcCChhhHHHHHhccCCCCCCh---hHHHHHHHh
Q 012365          399 YLWMYKAFLASGNRKSASKLLSKMPKDDPHV---RFVIQACKQ  438 (465)
Q Consensus       399 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~---~~~l~~~~~  438 (465)
                      ...|..-+.+.+++++|..+..+..+-++.-   ..++.-|+.
T Consensus       510 ~~fLA~~f~k~~~~~~As~Ya~~~~~~~~e~eeak~LlReir~  552 (559)
T KOG1155|consen  510 RLFLAEYFKKMKDFDEASYYATLVLKGETECEEAKALLREIRK  552 (559)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHhcCCchHHHHHHHHHHHHH
Confidence            4446666777888888888777776655432   455554443

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.47  E-value=2.9e-08  Score=87.57  Aligned_cols=393  Identities=12%  Similarity=0.066  Sum_probs=187.9

Q ss_pred             cccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 012365           23 DLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYS  102 (465)
Q Consensus        23 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  102 (465)
                      ..+++..|..+|++.+.-... +...|...+..=.+.+.+..|..+++.....= +.-...|--.+.+=-..|++..|.+
T Consensus        85 sq~e~~RARSv~ERALdvd~r-~itLWlkYae~Emknk~vNhARNv~dRAvt~l-PRVdqlWyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYR-NITLWLKYAEFEMKNKQVNHARNVWDRAVTIL-PRVDQLWYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccc-cchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc-chHHHHHHHHHHHHHHhcccHHHHH
Confidence            456666777777776654322 33444444444445555555555555554431 1111222223333333455555555


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh---hCChhHHHHH---------
Q 012365          103 LLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN---CSNEEDIIKY---------  170 (465)
Q Consensus       103 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~---~~~~~~~~~~---------  170 (465)
                      +|++..+-  .|+...|++.|+.-.+-..++.|..+|+...-  +.|+..+|.-....   ++..+.+..+         
T Consensus       163 iferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~  238 (677)
T KOG1915|consen  163 IFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLG  238 (677)
T ss_pred             HHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh
Confidence            55554432  45555555555555555555555555555442  23444443332221   2222223333         


Q ss_pred             ----------------------------HHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH--------H-hcCC
Q 012365          171 ----------------------------YEQLKSAGGQI-TKYVFMALINAYTTCGEFEKARQVVL--------D-AEIP  212 (465)
Q Consensus       171 ----------------------------~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~--------~-~~~~  212 (465)
                                                  ++...+.-.+- ....|..+...--+.|+.....+..-        . +...
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n  318 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN  318 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC
Confidence                                        33333321111 12333333333334444444333321        1 1222


Q ss_pred             CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC-HHHH------HHHHHHH---HccCcHHHHHHHHHHHcCCC
Q 012365          213 VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE-PRAV------IALIEHL---NSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       213 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~------~~ll~~~---~~~g~~~~a~~~~~~~~~~~  282 (465)
                      +.+-. +|--.+..--..|+.+...++|+.....- +|- ..-|      .-+=-+|   ....+++.+.++++...+  
T Consensus       319 p~nYD-sWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~--  394 (677)
T KOG1915|consen  319 PYNYD-SWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD--  394 (677)
T ss_pred             CCCch-HHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--
Confidence            22222 34445555555566666666666665432 221 1111      0010111   334556666666665554  


Q ss_pred             CCcc---chhhHhh----HhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhc
Q 012365          283 YWMD---GCCRLIL----HCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDEL  355 (465)
Q Consensus       283 ~~~~---~~~~~~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~  355 (465)
                      +.|.   +++.+-.    .-.++.++..|.+++......+ |....+...|.--+..      ++++.+..++++..   
T Consensus       395 lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~c-PK~KlFk~YIelElqL------~efDRcRkLYEkfl---  464 (677)
T KOG1915|consen  395 LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKC-PKDKLFKGYIELELQL------REFDRCRKLYEKFL---  464 (677)
T ss_pred             hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccC-CchhHHHHHHHHHHHH------hhHHHHHHHHHHHH---
Confidence            2222   2222222    2235566666666666655533 3333333333322222      66777777777766   


Q ss_pred             CCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcC-CCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHH
Q 012365          356 GLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAG-LPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVI  433 (465)
Q Consensus       356 ~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l  433 (465)
                      ...| +..+|......-...|+.+.|+.+|+-.++.. +......|...|+-=...|.++.|..++++++++...+..-+
T Consensus       465 e~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWi  544 (677)
T KOG1915|consen  465 EFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWI  544 (677)
T ss_pred             hcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHH
Confidence            4445 44566666666666777777777777776532 222333566666666677777777888877777776655444


Q ss_pred             HH
Q 012365          434 QA  435 (465)
Q Consensus       434 ~~  435 (465)
                      +.
T Consensus       545 sF  546 (677)
T KOG1915|consen  545 SF  546 (677)
T ss_pred             hH
Confidence            43

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

Probab=99.45  E-value=4.7e-09  Score=99.49  Aligned_cols=349  Identities=13%  Similarity=0.077  Sum_probs=214.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 012365           54 HACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQ  133 (465)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  133 (465)
                      ..+...|+.++|.+++.++++.. +.+...|..|...|-..|+.+++...+-.....+ +.|...|-.+-....+.|+++
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~  224 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNIN  224 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHH
Confidence            33445599999999999988876 6678889999999999999998888775554443 567788888888889999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHH---HHHHHHhhCChhHHHHHHHHHHHcCCCCCHH----HHHHHHHHHHhcCCHHHHHHHH
Q 012365          134 GALMVLKEMEQANVKPDSQT---FSYLIHNCSNEEDIIKYYEQLKSAGGQITKY----VFMALINAYTTCGEFEKARQVV  206 (465)
Q Consensus       134 ~a~~~~~~m~~~~~~p~~~~---~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~a~~~~  206 (465)
                      .|.-.|.+..+.. +++...   ...+..-.+....+..-+..+.....+.|..    ..-.+++.+...++-+.|.+.+
T Consensus       225 qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~l  303 (895)
T KOG2076|consen  225 QARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKAL  303 (895)
T ss_pred             HHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999888753 222221   1222222333444444444444443322222    2223345566666667777776


Q ss_pred             HHhcC--CCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHH------HHHHHccCcHHHHHHHHHHH
Q 012365          207 LDAEI--PVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIAL------IEHLNSEGELNRLIQLLEEV  278 (465)
Q Consensus       207 ~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l------l~~~~~~g~~~~a~~~~~~~  278 (465)
                      +..-.  ........++.++..|....+++.|......+......+|..-+.+-      ..+++..|            
T Consensus       304 e~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~------------  371 (895)
T KOG2076|consen  304 EGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVG------------  371 (895)
T ss_pred             HHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCC------------
Confidence            65211  22222224677777777777777777777776665444554433110      00000000            


Q ss_pred             cCCCCCccch-hhHhhHhhhcCChhHHHHHHHHHHHcccch--hHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhc
Q 012365          279 HDPDYWMDGC-CRLILHCVRFKQLSSATDLLKQLKDKFKDD--EMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDEL  355 (465)
Q Consensus       279 ~~~~~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~  355 (465)
                        .+..++.- ..+..+.......+....+.........+.  ..-.+.-+..++..     .|++.+|+.+|..+. ..
T Consensus       372 --~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~-----~~~~~~Al~~l~~i~-~~  443 (895)
T KOG2076|consen  372 --KELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTN-----IGKYKEALRLLSPIT-NR  443 (895)
T ss_pred             --CCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHh-----cccHHHHHHHHHHHh-cC
Confidence              00111111 122222233333333333333333322122  22222222233333     488999999999888 44


Q ss_pred             CCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCC
Q 012365          356 GLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDD  426 (465)
Q Consensus       356 ~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  426 (465)
                      ...-+...|--+..+|...|.++.|.+.++..+.. -|.+...-..|...|.+.|+.++|.+.++.+...|
T Consensus       444 ~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~-~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D  513 (895)
T KOG2076|consen  444 EGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL-APDNLDARITLASLYQQLGNHEKALETLEQIINPD  513 (895)
T ss_pred             ccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc-CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCC
Confidence            44445778889999999999999999999999987 36777788888888999999999999999987555

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

Probab=99.43  E-value=2.3e-11  Score=114.29  Aligned_cols=340  Identities=11%  Similarity=0.136  Sum_probs=203.3

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcC
Q 012365           32 DVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMN  111 (465)
Q Consensus        32 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  111 (465)
                      .++..+...|+.|+..||..+|..||..|+.+.|- +|..|.-...+.+...++.++.+..+.++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            35667788999999999999999999999999999 9999988888889999999999999999988776          


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-HHHCCCCCCHHHHHHHHHhhCChhHHH---HHHHHHH-HcCCCCCHHHH
Q 012365          112 LMPTASMYNAIMAGYFRKKDVQGALMVLKE-MEQANVKPDSQTFSYLIHNCSNEEDII---KYYEQLK-SAGGQITKYVF  186 (465)
Q Consensus       112 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~-m~~~~~~p~~~~~~~ll~~~~~~~~~~---~~~~~~~-~~~~~~~~~~~  186 (465)
                       .|...+|+.|..+|...||+.. ++..++ |..            +...+...|-..   .++..+. ..+.-||..  
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~------------i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~--  143 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL-FEVVEQDLES------------INQSFSDHGVGSPERWFLMKIHCCPHSLPDAE--  143 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH-HHHHHHHHHH------------HHhhhhhhccCcHHHHHHhhcccCcccchhHH--
Confidence             5889999999999999999876 333333 221            111111111111   1111111 112233332  


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCC-hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 012365          187 MALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGR-TSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSE  265 (465)
Q Consensus       187 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  265 (465)
                       ..+.-..-.|.++.+.+++..+.......  +...+++.+..... +++-........+   .|++.+|..++.+-.-+
T Consensus       144 -n~illlv~eglwaqllkll~~~Pvsa~~~--p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaa  217 (1088)
T KOG4318|consen  144 -NAILLLVLEGLWAQLLKLLAKVPVSAWNA--PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAA  217 (1088)
T ss_pred             -HHHHHHHHHHHHHHHHHHHhhCCcccccc--hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhc
Confidence             23444556677888888876432222221  12223444433332 2333333333333   49999999999999999


Q ss_pred             CcHHHHHHHHHHHcCCCCCccch--hhHhhHhhhcCChhHHHHHHHHHHH-cccchhHHHHHHHHHHHHhhhcCCCCchh
Q 012365          266 GELNRLIQLLEEVHDPDYWMDGC--CRLILHCVRFKQLSSATDLLKQLKD-KFKDDEMAMEYHFSEIFCQIATTDPPDVQ  342 (465)
Q Consensus       266 g~~~~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  342 (465)
                      |+.+.|..++.+|.+.|+.+...  ..++.+   .++..-++.+++.|.. +..|+..++...+...+.      +|...
T Consensus       218 g~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~------N~~t~  288 (1088)
T KOG4318|consen  218 GDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLS------NGQTK  288 (1088)
T ss_pred             CchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhc------chhhh
Confidence            99999999999999999876532  222222   5666667777777776 355666665544443332      12211


Q ss_pred             hhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhh-----hhhH--HHHH---HHHHHHcCCCCChhHHHHHHHHHHhcCCh
Q 012365          343 IGLDLLQFIKDELGLPPSRKCLDFLLGACVNAR-----DLKR--AHLI---WKEYENAGLPYNVLSYLWMYKAFLASGNR  412 (465)
Q Consensus       343 ~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g-----~~~~--A~~~---~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  412 (465)
                      .+         . ...|....+++-+.+-.-.|     +++.  +.-+   +++..=.|+.-...+|...+. ....|+-
T Consensus       289 ~~---------~-e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~  357 (1088)
T KOG4318|consen  289 YG---------E-EGSQLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKG  357 (1088)
T ss_pred             hc---------c-cccchhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCC
Confidence            11         1 22233333333332222223     1111  1111   111112255555544443333 3447888


Q ss_pred             hhHHHHHhccCC
Q 012365          413 KSASKLLSKMPK  424 (465)
Q Consensus       413 ~~A~~~~~~m~~  424 (465)
                      ++..++...+..
T Consensus       358 e~veqlvg~l~n  369 (1088)
T KOG4318|consen  358 EEVEQLVGQLLN  369 (1088)
T ss_pred             chHHHHHhhhcC
Confidence            888888888874

>PF13041 PPR_2: PPR repeat family

Probab=99.43  E-value=5.2e-13  Score=82.75  Aligned_cols=50  Identities=34%  Similarity=0.662  Sum_probs=32.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCC
Q 012365          114 PTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSN  163 (465)
Q Consensus       114 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  163 (465)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|++|++
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            56666666666666666666666666666666666666666666666543

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.43  E-value=2e-09  Score=92.89  Aligned_cols=282  Identities=14%  Similarity=0.087  Sum_probs=194.6

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHH
Q 012365           95 KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQL  174 (465)
Q Consensus        95 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~  174 (465)
                      |++..|+++..+-.+.+ +.....|..-..+.-+.|+.+.+-.++.+..+                              
T Consensus        98 G~~~qAEkl~~rnae~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae------------------------------  146 (400)
T COG3071          98 GDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAE------------------------------  146 (400)
T ss_pred             CcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhc------------------------------
Confidence            55566665555544443 22233344444445555555555555555443                              


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHH
Q 012365          175 KSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPR  253 (465)
Q Consensus       175 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  253 (465)
                        ..-.++..+.-+........|+.+.|..-+++ ..+.+.++. .......+|.+.|++..+..++..|.+.|.--|+.
T Consensus       147 --~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr~~~-vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e  223 (400)
T COG3071         147 --LAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPRHPE-VLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEE  223 (400)
T ss_pred             --cCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcCChH-HHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHH
Confidence              22234555566666777888888888888777 345555554 37888899999999999999999999988655543


Q ss_pred             -------HHHHHHHHHHccCcHHHHHHHHHHHcCCC-CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHH
Q 012365          254 -------AVIALIEHLNSEGELNRLIQLLEEVHDPD-YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYH  325 (465)
Q Consensus       254 -------~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  325 (465)
                             ++..+++-....+..+.-...|+.....- ..|.....++..+.++|+.++|.++.++..++.-.+.      
T Consensus       224 ~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~------  297 (400)
T COG3071         224 AARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR------  297 (400)
T ss_pred             HHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh------
Confidence                   45666666666666666666777765432 3355566777778899999999999888777433333      


Q ss_pred             HHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 012365          326 FSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKA  405 (465)
Q Consensus       326 l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  405 (465)
                      +..++   .+...++.+.-++..++-....+..|  ..+.+|...|.+.+.+.+|...|+...+  ..|+..+|+.+.++
T Consensus       298 L~~~~---~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~  370 (400)
T COG3071         298 LCRLI---PRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADA  370 (400)
T ss_pred             HHHHH---hhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHH
Confidence            22222   22234666666666655552344444  6778899999999999999999998777  58999999999999


Q ss_pred             HHhcCChhhHHHHHhccC
Q 012365          406 FLASGNRKSASKLLSKMP  423 (465)
Q Consensus       406 ~~~~g~~~~A~~~~~~m~  423 (465)
                      |.+.|+..+|.+..++.+
T Consensus       371 ~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         371 LDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHcCChHHHHHHHHHHH
Confidence            999999999999998865

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.40  E-value=1.2e-07  Score=83.74  Aligned_cols=379  Identities=11%  Similarity=0.077  Sum_probs=239.5

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      ...|--.+..=.++..+..|..++++....-+..|. .|-..+..=-..|++..|.++|+.-.+-  .|+...|++.|..
T Consensus       107 itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY~ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~f  183 (677)
T KOG1915|consen  107 ITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-LWYKYIYMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKF  183 (677)
T ss_pred             chHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-HHHHHHHHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHH
Confidence            344445555556666777777777776654222222 2222333333456777777777766554  5777777777777


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-C-----------------------
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA-N-----------------------  146 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~-----------------------  146 (465)
                      =.+...++.|..++++..-.  .|++.+|-.....--+.|+...|..+|+...+. |                       
T Consensus       184 ElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~E  261 (677)
T KOG1915|consen  184 ELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYE  261 (677)
T ss_pred             HHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777776643  477777766666666666666666666555431 1                       


Q ss_pred             ------------CCCC--HHHHHHHHH---hhCChhHHHH--------HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 012365          147 ------------VKPD--SQTFSYLIH---NCSNEEDIIK--------YYEQLKSAGGQITKYVFMALINAYTTCGEFEK  201 (465)
Q Consensus       147 ------------~~p~--~~~~~~ll~---~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  201 (465)
                                  ++.+  ...|.....   -++....++.        -++.+.+.+ +.|-.+|--.+..--..|+.+.
T Consensus       262 Rar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~  340 (677)
T KOG1915|consen  262 RARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDR  340 (677)
T ss_pred             HHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHH
Confidence                        1111  111111111   1221111111        111222221 3345566677777778899999


Q ss_pred             HHHHHHHhcCCCCChHH--HHHHHHH--------HHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH----HccCc
Q 012365          202 ARQVVLDAEIPVKSRSE--VKSALVS--------ALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHL----NSEGE  267 (465)
Q Consensus       202 a~~~~~~~~~~~~~~~~--~~~~l~~--------~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~----~~~g~  267 (465)
                      ..++|++.-...+|...  .|...|-        .=....+++.+.+++....+- ++....||..+=-.|    .++.+
T Consensus       341 Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~  419 (677)
T KOG1915|consen  341 IRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLN  419 (677)
T ss_pred             HHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcc
Confidence            99999985444444332  2322221        123467899999999998882 334456665443333    56788


Q ss_pred             HHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHh
Q 012365          268 LNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDL  347 (465)
Q Consensus       268 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~  347 (465)
                      +..|.+++......-+....+-..|..-.+.++++....++++..+-.+.+..+|.-. ..+-..     -|+.+.|..+
T Consensus       420 l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~ky-aElE~~-----LgdtdRaRai  493 (677)
T KOG1915|consen  420 LTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKY-AELETS-----LGDTDRARAI  493 (677)
T ss_pred             cHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHH-HHHHHH-----hhhHHHHHHH
Confidence            9999999999988777766676667766789999999999999999666666666543 222222     3999999999


Q ss_pred             HHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          348 LQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       348 ~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      |+-..++.....-...|...|+--...|.++.|+.+++.+.+.  .+.+.+|-++..
T Consensus       494 felAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kvWisFA~  548 (677)
T KOG1915|consen  494 FELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKVWISFAK  548 (677)
T ss_pred             HHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchHHHhHHH
Confidence            9998833334444567888888888899999999999999986  456667777765

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.40  E-value=3.3e-10  Score=103.69  Aligned_cols=303  Identities=14%  Similarity=0.128  Sum_probs=174.5

Q ss_pred             cccCCCCCHHHHHHHHHHHhc------ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 012365            3 AKLEITPSSASYKKLITYSCD------LLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHN   76 (465)
Q Consensus         3 ~~~~~~p~~~~y~~li~~~~~------~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   76 (465)
                      +.++++-+....-.+++.+..      .=+.++|+..|+...+. +.-+......+.++|...+++++++++|+.+.+..
T Consensus       305 ~~~~l~~~~~~l~~llr~~~~~~~~~s~y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~  383 (638)
T KOG1126|consen  305 QSFGLKDDASELMELLRGLGEGYRSLSQYNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIE  383 (638)
T ss_pred             ccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            344555553333333333332      23578899999986554 33344666678889999999999999999998753


Q ss_pred             --CCCCHHHHHHHHHHHhccCCHHHHHHHH-HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 012365           77 --LKPNSETFRSMISLNVKIKDFDSAYSLL-DDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQT  153 (465)
Q Consensus        77 --~~~~~~~~~~li~~~~~~g~~~~a~~~~-~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  153 (465)
                        ..-+..+|++.+--+-+.    -+...+ +.+.+.. +-.+.+|-++.++|.-+++++.|++.|++..+.  .|+   
T Consensus       384 p~rv~~meiyST~LWHLq~~----v~Ls~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~---  453 (638)
T KOG1126|consen  384 PYRVKGMEIYSTTLWHLQDE----VALSYLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPR---  453 (638)
T ss_pred             cccccchhHHHHHHHHHHhh----HHHHHHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCc---
Confidence              123677888887654332    222222 3333333 457789999999999999999999999998763  331   


Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCC
Q 012365          154 FSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGR  232 (465)
Q Consensus       154 ~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~  232 (465)
                                                  ...+|+.+-+-+.....+|.|...|+. +...++... .|.-+...|.+.++
T Consensus       454 ----------------------------faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYn-AwYGlG~vy~Kqek  504 (638)
T KOG1126|consen  454 ----------------------------FAYAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYN-AWYGLGTVYLKQEK  504 (638)
T ss_pred             ----------------------------cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhH-HHHhhhhheeccch
Confidence                                        233344444444445555555555554 233333322 24445555666666


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHH
Q 012365          233 TSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQL  311 (465)
Q Consensus       233 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~  311 (465)
                      ++.|.-.|....+-+.. +......+...+.+.|+.|+|+.++++....+.. +-.....+..+...+++++|+..++++
T Consensus       505 ~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~eal~~LEeL  583 (638)
T KOG1126|consen  505 LEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEALQELEEL  583 (638)
T ss_pred             hhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHHHHHHHHH
Confidence            66666666655554411 2333444455555566666666666655443322 222233333334556666666666666


Q ss_pred             HHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHH
Q 012365          312 KDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIK  352 (465)
Q Consensus       312 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~  352 (465)
                      ++ ..|+......++...+..+     |+.+.|+.-|--+.
T Consensus       584 k~-~vP~es~v~~llgki~k~~-----~~~~~Al~~f~~A~  618 (638)
T KOG1126|consen  584 KE-LVPQESSVFALLGKIYKRL-----GNTDLALLHFSWAL  618 (638)
T ss_pred             HH-hCcchHHHHHHHHHHHHHH-----ccchHHHHhhHHHh
Confidence            55 3345555555555545443     55566665555555

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

Probab=99.39  E-value=1.9e-09  Score=94.33  Aligned_cols=383  Identities=10%  Similarity=0.091  Sum_probs=230.4

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC------------CCCH
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNL------------KPNS   81 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~------------~~~~   81 (465)
                      .+.+--.+.+.|+++.|+..|+...+.  .|+..+--.|+-++..-|+.++..+.|..|.....            .|+.
T Consensus       279 l~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~  356 (840)
T KOG2003|consen  279 LNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDD  356 (840)
T ss_pred             HhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcch
Confidence            344444567778888888888877764  46665555555555567788888888888775322            2233


Q ss_pred             HHHHHHHH-----HHhccC--CHHHHHHHHHHHHHcCCCCCHHH---H----------H--------HHHHHHHhcCCHH
Q 012365           82 ETFRSMIS-----LNVKIK--DFDSAYSLLDDLKEMNLMPTASM---Y----------N--------AIMAGYFRKKDVQ  133 (465)
Q Consensus        82 ~~~~~li~-----~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~---~----------~--------~li~~~~~~g~~~  133 (465)
                      ...+..|.     -.-+..  +.+++.-.--+++.--+.|+-..   |          .        .-...+.++|+++
T Consensus       357 ~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~  436 (840)
T KOG2003|consen  357 NLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIE  436 (840)
T ss_pred             HHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHH
Confidence            33332222     111111  11112111112222112222110   0          0        1123467889999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHH--HHHhh---CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          134 GALMVLKEMEQANVKPDSQTFSY--LIHNC---SNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       134 ~a~~~~~~m~~~~~~p~~~~~~~--ll~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                      .|.++++-....+-+.....-+.  ++.-.   .+..++.++-+...... ..+......--+.....|++++|.+.+++
T Consensus       437 ~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  437 GAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            99999988875533222221111  11111   12223333333322211 11222222222334567899999999987


Q ss_pred             hcCCCCChHH-HHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC-CCcc
Q 012365          209 AEIPVKSRSE-VKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD-YWMD  286 (465)
Q Consensus       209 ~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~  286 (465)
                      .......-.. .|| +.-.+-..|+.++|++.|-.+..-- .-+......+...|....+...|.+++.+....- ..|.
T Consensus       516 al~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~  593 (840)
T KOG2003|consen  516 ALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPA  593 (840)
T ss_pred             HHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHH
Confidence            4333322222 243 3334567799999999998875432 2356677788888988899999999998876543 3455


Q ss_pred             chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHH
Q 012365          287 GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDF  366 (465)
Q Consensus       287 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~  366 (465)
                      ..+.+...|-+.|+-..|.+.+-.--. ..|........+..++-.     ..-+++|+..|++..   -+.|+..-|..
T Consensus       594 ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyid-----tqf~ekai~y~ekaa---liqp~~~kwql  664 (840)
T KOG2003|consen  594 ILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYID-----TQFSEKAINYFEKAA---LIQPNQSKWQL  664 (840)
T ss_pred             HHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHh-----hHHHHHHHHHHHHHH---hcCccHHHHHH
Confidence            677888889999999988887654433 223333333334443333     366889999999887   78999999998


Q ss_pred             HHHHhH-hhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCC
Q 012365          367 LLGACV-NARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGN  411 (465)
Q Consensus       367 ll~~~~-~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  411 (465)
                      ++..|. +.|++.+|..++++..+. +|.|...+..|++.+...|-
T Consensus       665 miasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  665 MIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            887655 579999999999999876 89999999999998776663

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.39  E-value=6e-09  Score=92.11  Aligned_cols=418  Identities=13%  Similarity=0.060  Sum_probs=250.8

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC-HHHHHHHHHHH
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMVQGELVPS-TETINSILHACEESYEFNLVRRIYPMICHHNLKPN-SETFRSMISLN   91 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~   91 (465)
                      +...-.-|.++|.+++|++.|.+..+.  .|| +..|.....+|...|+|+++.+--...++.+  |+ ...+..-.+++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHH
Confidence            334455677888999999999988874  566 6677777778888899988887777666653  44 44566666666


Q ss_pred             hccCCHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-HHH--CCCCCCHHHHHHHHHhhCC----
Q 012365           92 VKIKDFDSAYSLLDDLK-EMNLMPTASMYNAIMAGYFRKKDVQGALMVLKE-MEQ--ANVKPDSQTFSYLIHNCSN----  163 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~-~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~-m~~--~~~~p~~~~~~~ll~~~~~----  163 (465)
                      -..|++++|+.=..-.. -.|+ .|..+--.+=+.+-+     .|.+..++ |.+  ..+.|+.....+....+..    
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F-~n~s~~~~~eR~Lkk-----~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~  267 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGF-QNASIEPMAERVLKK-----QAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKP  267 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhc-ccchhHHHHHHHHHH-----HHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccc
Confidence            67777776643211111 1111 011110000011111     11111111 221  2245666555555544311    


Q ss_pred             -----h--hH-----------------HHHHHHHHHHc----CCCC-----C------HHHHHHHHHHHHhcCCHHHHHH
Q 012365          164 -----E--ED-----------------IIKYYEQLKSA----GGQI-----T------KYVFMALINAYTTCGEFEKARQ  204 (465)
Q Consensus       164 -----~--~~-----------------~~~~~~~~~~~----~~~~-----~------~~~~~~l~~~~~~~g~~~~a~~  204 (465)
                           .  .+                 .....+.+.+.    ...+     |      ..+...-...+.-.|+.-.|..
T Consensus       268 ~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~  347 (606)
T KOG0547|consen  268 LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQE  347 (606)
T ss_pred             cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhh
Confidence                 0  01                 01112222211    0111     1      1111111233455688888888


Q ss_pred             HHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC
Q 012365          205 VVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY  283 (465)
Q Consensus       205 ~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  283 (465)
                      -|+. +...+.+... |--+...|....+.++-+..|++..+-+. -++.+|..=-+...-.+++++|..=|++.+...+
T Consensus       348 d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p  425 (606)
T KOG0547|consen  348 DFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLDP-ENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP  425 (606)
T ss_pred             hHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh
Confidence            8887 4444544443 77788899999999999999999988763 2567777777777778899999999998876443


Q ss_pred             C-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc--
Q 012365          284 W-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS--  360 (465)
Q Consensus       284 ~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~--  360 (465)
                      . .-.+..+.-+.-+.+.+++++..|++..++.+.-... ++++...+..     +++++.|.+.|+...   .+.|+  
T Consensus       426 e~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Ev-y~~fAeiLtD-----qqqFd~A~k~YD~ai---~LE~~~~  496 (606)
T KOG0547|consen  426 ENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEV-YNLFAEILTD-----QQQFDKAVKQYDKAI---ELEPREH  496 (606)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchH-HHHHHHHHhh-----HHhHHHHHHHHHHHH---hhccccc
Confidence            2 1122222223337889999999999999865443333 3344444443     599999999999988   33343  


Q ss_pred             -------HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHH
Q 012365          361 -------RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVI  433 (465)
Q Consensus       361 -------~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l  433 (465)
                             +..-..++-.-. .+++..|..++++..+.. |-....|..|...-...|+.++|+++|++....--+-..++
T Consensus       497 ~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~lArt~~E~~  574 (606)
T KOG0547|consen  497 LIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQLARTESEMV  574 (606)
T ss_pred             cccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhHHHHH
Confidence                   222233332222 389999999999999863 44455899999999999999999999998765444445555


Q ss_pred             HHHHhh---ccccchhhhcCCCCC
Q 012365          434 QACKQT---YTIPSLQKERGFEKD  454 (465)
Q Consensus       434 ~~~~~~---~~~~~~~~~~~~~pd  454 (465)
                      .++..+   .+...-.++.|..|.
T Consensus       575 ~a~s~aeAAraq~~vtkK~~~~~~  598 (606)
T KOG0547|consen  575 HAYSLAEAARAQIAVTKKYGLTLA  598 (606)
T ss_pred             HHHHHHHHHhhhHHHHHHhcccHH
Confidence            554443   333344455555443

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.38  E-value=1.4e-08  Score=89.19  Aligned_cols=242  Identities=12%  Similarity=0.046  Sum_probs=174.1

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCC---ChHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          169 KYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVK---SRSEVKSALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                      +-.+.+...|++.+...-+....+.-...++++|+.+|+++....+   ++..+|+.++-.  ++.+  ..+.++-+-.-
T Consensus       248 ~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv--~~~~--skLs~LA~~v~  323 (559)
T KOG1155|consen  248 QKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV--KNDK--SKLSYLAQNVS  323 (559)
T ss_pred             HHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH--Hhhh--HHHHHHHHHHH
Confidence            3344555667666666555556666777889999999987433321   122245544432  2221  11222221111


Q ss_pred             cCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHH
Q 012365          246 AGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEY  324 (465)
Q Consensus       246 ~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  324 (465)
                      .--+--+.|...+.+-|+-.++.++|...|+...+.++. ...+..+..-|....+...|++-+++..+-.+.|...|+.
T Consensus       324 ~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYG  403 (559)
T KOG1155|consen  324 NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYG  403 (559)
T ss_pred             HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhh
Confidence            111233566667778888889999999999999887765 4466778888999999999999999999988888888887


Q ss_pred             HHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHH
Q 012365          325 HFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMY  403 (465)
Q Consensus       325 ~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  403 (465)
                      +-..+ ..+     +...-|+-.|++..   ..+| |+..|.+|..+|.+.++.++|...|......| ..+...+..|.
T Consensus       404 LGQaY-eim-----~Mh~YaLyYfqkA~---~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~La  473 (559)
T KOG1155|consen  404 LGQAY-EIM-----KMHFYALYYFQKAL---ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLA  473 (559)
T ss_pred             hhHHH-HHh-----cchHHHHHHHHHHH---hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHH
Confidence            65543 332     77788888888887   6677 77899999999999999999999999999876 44678899999


Q ss_pred             HHHHhcCChhhHHHHHhccCC
Q 012365          404 KAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       404 ~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      +.|.+.++.++|...+++..+
T Consensus       474 kLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  474 KLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHhHHHHHHHHHHHHH
Confidence            999999999999999988765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.36  E-value=1.1e-09  Score=94.13  Aligned_cols=202  Identities=10%  Similarity=0.070  Sum_probs=147.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++....+ +.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            35667777788888899999999988887764 4457778888888888899999999998887664 456677788888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQ  204 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  204 (465)
                      .+...|++++|.+.|++.......                               ......+..+...+...|++++|.+
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~-------------------------------~~~~~~~~~l~~~~~~~g~~~~A~~  156 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLY-------------------------------PQPARSLENAGLCALKAGDFDKAEK  156 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhcccc-------------------------------ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            888889999999888887653111                               1122334455667788888888888


Q ss_pred             HHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcC
Q 012365          205 VVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD  280 (465)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  280 (465)
                      .+++.....+.....+..+...+...|++++|...+++..+.. +.++..+..+...+...|+.++|..+.+.+..
T Consensus       157 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       157 YLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8887332222233347778888888899999998888887762 34566666777777788888888877766543

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.

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.35  E-value=2.5e-09  Score=89.59  Aligned_cols=257  Identities=15%  Similarity=0.142  Sum_probs=111.3

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          129 KKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       129 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                      +.+.++|.+.|-+|.+.    |..||                             .+--+|-+.|.+.|..|.|+++.+.
T Consensus        48 s~Q~dKAvdlF~e~l~~----d~~t~-----------------------------e~~ltLGnLfRsRGEvDRAIRiHQ~   94 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE----DPETF-----------------------------EAHLTLGNLFRSRGEVDRAIRIHQT   94 (389)
T ss_pred             hcCcchHHHHHHHHHhc----Cchhh-----------------------------HHHHHHHHHHHhcchHHHHHHHHHH
Confidence            46788888888888763    22221                             1222334444445555555555443


Q ss_pred             hcCCCCChHH----HHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC
Q 012365          209 AEIPVKSRSE----VKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW  284 (465)
Q Consensus       209 ~~~~~~~~~~----~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  284 (465)
                      +...+.-+..    ..-.|..-|...|-+|.|..+|..+.+.+. .-......|+..|-...+|++|+++-+++.+.+..
T Consensus        95 L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q  173 (389)
T COG2956          95 LLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQ  173 (389)
T ss_pred             HhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCc
Confidence            2222221111    122233344444555555555555544331 12333444455555555555555554444433322


Q ss_pred             cc------chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCC
Q 012365          285 MD------GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLP  358 (465)
Q Consensus       285 ~~------~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~  358 (465)
                      ..      .|+-+...+.-..+.+.|..++.+..+. .|..+..+.++..+...     .|+++.|.+.++.+. +....
T Consensus       174 ~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa-~~~cvRAsi~lG~v~~~-----~g~y~~AV~~~e~v~-eQn~~  246 (389)
T COG2956         174 TYRVEIAQFYCELAQQALASSDVDRARELLKKALQA-DKKCVRASIILGRVELA-----KGDYQKAVEALERVL-EQNPE  246 (389)
T ss_pred             cchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh-CccceehhhhhhHHHHh-----ccchHHHHHHHHHHH-HhChH
Confidence            11      1223333333344455555555544441 12222222222222222     355555555555555 33333


Q ss_pred             CcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          359 PSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       359 p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      --+.+...|..+|...|+.++....+..+.+.  .+....-..+...-....-.+.|..++.+-+.+.|+
T Consensus       247 yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~--~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt  314 (389)
T COG2956         247 YLSEVLEMLYECYAQLGKPAEGLNFLRRAMET--NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPT  314 (389)
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCc
Confidence            33344445555555555555555555555543  233333333333333333344444444444444443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.32  E-value=2.9e-09  Score=91.40  Aligned_cols=203  Identities=11%  Similarity=0.072  Sum_probs=159.2

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      .....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            346778888999999999999999999998764 3357788888889999999999999999998875 45677888899


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNL-MPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDI  167 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  167 (465)
                      ..+...|++++|...|++...... +.....+..+...+...|++++|...+.+..+..  |+                 
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~-----------------  167 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQ-----------------  167 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cC-----------------
Confidence            999999999999999999886421 2345567778888999999999999999987542  21                 


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          168 IKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                                    +...+..+...+...|++++|.+.+++.....+.....+..+...+...|+.++|..+++.+...
T Consensus       168 --------------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       168 --------------RPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             --------------ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence                          23345566777888899999999888732222233334567778888889999999888877653

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.

>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=99.32  E-value=3e-07  Score=86.18  Aligned_cols=289  Identities=14%  Similarity=0.101  Sum_probs=197.6

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc--
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI--   94 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--   94 (465)
                      ....+...|++++|++.++.-... +.............+.+.|+.++|..+|..+.+.+ +.|..-|..+..+..-.  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcc
Confidence            345567889999999999875543 33234455566777899999999999999999997 45566666666666333  


Q ss_pred             ---CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhH---H
Q 012365           95 ---KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDV-QGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED---I  167 (465)
Q Consensus        95 ---g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---~  167 (465)
                         .+.+....+++++...-  |.......+.-.+..-..+ ..+...+..+...|+++   +|+.+-..|.....   +
T Consensus        88 ~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             cccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHH
Confidence               35677888999887653  4444433333333322223 34556667777788654   34444444444322   3


Q ss_pred             HHHHHHHHH----cC----------CCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCC
Q 012365          168 IKYYEQLKS----AG----------GQITK--YVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHG  231 (465)
Q Consensus       168 ~~~~~~~~~----~~----------~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  231 (465)
                      .+++.....    .+          -.|+.  .++.-+...|...|++++|++.+++.-...+..+..|..-...|-..|
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G  242 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAG  242 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCC
Confidence            334433332    11          12333  344566788889999999999999743333333445888999999999


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccc--------h--hhHhhHhhhcCCh
Q 012365          232 RTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDG--------C--CRLILHCVRFKQL  301 (465)
Q Consensus       232 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~--------~--~~~~~~~~~~~~~  301 (465)
                      ++.+|.+.++....... -|...=+.....+.++|++++|.+++....+.+..+..        |  .....+|.+.|++
T Consensus       243 ~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~  321 (517)
T PF12569_consen  243 DLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDY  321 (517)
T ss_pred             CHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhH
Confidence            99999999999998774 36666677788889999999999999999887743321        1  2345567899999


Q ss_pred             hHHHHHHHHHHH
Q 012365          302 SSATDLLKQLKD  313 (465)
Q Consensus       302 ~~a~~~~~~~~~  313 (465)
                      ..|++-|..+.+
T Consensus       322 ~~ALk~~~~v~k  333 (517)
T PF12569_consen  322 GLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHH
Confidence            999988776655

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PRK12370 invasion protein regulator; Provisional

Probab=99.29  E-value=9.7e-09  Score=99.26  Aligned_cols=133  Identities=11%  Similarity=0.033  Sum_probs=78.4

Q ss_pred             CHHHHHHHHHHHhc-----ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH---------hcCCHHHHHHHHHHHhhC
Q 012365           10 SSASYKKLITYSCD-----LLKVHVALDVVEQMVQGELVPSTETINSILHACE---------ESYEFNLVRRIYPMICHH   75 (465)
Q Consensus        10 ~~~~y~~li~~~~~-----~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~   75 (465)
                      +...|...+.+...     .+++++|+++|++..+.... +...|..+..++.         ..+++++|...+++..+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            34445555554321     23456777777776664322 3344444433332         123466777777776665


Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365           76 NLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        76 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      . +-+...+..+...+...|++++|...|++..+.+ |.+...|..+...+...|++++|...+++..+.
T Consensus       334 d-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l  401 (553)
T PRK12370        334 D-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKL  401 (553)
T ss_pred             C-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            4 4456666666666667777777777777766654 444556666666777777777777777776654

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.27  E-value=4.5e-08  Score=88.30  Aligned_cols=211  Identities=13%  Similarity=0.008  Sum_probs=128.9

Q ss_pred             HHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhh
Q 012365          219 VKSALVSALASHGRTSDAIIVYEEIKEAGCNLE-PRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCV  296 (465)
Q Consensus       219 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~  296 (465)
                      +|-++..-|...|+.++|.++|.+....+  |. ...|..+-++|.-.|..|.|...+....+.-. .--.+..+..-|.
T Consensus       314 sW~aVg~YYl~i~k~seARry~SKat~lD--~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~  391 (611)
T KOG1173|consen  314 SWFAVGCYYLMIGKYSEARRYFSKATTLD--PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYM  391 (611)
T ss_pred             chhhHHHHHHHhcCcHHHHHHHHHHhhcC--ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHH
Confidence            35555555555555555555555544432  21 23344455555555555555555544332110 0112233444555


Q ss_pred             hcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhh-cCC---CC-cHHHHHHHHHHh
Q 012365          297 RFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDE-LGL---PP-SRKCLDFLLGAC  371 (465)
Q Consensus       297 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~-~~~---~p-~~~~~~~ll~~~  371 (465)
                      +.++...|.++|.......+.+....+.+-.-++..      +.+.+|..+|+..... ..+   .+ -..+++.|.++|
T Consensus       392 ~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~------~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~  465 (611)
T KOG1173|consen  392 RTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTY------EEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAY  465 (611)
T ss_pred             HhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehH------hhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHH
Confidence            666666666666666554444444433332222222      5666666666655410 011   11 234678899999


Q ss_pred             HhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh---hHHHHHHHh
Q 012365          372 VNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV---RFVIQACKQ  438 (465)
Q Consensus       372 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~---~~~l~~~~~  438 (465)
                      .+.+.+++|...+++.... .|.|..++.++.-.|...|+++.|...|.+.+...|..   ..+|+.+..
T Consensus       466 Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  466 RKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            9999999999999999987 58899999999999999999999999999998877743   556665544

>PRK12370 invasion protein regulator; Provisional

Probab=99.24  E-value=2.3e-08  Score=96.66  Aligned_cols=94  Identities=15%  Similarity=0.046  Sum_probs=45.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHH
Q 012365          184 YVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEP-RAVIALIEHL  262 (465)
Q Consensus       184 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~  262 (465)
                      ..+..+...+...|++++|...|++.-...++....+..+...+...|++++|...+++..+.+  |+. ..+..+...+
T Consensus       339 ~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~  416 (553)
T PRK12370        339 QALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWIT  416 (553)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHH
Confidence            3344444445555556666655555222222222235555555666666666666666665544  221 1222233334


Q ss_pred             HccCcHHHHHHHHHHHc
Q 012365          263 NSEGELNRLIQLLEEVH  279 (465)
Q Consensus       263 ~~~g~~~~a~~~~~~~~  279 (465)
                      ...|++++|...+++..
T Consensus       417 ~~~g~~eeA~~~~~~~l  433 (553)
T PRK12370        417 YYHTGIDDAIRLGDELR  433 (553)
T ss_pred             HhccCHHHHHHHHHHHH
Confidence            44556666666665554

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.24  E-value=3.9e-07  Score=82.83  Aligned_cols=395  Identities=14%  Similarity=0.147  Sum_probs=223.8

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHH--HHHHH--h
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRS--MISLN--V   92 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--li~~~--~   92 (465)
                      =++.+.+.|++++|.+....+...+ +-|...+..=+-++...+++++|+.+.+.   .+   -..+++.  +=.+|  .
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~---~~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NG---ALLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cc---hhhhcchhhHHHHHHHH
Confidence            4567788999999999999999876 44666777777788899999999966543   22   1112222  23334  4


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHhhCChhHHHHHH
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKP-DSQTFSYLIHNCSNEEDIIKYY  171 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~  171 (465)
                      +.+..++|...++-..    +-+..+...-...+.+.|++++|+.+|+.+.+.+..- +...-..++.+-    ..... 
T Consensus        91 rlnk~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~----a~l~~-  161 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVA----AALQV-  161 (652)
T ss_pred             HcccHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH----HhhhH-
Confidence            6789999999988222    2233466666677889999999999999998765422 111111222211    11111 


Q ss_pred             HHHHHcCCCCCHHHHHHHH---HHHHhcCCHHHHHHHHHHh--------cCCCCChHH-------HHHHHHHHHHcCCCh
Q 012365          172 EQLKSAGGQITKYVFMALI---NAYTTCGEFEKARQVVLDA--------EIPVKSRSE-------VKSALVSALASHGRT  233 (465)
Q Consensus       172 ~~~~~~~~~~~~~~~~~l~---~~~~~~g~~~~a~~~~~~~--------~~~~~~~~~-------~~~~l~~~~~~~g~~  233 (465)
                      +.+......| ..+|..+.   -.+...|++.+|+++++..        .........       +-..+.-.+...|+.
T Consensus       162 ~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  162 QLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             HHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence            1233333333 33444443   3456789999999999753        222222111       123455667789999


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHH---HHHHccC--------------------------------------------
Q 012365          234 SDAIIVYEEIKEAGCNLEPRAVIALI---EHLNSEG--------------------------------------------  266 (465)
Q Consensus       234 ~~a~~~~~~m~~~~~~p~~~~~~~ll---~~~~~~g--------------------------------------------  266 (465)
                      ++|..++......+. +|........   .++..-.                                            
T Consensus       241 ~ea~~iy~~~i~~~~-~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~  319 (652)
T KOG2376|consen  241 AEASSIYVDIIKRNP-ADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF  319 (652)
T ss_pred             HHHHHHHHHHHHhcC-CCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999888764 3432211111   1111110                                            


Q ss_pred             --cHHHHHHHHHHHcCCCCCccchh-hHhh-Hh-hhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCch
Q 012365          267 --ELNRLIQLLEEVHDPDYWMDGCC-RLIL-HC-VRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDV  341 (465)
Q Consensus       267 --~~~~a~~~~~~~~~~~~~~~~~~-~~~~-~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  341 (465)
                        ..+.+.++...+.  +..|.... .++. ++ .+...+..+..++....+..+......-.+...+ .    ...|++
T Consensus       320 tnk~~q~r~~~a~lp--~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl-~----is~gn~  392 (652)
T KOG2376|consen  320 TNKMDQVRELSASLP--GMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQL-K----ISQGNP  392 (652)
T ss_pred             hhhHHHHHHHHHhCC--ccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHH-H----HhcCCH
Confidence              0111111111110  11122221 2222 22 1222466777777776664333312211111111 1    125999


Q ss_pred             hhhHHhHH--------HHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc--CCCCChh----HHHHHHHHHH
Q 012365          342 QIGLDLLQ--------FIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA--GLPYNVL----SYLWMYKAFL  407 (465)
Q Consensus       342 ~~A~~~~~--------~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~----~~~~l~~~~~  407 (465)
                      +.|++++.        .+. ..+..|-.  ...+...+.+.++-+.|-.++.+....  .-.+...    ++..+...-.
T Consensus       393 ~~A~~il~~~~~~~~ss~~-~~~~~P~~--V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~l  469 (652)
T KOG2376|consen  393 EVALEILSLFLESWKSSIL-EAKHLPGT--VGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKL  469 (652)
T ss_pred             HHHHHHHHHHhhhhhhhhh-hhccChhH--HHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHH
Confidence            99999999        565 45555554  445666677888888888888777642  1122223    3334444456


Q ss_pred             hcCChhhHHHHHhccCCCCCChhHHHHHHHhh
Q 012365          408 ASGNRKSASKLLSKMPKDDPHVRFVIQACKQT  439 (465)
Q Consensus       408 ~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~~  439 (465)
                      +.|+-++|..+++++.+-++.-..++.-...+
T Consensus       470 r~G~~~ea~s~leel~k~n~~d~~~l~~lV~a  501 (652)
T KOG2376|consen  470 RHGNEEEASSLLEELVKFNPNDTDLLVQLVTA  501 (652)
T ss_pred             hcCchHHHHHHHHHHHHhCCchHHHHHHHHHH
Confidence            78999999999999999777544444333333

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.22  E-value=1.9e-08  Score=92.95  Aligned_cols=251  Identities=17%  Similarity=0.147  Sum_probs=160.8

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCH-HHHHHHH
Q 012365          112 LMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITK-YVFMALI  190 (465)
Q Consensus       112 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~  190 (465)
                      .|.-..+...+...|...|++++|+.+++...+.           +-...+   .            ..|.. ...+.+.
T Consensus       195 ~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~-----------l~k~~G---~------------~hl~va~~l~~~a  248 (508)
T KOG1840|consen  195 DPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRI-----------LEKTSG---L------------KHLVVASMLNILA  248 (508)
T ss_pred             CchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH-----------HHHccC---c------------cCHHHHHHHHHHH
Confidence            3334556777899999999999999999987653           000111   0            01111 1222466


Q ss_pred             HHHHhcCCHHHHHHHHHHh--------cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc-----CCC-CCH-HHH
Q 012365          191 NAYTTCGEFEKARQVVLDA--------EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA-----GCN-LEP-RAV  255 (465)
Q Consensus       191 ~~~~~~g~~~~a~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~-----~~~-p~~-~~~  255 (465)
                      ..|...+++++|..+|+++        +...+....+++.|..+|.+.|++++|..++++..+-     |.. |.. ..+
T Consensus       249 ~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l  328 (508)
T KOG1840|consen  249 LVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQL  328 (508)
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHH
Confidence            7788889999998888762        2333334446888899999999999998888765432     211 222 235


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHcCC-----C----CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHH
Q 012365          256 IALIEHLNSEGELNRLIQLLEEVHDP-----D----YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHF  326 (465)
Q Consensus       256 ~~ll~~~~~~g~~~~a~~~~~~~~~~-----~----~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (465)
                      +.+...|+..+++++|..+++...+.     +    .....+..+...|...|++++|.++|+++...            
T Consensus       329 ~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~------------  396 (508)
T KOG1840|consen  329 SELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQI------------  396 (508)
T ss_pred             HHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH------------
Confidence            56667778888888888777754321     1    01123445555555666666666666555441            


Q ss_pred             HHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHH----cC--CCCChhHH
Q 012365          327 SEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYEN----AG--LPYNVLSY  399 (465)
Q Consensus       327 ~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~----~g--~~p~~~~~  399 (465)
                                           .++.  ..+..+ ....++.+...|.+.+++.+|.++|.+...    .|  .+....+|
T Consensus       397 ---------------------~~~~--~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~  453 (508)
T KOG1840|consen  397 ---------------------LREL--LGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTY  453 (508)
T ss_pred             ---------------------HHhc--ccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHH
Confidence                                 0000  012223 245677888889888999989888887653    22  23334589


Q ss_pred             HHHHHHHHhcCChhhHHHHHhccC
Q 012365          400 LWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       400 ~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      ..|+..|.+.|++++|.++.+.+.
T Consensus       454 ~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  454 LNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHH
Confidence            999999999999999999998766

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.22  E-value=1.2e-06  Score=80.59  Aligned_cols=157  Identities=11%  Similarity=0.075  Sum_probs=103.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHH-NLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGY  126 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  126 (465)
                      .|-.-+..+..+|++......|+..+.. .+..-..+|...+...-..+-++.+..++++..+.    ++..-+--|..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHH
Confidence            4555556667778888888888877653 22233457778888778888888999999888853    444577788888


Q ss_pred             HhcCCHHHHHHHHHHHHHCC------CCCCHHHHHHHHHhhCChh------HHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012365          127 FRKKDVQGALMVLKEMEQAN------VKPDSQTFSYLIHNCSNEE------DIIKYYEQLKSAGGQITKYVFMALINAYT  194 (465)
Q Consensus       127 ~~~g~~~~a~~~~~~m~~~~------~~p~~~~~~~ll~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  194 (465)
                      ++.+++++|-+.+.......      .+.+...|..+..-.++..      +++.+++.+...-..--...|.+|.+.|.
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYI  259 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYI  259 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHH
Confidence            89999999988888875332      2333344444444333322      23344444433222222467888889999


Q ss_pred             hcCCHHHHHHHHHH
Q 012365          195 TCGEFEKARQVVLD  208 (465)
Q Consensus       195 ~~g~~~~a~~~~~~  208 (465)
                      +.|.+++|.++|++
T Consensus       260 r~g~~ekarDvyee  273 (835)
T KOG2047|consen  260 RSGLFEKARDVYEE  273 (835)
T ss_pred             HhhhhHHHHHHHHH
Confidence            99999998888765

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.21  E-value=2.8e-08  Score=84.43  Aligned_cols=205  Identities=12%  Similarity=0.104  Sum_probs=133.2

Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH-----HccCcHHHHHHHHHHHcCCCCC---ccchhhHhh
Q 012365          222 ALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHL-----NSEGELNRLIQLLEEVHDPDYW---MDGCCRLIL  293 (465)
Q Consensus       222 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-----~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~~  293 (465)
                      .++--|.+.+++.+|..+.+++...  .|-......++.+-     .......-|.+.|+..-+.+..   +.+...+..
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs  367 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMAS  367 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHH
Confidence            4555678889999999887776432  23333333333222     2233456677777777666644   334566777


Q ss_pred             HhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHH-HHHHHHhH
Q 012365          294 HCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCL-DFLLGACV  372 (465)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~-~~ll~~~~  372 (465)
                      ++.-..++++.+..++.+..-...+... +.-+..+...     .|++.+|.++|-.+. ...++ |..+| ..|.++|.
T Consensus       368 ~fFL~~qFddVl~YlnSi~sYF~NdD~F-n~N~AQAk~a-----tgny~eaEelf~~is-~~~ik-n~~~Y~s~LArCyi  439 (557)
T KOG3785|consen  368 YFFLSFQFDDVLTYLNSIESYFTNDDDF-NLNLAQAKLA-----TGNYVEAEELFIRIS-GPEIK-NKILYKSMLARCYI  439 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCcchh-hhHHHHHHHH-----hcChHHHHHHHhhhc-Chhhh-hhHHHHHHHHHHHH
Confidence            7777888999999888887743333333 3333333333     399999999999887 33333 45566 45667889


Q ss_pred             hhhhhhHHHHHHHHHHHcCCCCChhHHHHHH-HHHHhcCChhhHHHHHhccCCCCCC---hhHHHHHHHhh
Q 012365          373 NARDLKRAHLIWKEYENAGLPYNVLSYLWMY-KAFLASGNRKSASKLLSKMPKDDPH---VRFVIQACKQT  439 (465)
Q Consensus       373 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~-~~~~~~g~~~~A~~~~~~m~~~~~~---~~~~l~~~~~~  439 (465)
                      +.+.+..|+.+   |.+.+-+.+..+.-.+| +-|.+++.+=-|.+.|+.+...+|+   |..--++|...
T Consensus       440 ~nkkP~lAW~~---~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pEnWeGKRGACaG~  507 (557)
T KOG3785|consen  440 RNKKPQLAWDM---MLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPENWEGKRGACAGL  507 (557)
T ss_pred             hcCCchHHHHH---HHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCccccCCccchHHHH
Confidence            99999988654   55554455555555554 5788899988888888888877774   55566666664

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.21  E-value=2.8e-09  Score=89.41  Aligned_cols=236  Identities=10%  Similarity=-0.016  Sum_probs=188.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHH-HHH
Q 012365          181 ITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVI-ALI  259 (465)
Q Consensus       181 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-~ll  259 (465)
                      .|..--+.+..+|.+.|-+.+|++.|+.. ....+.+.||-.|-+.|.+..+++.|+.++.+-.+.-  |-..||. -+.
T Consensus       221 ~dwwWk~Q~gkCylrLgm~r~Aekqlqss-L~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f--P~~VT~l~g~A  297 (478)
T KOG1129|consen  221 LDWWWKQQMGKCYLRLGMPRRAEKQLQSS-LTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF--PFDVTYLLGQA  297 (478)
T ss_pred             HhHHHHHHHHHHHHHhcChhhhHHHHHHH-hhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC--CchhhhhhhhH
Confidence            34455567889999999999999999872 2333334468999999999999999999999988864  6666654 456


Q ss_pred             HHHHccCcHHHHHHHHHHHcCC-CCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCC
Q 012365          260 EHLNSEGELNRLIQLLEEVHDP-DYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDP  338 (465)
Q Consensus       260 ~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  338 (465)
                      ..+-..++.++|.++++...+. +..+++...+...|.-.++.+-|+.+++++.+.+..+...+..+-.+.+..      
T Consensus       298 Ri~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~ya------  371 (478)
T KOG1129|consen  298 RIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYA------  371 (478)
T ss_pred             HHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhh------
Confidence            7778889999999999998764 466777777777777899999999999999996665555555544443333      


Q ss_pred             CchhhhHHhHHHHHhhcCCCCcH--HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHH
Q 012365          339 PDVQIGLDLLQFIKDELGLPPSR--KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  416 (465)
                      ++++-++..|++.. ..--.|+.  ..|-.+-......||+..|.+.|+-....+ +.+...++.|.-.-.+.|+.++|.
T Consensus       372 qQ~D~~L~sf~RAl-stat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Ar  449 (478)
T KOG1129|consen  372 QQIDLVLPSFQRAL-STATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGAR  449 (478)
T ss_pred             cchhhhHHHHHHHH-hhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHH
Confidence            88999999999888 54444543  467778777888999999999999999874 777889999999999999999999


Q ss_pred             HHHhccCCCCC
Q 012365          417 KLLSKMPKDDP  427 (465)
Q Consensus       417 ~~~~~m~~~~~  427 (465)
                      .+++......|
T Consensus       450 sll~~A~s~~P  460 (478)
T KOG1129|consen  450 SLLNAAKSVMP  460 (478)
T ss_pred             HHHHHhhhhCc
Confidence            99998877665

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.20  E-value=7.8e-07  Score=81.75  Aligned_cols=127  Identities=10%  Similarity=0.082  Sum_probs=65.0

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC------CCCCHHHHHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHN------LKPNSETFRS   86 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~   86 (465)
                      .|...+......|-++-++.+|++-++-    ++..-+.-+..++..+++++|.+.+.......      .+.+...|..
T Consensus       140 IW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~e  215 (835)
T KOG2047|consen  140 IWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLE  215 (835)
T ss_pred             chHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHH
Confidence            3444444444555555666666655542    22234455566666666777666666654311      1333444444


Q ss_pred             HHHHHhccCCH---HHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365           87 MISLNVKIKDF---DSAYSLLDDLKEMNLMPT--ASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        87 li~~~~~~g~~---~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      +-+..++.-+.   -.+..+++.+...  -+|  ...|+.|.+-|.+.|++++|..+|++..+.
T Consensus       216 lcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~  277 (835)
T KOG2047|consen  216 LCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT  277 (835)
T ss_pred             HHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            44444433221   1223333333321  233  234677777777777777777777765543

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=1.4e-07  Score=83.72  Aligned_cols=338  Identities=12%  Similarity=0.017  Sum_probs=204.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHh
Q 012365           51 SILHACEESYEFNLVRRIYPMICHHNLKPN-SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT-ASMYNAIMAGYFR  128 (465)
Q Consensus        51 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~  128 (465)
                      ...+-|.+.|++++|++.|.+.+..  .|+ +..|...-.+|...|+|+++.+--.+..+.  .|+ +-.+.--.+++-.
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            3445577889999999999998887  477 888999999999999999988877666654  354 2334444455666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhH---HH---------HHHHHHHHcC--CCCCHHHHHHHHHHHH
Q 012365          129 KKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED---II---------KYYEQLKSAG--GQITKYVFMALINAYT  194 (465)
Q Consensus       129 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---~~---------~~~~~~~~~~--~~~~~~~~~~l~~~~~  194 (465)
                      .|++++|+.=             .|..+++..+.+...   ++         +.-+.+.+.+  +-|+.....+....+.
T Consensus       196 lg~~~eal~D-------------~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~  262 (606)
T KOG0547|consen  196 LGKFDEALFD-------------VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFH  262 (606)
T ss_pred             hccHHHHHHh-------------hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcc
Confidence            6777666432             233333333322111   11         1222232222  2344443333332221


Q ss_pred             hcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHH----c-CCChhHHHHHHHHHHHc-CCCCCHH-----HHHHHHHH--
Q 012365          195 TCGEFEKARQVVLDAEIPVKSRSEVKSALVSALA----S-HGRTSDAIIVYEEIKEA-GCNLEPR-----AVIALIEH--  261 (465)
Q Consensus       195 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~----~-~g~~~~a~~~~~~m~~~-~~~p~~~-----~~~~ll~~--  261 (465)
                      ..-  .   ..+.  ...+..    ...+..++.    . ...+..|...+.+-... ...++..     . ..+..+  
T Consensus       263 ~~~--~---~~~~--~~~~ks----Da~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~l-e~~A~al~  330 (606)
T KOG0547|consen  263 ADP--K---PLFD--NKSDKS----DAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAEL-EYMAEALL  330 (606)
T ss_pred             ccc--c---cccc--CCCccc----hhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhH-HHHHHHHH
Confidence            100  0   0000  000001    111111111    1 11344444444332211 0111111     1 111222  


Q ss_pred             -----HHccCcHHHHHHHHHHHcCCCCCccc-hhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhc
Q 012365          262 -----LNSEGELNRLIQLLEEVHDPDYWMDG-CCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIAT  335 (465)
Q Consensus       262 -----~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (465)
                           +.-.|+.-.+..-|+..+.....+.. |-.+...|....+.++....|+...+-.+.+..+|+.--.-.|-.   
T Consensus       331 ~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL---  407 (606)
T KOG0547|consen  331 LRGTFHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLL---  407 (606)
T ss_pred             HhhhhhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHH---
Confidence                 23457778888888888877665544 777777888899999999999998885555544444322222332   


Q ss_pred             CCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhh
Q 012365          336 TDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKS  414 (465)
Q Consensus       336 ~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  414 (465)
                         +++++|..=|++..   .+.| +...|-.+-.+..+.+++++++..|++..++ +|.-+..|+.....+...++++.
T Consensus       408 ---~q~e~A~aDF~Kai---~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~  480 (606)
T KOG0547|consen  408 ---QQYEEAIADFQKAI---SLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDK  480 (606)
T ss_pred             ---HHHHHHHHHHHHHh---hcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHH
Confidence               78899999999888   6677 4456677777777889999999999999987 78888899999999999999999


Q ss_pred             HHHHHhccCCCCC
Q 012365          415 ASKLLSKMPKDDP  427 (465)
Q Consensus       415 A~~~~~~m~~~~~  427 (465)
                      |.+.|+...+..+
T Consensus       481 A~k~YD~ai~LE~  493 (606)
T KOG0547|consen  481 AVKQYDKAIELEP  493 (606)
T ss_pred             HHHHHHHHHhhcc
Confidence            9999998876444

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.20  E-value=1.4e-07  Score=85.28  Aligned_cols=429  Identities=11%  Similarity=0.016  Sum_probs=278.6

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +..-|..+++-+....++..|+-+-++....+.  |+...--+.+++.-.|.+.+|..+...-.-.  ..|..+......
T Consensus        15 s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~--dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~   90 (611)
T KOG1173|consen   15 SLEKYRRLVRDALMQHRYKTALFWADKVAGLTN--DPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAK   90 (611)
T ss_pred             cHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccC--ChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHH
Confidence            345566667766777788888888888776554  4444445778888888888888777654332  357788888888


Q ss_pred             HHhccCCHHHHHHHHHH----HHHc---------CCCCCHHH----HHHHH-------HHHHhcCCHHHHHHHHHHHHHC
Q 012365           90 LNVKIKDFDSAYSLLDD----LKEM---------NLMPTASM----YNAIM-------AGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~----m~~~---------~~~~~~~~----~~~li-------~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ++.+..+++.|..++..    +...         -+.+|..-    -+.-.       ..|....+.++|...|.+... 
T Consensus        91 ~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~-  169 (611)
T KOG1173|consen   91 CLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALL-  169 (611)
T ss_pred             HHHHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHh-
Confidence            88999999999988872    2100         01111111    11111       223444556666666666443 


Q ss_pred             CCCCCHHHHHHHHH---hh-------------------CC--hhHHHHHHHHHHH----------------cCCCCCHHH
Q 012365          146 NVKPDSQTFSYLIH---NC-------------------SN--EEDIIKYYEQLKS----------------AGGQITKYV  185 (465)
Q Consensus       146 ~~~p~~~~~~~ll~---~~-------------------~~--~~~~~~~~~~~~~----------------~~~~~~~~~  185 (465)
                         .|...|..+..   +.                   .+  ....+.+++....                .+..-+...
T Consensus       170 ---~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dl  246 (611)
T KOG1173|consen  170 ---ADAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDL  246 (611)
T ss_pred             ---cchhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHH
Confidence               23322222211   10                   00  0111112221100                122334455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 012365          186 FMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNS  264 (465)
Q Consensus       186 ~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  264 (465)
                      .....+-+...+++.+..++++.. ...+.... .+..-|.++...|+..+-..+-.+|.+.- +-.+.+|-++.--|..
T Consensus       247 l~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~-~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~  324 (611)
T KOG1173|consen  247 LAEKADRLYYGCRFKECLKITEELLEKDPFHLP-CLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLM  324 (611)
T ss_pred             HHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcc-hHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHH
Confidence            556667778889999999999873 33333332 36666778889999988888888888875 2346788888888888


Q ss_pred             cCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhh
Q 012365          265 EGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQI  343 (465)
Q Consensus       265 ~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  343 (465)
                      .|+.++|.+.|.+....+.. -.+|......|.-.+..+.|+..+....+-.+....++-.+-..+      ...++.+.
T Consensus       325 i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey------~~t~n~kL  398 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEY------MRTNNLKL  398 (611)
T ss_pred             hcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHH------HHhccHHH
Confidence            89999999999988765544 235666777788899999999999887774333333332222222      22489999


Q ss_pred             hHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc--CC----CCChhHHHHHHHHHHhcCChhhHH
Q 012365          344 GLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENA--GL----PYNVLSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       344 A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~--g~----~p~~~~~~~l~~~~~~~g~~~~A~  416 (465)
                      |.+.|.+..   ++.| |+...+-+.-.....+.+.+|..+|+.....  .+    +.-..+++.|..+|.+.+++++|+
T Consensus       399 Ae~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  399 AEKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            999999988   7877 5666777776677889999999999988732  01    113347899999999999999999


Q ss_pred             HHHhccCCCCCChhHHHHHHHhhccccchh--------hhcCCCCCcch
Q 012365          417 KLLSKMPKDDPHVRFVIQACKQTYTIPSLQ--------KERGFEKDRDT  457 (465)
Q Consensus       417 ~~~~~m~~~~~~~~~~l~~~~~~~~~~~~~--------~~~~~~pd~~t  457 (465)
                      ..+++.+...+...+...+.+..|...+..        +..++.||..+
T Consensus       476 ~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~  524 (611)
T KOG1173|consen  476 DYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIF  524 (611)
T ss_pred             HHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHH
Confidence            999999987776555555555544433222        34677777644

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.18  E-value=2.3e-08  Score=92.50  Aligned_cols=247  Identities=13%  Similarity=0.043  Sum_probs=172.0

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHc-----C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 012365           81 SETFRSMISLNVKIKDFDSAYSLLDDLKEM-----N-LMPTASM-YNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQT  153 (465)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~-~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  153 (465)
                      ..+...+...|...|+++.|+.+++.....     | ..|...+ .+.+...|...+++++|..+|+++..-        
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i--------  270 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTI--------  270 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--------
Confidence            457777999999999999999999887654     1 1233333 334667888899999999999987631        


Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-h-------cCCCCChHHHHHHHHH
Q 012365          154 FSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-A-------EIPVKSRSEVKSALVS  225 (465)
Q Consensus       154 ~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~-------~~~~~~~~~~~~~l~~  225 (465)
                         ....++..              .+--..+++.|...|.+.|++++|...+++ +       ....+.....++.+..
T Consensus       271 ---~e~~~G~~--------------h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~  333 (508)
T KOG1840|consen  271 ---REEVFGED--------------HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAA  333 (508)
T ss_pred             ---HHHhcCCC--------------CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHH
Confidence               11111111              111235666777789999999988888765 1       1222222223778888


Q ss_pred             HHHcCCChhHHHHHHHHHHHc---CCCCC----HHHHHHHHHHHHccCcHHHHHHHHHHHcCCC----CC-----ccchh
Q 012365          226 ALASHGRTSDAIIVYEEIKEA---GCNLE----PRAVIALIEHLNSEGELNRLIQLLEEVHDPD----YW-----MDGCC  289 (465)
Q Consensus       226 ~~~~~g~~~~a~~~~~~m~~~---~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~~-----~~~~~  289 (465)
                      .++..+++++|..++....+.   -+.++    ..+++.|-..|.+.|++++|.++++.+....    ..     -..++
T Consensus       334 ~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~  413 (508)
T KOG1840|consen  334 ILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLN  413 (508)
T ss_pred             HHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHH
Confidence            999999999999998865432   12223    4578899999999999999999999875421    11     11345


Q ss_pred             hHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc-HHHHHHHH
Q 012365          290 RLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS-RKCLDFLL  368 (465)
Q Consensus       290 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~-~~~~~~ll  368 (465)
                      .+...|.+.+.+.+|..+|.+...                                 +. ..  ...-.|+ ..+|..|.
T Consensus       414 ~la~~~~~~k~~~~a~~l~~~~~~---------------------------------i~-~~--~g~~~~~~~~~~~nL~  457 (508)
T KOG1840|consen  414 QLAEAYEELKKYEEAEQLFEEAKD---------------------------------IM-KL--CGPDHPDVTYTYLNLA  457 (508)
T ss_pred             HHHHHHHHhcccchHHHHHHHHHH---------------------------------HH-HH--hCCCCCchHHHHHHHH
Confidence            677778888888888888877655                                 11 00  0122343 46888999


Q ss_pred             HHhHhhhhhhHHHHHHHHHH
Q 012365          369 GACVNARDLKRAHLIWKEYE  388 (465)
Q Consensus       369 ~~~~~~g~~~~A~~~~~~m~  388 (465)
                      ..|...|+++.|.++.+.+.
T Consensus       458 ~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  458 ALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHcccHHHHHHHHHHHH
Confidence            99999999999999988886

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.17  E-value=1e-06  Score=81.14  Aligned_cols=409  Identities=13%  Similarity=0.116  Sum_probs=248.2

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      ..|..++..| ..+++...+++.+.+.+. .+-...|.....-.+...|+.++|........+.. .-+.+.|..+.-.+
T Consensus         9 ~lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~   85 (700)
T KOG1156|consen    9 ALFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQ   85 (700)
T ss_pred             HHHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHH
Confidence            3455555555 467888888888888773 33355566555555677899999998888777654 45778888888888


Q ss_pred             hccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHh---hCChhHH
Q 012365           92 VKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS-QTFSYLIHN---CSNEEDI  167 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~---~~~~~~~  167 (465)
                      -...++++|.+.|......+ +-|...|.-+.-.-++.|+++.....-.++.+.  .|.. ..|..+..+   .+....+
T Consensus        86 R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A  162 (700)
T KOG1156|consen   86 RSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMA  162 (700)
T ss_pred             hhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHH
Confidence            88899999999999887765 556777887777778888888888888877764  3333 333333333   2334445


Q ss_pred             HHHHHHHHHcC-CCCCHHHHHHH------HHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHH
Q 012365          168 IKYYEQLKSAG-GQITKYVFMAL------INAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY  240 (465)
Q Consensus       168 ~~~~~~~~~~~-~~~~~~~~~~l------~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  240 (465)
                      ..+.+...+.. -.|+...+.-.      .......|..++|.+.+...+...-+....-..-...+.+.+++++|..++
T Consensus       163 ~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  163 LEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            55666555543 24555444322      234567788899988887533333333222344566778889999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHH-cc-CcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHH-HHHHHHHHcccc
Q 012365          241 EEIKEAGCNLEPRAVIALIEHLN-SE-GELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSAT-DLLKQLKDKFKD  317 (465)
Q Consensus       241 ~~m~~~~~~p~~~~~~~ll~~~~-~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~~~~~~~~~~  317 (465)
                      ..+..++  ||..-|...+..+. +- +..+....++....+.-........+-........+.... .++..+.+++.|
T Consensus       243 ~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p  320 (700)
T KOG1156|consen  243 RRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVP  320 (700)
T ss_pred             HHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCC
Confidence            9999988  88887766655444 33 3333333666666554322221112222222223333332 233444444444


Q ss_pred             hhHHHHHHHHHHHHhhhcCCCCchh----hhHHhHHHHHh---------hcCCCCcHHHHH--HHHHHhHhhhhhhHHHH
Q 012365          318 DEMAMEYHFSEIFCQIATTDPPDVQ----IGLDLLQFIKD---------ELGLPPSRKCLD--FLLGACVNARDLKRAHL  382 (465)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~~~~~----~A~~~~~~m~~---------~~~~~p~~~~~~--~ll~~~~~~g~~~~A~~  382 (465)
                      ....--..+.   ..     +...+    .+..+...+..         ...-.|+...|.  .+...+-..|+++.|..
T Consensus       321 ~vf~dl~SLy---k~-----p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~  392 (700)
T KOG1156|consen  321 SVFKDLRSLY---KD-----PEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALE  392 (700)
T ss_pred             chhhhhHHHH---hc-----hhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHH
Confidence            3333211111   00     00000    01111111110         011256665554  46777888999999999


Q ss_pred             HHHHHHHcCCCCChh-HHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHh
Q 012365          383 IWKEYENAGLPYNVL-SYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       383 ~~~~m~~~g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                      +++....+  .|+.. .|..-.+.+...|++++|..++++..+.|.....+-+-|+.
T Consensus       393 yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAK  447 (700)
T KOG1156|consen  393 YIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAK  447 (700)
T ss_pred             HHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHH
Confidence            99998876  45543 56566678888999999999999988877644444434544

>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=99.15  E-value=3.9e-07  Score=85.47  Aligned_cols=251  Identities=14%  Similarity=0.106  Sum_probs=172.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHhc--
Q 012365           53 LHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMY-NAIMAGYFRK--  129 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-~~li~~~~~~--  129 (465)
                      ...+...|++++|++.++.-.+. +.............+.+.|+.++|..+|..+.+.+  |+...| ..+..+..-.  
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            34567889999999999875443 33345667778899999999999999999999987  555554 4555554222  


Q ss_pred             ---CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 012365          130 ---KDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED----IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKA  202 (465)
Q Consensus       130 ---g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  202 (465)
                         .+.+...++|+++...-  |.......+.-.+...++    +..++..+...|++   .+++.+-..|....+.+-.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             cccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHH
Confidence               35777888999887642  544444433333333333    34456666677754   4566666666655555555


Q ss_pred             HHHHHHh----cC-----------CCCChHH--HHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHc
Q 012365          203 RQVVLDA----EI-----------PVKSRSE--VKSALVSALASHGRTSDAIIVYEEIKEAGCNLE-PRAVIALIEHLNS  264 (465)
Q Consensus       203 ~~~~~~~----~~-----------~~~~~~~--~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~  264 (465)
                      .+++...    ..           ...|...  ++..+...|...|++++|++++++.++..  |+ +..|..-...+-+
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh  240 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKH  240 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHH
Confidence            5555441    10           1122221  34666788889999999999999998875  65 6677788888999


Q ss_pred             cCcHHHHHHHHHHHcCCCCCccch-hhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          265 EGELNRLIQLLEEVHDPDYWMDGC-CRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       265 ~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      .|++.+|.+.++..+..+..-.-. +..+.++.+.|++++|.+++....+
T Consensus       241 ~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr  290 (517)
T PF12569_consen  241 AGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTR  290 (517)
T ss_pred             CCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcC
Confidence            999999999999988766443322 4566677788999999888887766

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 [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.14  E-value=6.2e-07  Score=76.49  Aligned_cols=381  Identities=12%  Similarity=0.107  Sum_probs=180.0

Q ss_pred             HHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           18 ITYSCDLLKVHVALDVVEQMVQGELVPSTETINS-ILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        18 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      +.-+....|+..|+.+++.-...+-. ....... +..++.+.|++++|...|..+.... .++...+-.|.-++.-.|.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~E-EE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~  106 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDRE-EEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQ  106 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchh-hhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHH
Confidence            44455677778888877766543322 1222333 3345566788888888888776644 5566666666555556677


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHH
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKS  176 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~  176 (465)
                      +.+|..+-....     .++..-..|.....+.++-++-..+-+.+.+.  .-|..+...+=-.-....++.+++..+..
T Consensus       107 Y~eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD~--~EdqLSLAsvhYmR~HYQeAIdvYkrvL~  179 (557)
T KOG3785|consen  107 YIEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT--LEDQLSLASVHYMRMHYQEAIDVYKRVLQ  179 (557)
T ss_pred             HHHHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh--HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            777776644322     23333334444445556655555544444321  11111111111111233455555555554


Q ss_pred             cCCCCCHHHHHHHH-HHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHH
Q 012365          177 AGGQITKYVFMALI-NAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRA  254 (465)
Q Consensus       177 ~~~~~~~~~~~~l~-~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  254 (465)
                      ..  |+-...|..+ -+|.+..-++-+.++++- +..-+..+. ..|.......+.=.-..|.+-..++.+.+-.  ...
T Consensus       180 dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdSti-A~NLkacn~fRl~ngr~ae~E~k~ladN~~~--~~~  254 (557)
T KOG3785|consen  180 DN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTI-AKNLKACNLFRLINGRTAEDEKKELADNIDQ--EYP  254 (557)
T ss_pred             cC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHH-HHHHHHHHHhhhhccchhHHHHHHHHhcccc--cch
Confidence            32  2333333332 344555556666666554 222222222 2343333333322222233333333333211  111


Q ss_pred             HHHHHHHHHcc-----CcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHH
Q 012365          255 VIALIEHLNSE-----GELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEI  329 (465)
Q Consensus       255 ~~~ll~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (465)
                         .+.-+++.     .+-+.|++++-.+.+  ..|++...++.+|.+.+++.+|..+.+.+.     |..++..++.++
T Consensus       255 ---f~~~l~rHNLVvFrngEgALqVLP~L~~--~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~-----PttP~EyilKgv  324 (557)
T KOG3785|consen  255 ---FIEYLCRHNLVVFRNGEGALQVLPSLMK--HIPEARLNLIIYYLNQNDVQEAISLCKDLD-----PTTPYEYILKGV  324 (557)
T ss_pred             ---hHHHHHHcCeEEEeCCccHHHhchHHHh--hChHhhhhheeeecccccHHHHHHHHhhcC-----CCChHHHHHHHH
Confidence               11111121     222444444443332  335555666677777777777777766552     222222222221


Q ss_pred             HH-hhhc--CCCCchhhhHHhHHHHHhhcCCC------------------------------------CcHHHHHHHHHH
Q 012365          330 FC-QIAT--TDPPDVQIGLDLLQFIKDELGLP------------------------------------PSRKCLDFLLGA  370 (465)
Q Consensus       330 ~~-~~~~--~~~~~~~~A~~~~~~m~~~~~~~------------------------------------p~~~~~~~ll~~  370 (465)
                      .. +.++  .+...+.-|.+.|+-.- .++..                                    .|...| .+..+
T Consensus       325 v~aalGQe~gSreHlKiAqqffqlVG-~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQA  402 (557)
T KOG3785|consen  325 VFAALGQETGSREHLKIAQQFFQLVG-ESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQA  402 (557)
T ss_pred             HHHHhhhhcCcHHHHHHHHHHHHHhc-ccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHH
Confidence            11 1111  11123333444444333 22221                                    111111 24556


Q ss_pred             hHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          371 CVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       371 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      .+..|++.+|+++|-.+....++.+..-...|.++|.+.|+++.|+.++-++--
T Consensus       403 k~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t  456 (557)
T KOG3785|consen  403 KLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT  456 (557)
T ss_pred             HHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC
Confidence            666777777777776666544444444444555677777777777776655543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.02  E-value=7.2e-08  Score=81.14  Aligned_cols=227  Identities=11%  Similarity=0.040  Sum_probs=137.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 012365           50 NSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRK  129 (465)
Q Consensus        50 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  129 (465)
                      +.+.++|.+.|-+.+|++-++.-.+.  .|-+.||-.|-.+|.+..++..|+.+|.+-.+. +|-|+....-+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            44556666666666666666665554  345556666666666666666666666665543 122333333344555556


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh--hC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 012365          130 KDVQGALMVLKEMEQANVKPDSQTFSYLIHN--CS-NEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVV  206 (465)
Q Consensus       130 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  206 (465)
                      ++.++|.++|+...+.. +.+.....++-..  |. +.+-+..+++.+.+.|+. ++..|+.+.-+|...+++|-++..|
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            66666666666655431 1111111111111  22 334455566666666644 6677777777788888888888888


Q ss_pred             HHhcC---CCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          207 LDAEI---PVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       207 ~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      ++...   .+.....+|..+-...+..|++..|.+.|+-....+. -....++.|.-.-.+.|+++.|..++.......
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~-~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDA-QHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCc-chHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            76211   1222222466677777888888888888888777652 245677777777788888888888888776544

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.00  E-value=1e-05  Score=76.21  Aligned_cols=127  Identities=9%  Similarity=-0.001  Sum_probs=90.9

Q ss_pred             hHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc-HHHHHHHH
Q 012365          290 RLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS-RKCLDFLL  368 (465)
Q Consensus       290 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~-~~~~~~ll  368 (465)
                      .....+.+.++.++|...+.+.....+-....++..-..+..      .|..++|.+.|....   -+.|+ +.+..++.
T Consensus       655 laa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~------~~~~~EA~~af~~Al---~ldP~hv~s~~Ala  725 (799)
T KOG4162|consen  655 LAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEV------KGQLEEAKEAFLVAL---ALDPDHVPSMTALA  725 (799)
T ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHH------HHhhHHHHHHHHHHH---hcCCCCcHHHHHHH
Confidence            445566778888888877777666322222222221111122      388899998888877   66775 45667888


Q ss_pred             HHhHhhhhhhHHHH--HHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCC
Q 012365          369 GACVNARDLKRAHL--IWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDD  426 (465)
Q Consensus       369 ~~~~~~g~~~~A~~--~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  426 (465)
                      .++.+.|+..-|..  ++.++.+.+ |.+...|..+...+-+.|+.+.|...|+-..+..
T Consensus       726 ~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  726 ELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             HHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            88888898877777  899999885 7888899999999999999999999998766543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.00  E-value=8.1e-07  Score=78.68  Aligned_cols=229  Identities=12%  Similarity=0.044  Sum_probs=155.0

Q ss_pred             HHhcccCHHHHHHHHHHHHhCCC-CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           20 YSCDLLKVHVALDVVEQMVQGEL-VPS--TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        20 ~~~~~g~~~~A~~~~~~m~~~~~-~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      .....+..+.++.-+.++..... .|+  ...|..+...+...|+.++|...|++..+.. +.+...|+.+...+...|+
T Consensus        35 ~~~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~  113 (296)
T PRK11189         35 PLQPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGN  113 (296)
T ss_pred             ccCCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCC
Confidence            34445678889999988886432 222  3457777778889999999999999998876 5578899999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH---HHHHHHHhhCChhHHHHHHHH
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQ---TFSYLIHNCSNEEDIIKYYEQ  173 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~---~~~~ll~~~~~~~~~~~~~~~  173 (465)
                      +++|...|++..+.. +-+..+|..+...+...|++++|.+.|+...+.  .|+..   .+..+.....+.+++...++.
T Consensus       114 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~  190 (296)
T PRK11189        114 FDAAYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQ  190 (296)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            999999999998764 445778888888999999999999999998864  34432   222233334455666666654


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHH--HHHHHH-hcCCC---CChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC
Q 012365          174 LKSAGGQITKYVFMALINAYTTCGEFEKA--RQVVLD-AEIPV---KSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a--~~~~~~-~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  247 (465)
                      ..... .++...+ .+.  ....|+...+  .+.+.. .....   ......|..+...+...|++++|...|++..+.+
T Consensus       191 ~~~~~-~~~~~~~-~~~--~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        191 RYEKL-DKEQWGW-NIV--EFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             HHhhC-CccccHH-HHH--HHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            43322 2222222 222  2334554333  322221 11111   1122358889999999999999999999999876


Q ss_pred             CCCCHHHHHH
Q 012365          248 CNLEPRAVIA  257 (465)
Q Consensus       248 ~~p~~~~~~~  257 (465)
                      + ||..-+..
T Consensus       267 ~-~~~~e~~~  275 (296)
T PRK11189        267 V-YNFVEHRY  275 (296)
T ss_pred             C-chHHHHHH
Confidence            3 35444433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.99  E-value=1.4e-06  Score=72.59  Aligned_cols=298  Identities=10%  Similarity=0.076  Sum_probs=155.2

Q ss_pred             CCCCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365            6 EITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus         6 ~~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      |+.--..-+++.+..+.+..+++.|++++..-.++..+ +......|..+|-...++..|-..|+++-..  .|...-|.
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYr   81 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYR   81 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHH
Confidence            33334445778888888999999999999988877543 7777888888888889999999999998765  35554444


Q ss_pred             HH-HHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhC
Q 012365           86 SM-ISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGY--FRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCS  162 (465)
Q Consensus        86 ~l-i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  162 (465)
                      .. ...+.+.+.+..|.++...|.+.   |+...-..-+.+.  -..+++..+..++++....|-......-.+++---+
T Consensus        82 lY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykeg  158 (459)
T KOG4340|consen   82 LYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEG  158 (459)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccc
Confidence            32 33455667777787777766642   2222111112211  123444445444444332110000000000110111


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-----c----------CCC-------CCh----
Q 012365          163 NEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-----E----------IPV-------KSR----  216 (465)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-----~----------~~~-------~~~----  216 (465)
                      +.+.+.+-|+...+.+--.....|+..+ +..+.|+.+.|++...++     .          ...       .+.    
T Consensus       159 qyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~  237 (459)
T KOG4340|consen  159 QYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQ  237 (459)
T ss_pred             cHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHH
Confidence            1222222222222222111233333322 233445555555444321     0          000       000    


Q ss_pred             ---HHHHHHHHHHHHcCCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHc-CCCCCccchhhH
Q 012365          217 ---SEVKSALVSALASHGRTSDAIIVYEEIKEA-GCNLEPRAVIALIEHLNSEGELNRLIQLLEEVH-DPDYWMDGCCRL  291 (465)
Q Consensus       217 ---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~  291 (465)
                         ...+|.-...+.+.|+++.|.+-+..|..+ .-..|+.|...+.-.=... ++-...+-+.-+. ..+.+++++..+
T Consensus       238 Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~~-~p~~g~~KLqFLL~~nPfP~ETFANl  316 (459)
T KOG4340|consen  238 SALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMDA-RPTEGFEKLQFLLQQNPFPPETFANL  316 (459)
T ss_pred             HHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcccC-CccccHHHHHHHHhcCCCChHHHHHH
Confidence               001233333455678888888888777654 2445677765543322222 2222222222222 234667788888


Q ss_pred             hhHhhhcCChhHHHHHHHHH
Q 012365          292 ILHCVRFKQLSSATDLLKQL  311 (465)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~  311 (465)
                      +..||++.-++.|-+++.+-
T Consensus       317 LllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  317 LLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHHhhhHHHhHHHHHHhhC
Confidence            88888888888888887654

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.99  E-value=5.9e-06  Score=75.94  Aligned_cols=201  Identities=9%  Similarity=-0.055  Sum_probs=121.1

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCC-CCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHH--
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGEL-VPSTETI-NSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRS--   86 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--   86 (465)
                      ...|..+...+...|+.+.+.+.+....+... .++.... ......+...|++++|.+++++..+.. +.+...+..  
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~   84 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHL   84 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhH
Confidence            45566666666677888887777777654322 2232222 122233566789999999998887764 444444442  


Q ss_pred             -HHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChh
Q 012365           87 -MISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEE  165 (465)
Q Consensus        87 -li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  165 (465)
                       ........+..+.+.+.++... ...+.+......+...+...|++++|...+++..+..  |+               
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--p~---------------  146 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN--PD---------------  146 (355)
T ss_pred             HHHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CC---------------
Confidence             2222223455555555555411 1112223444556667888899999999988887642  32               


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCC-Ch--HHHHHHHHHHHHcCCChhHHHHHHH
Q 012365          166 DIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVK-SR--SEVKSALVSALASHGRTSDAIIVYE  241 (465)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~-~~--~~~~~~l~~~~~~~g~~~~a~~~~~  241 (465)
                                      +...+..+...+...|++++|...+++. ...+. +.  ...|..+...+...|++++|..+++
T Consensus       147 ----------------~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~  210 (355)
T cd05804         147 ----------------DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYD  210 (355)
T ss_pred             ----------------CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence                            3445566677788888888888888762 22221 11  1124567777888888888888888


Q ss_pred             HHHHc
Q 012365          242 EIKEA  246 (465)
Q Consensus       242 ~m~~~  246 (465)
                      +....
T Consensus       211 ~~~~~  215 (355)
T cd05804         211 THIAP  215 (355)
T ss_pred             HHhcc
Confidence            87543

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.

>PF12854 PPR_1: PPR repeat

Probab=98.98  E-value=5.9e-10  Score=61.83  Aligned_cols=34  Identities=24%  Similarity=0.416  Sum_probs=29.9

Q ss_pred             cCCCCCHHHHHHHHHHHhcccCHHHHHHHHHHHH
Q 012365            5 LEITPSSASYKKLITYSCDLLKVHVALDVVEQMV   38 (465)
Q Consensus         5 ~~~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~   38 (465)
                      .|++||..|||+||++||+.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3788999999999999999999999999998873

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.96  E-value=1.2e-05  Score=70.30  Aligned_cols=313  Identities=12%  Similarity=0.076  Sum_probs=174.4

Q ss_pred             CCCHHHHHHHHHHHhcc--CCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---
Q 012365           78 KPNSETFRSMISLNVKI--KDFDSAYSLLDDLKEM-NLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS---  151 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~---  151 (465)
                      +|...+....+.+++..  ++...|...+-.+... -++-|+.....+.+.+...|+..+|...|++.+-.  .|+.   
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~  268 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEA  268 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--Chhhhhh
Confidence            33334444445554443  3334444443333222 24556777777888888888888888888876542  2332   


Q ss_pred             -HHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHc
Q 012365          152 -QTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALAS  229 (465)
Q Consensus       152 -~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~  229 (465)
                       ..|..++..-+...+...+...+.... +-+...|-.-........++..|+.+-++ +...++... .+-.-...+..
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~-alilKG~lL~~  346 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHE-ALILKGRLLIA  346 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccch-HHHhccHHHHh
Confidence             235555554444444444443333221 11223333333344455556666655554 233333322 13333344555


Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHH
Q 012365          230 HGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLK  309 (465)
Q Consensus       230 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  309 (465)
                      .|++++|.-.|+..+.-. +-+..+|..|+++|...|++.+|.-.-....+                ..++-..++.+|.
T Consensus       347 ~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~----------------~~~~sA~~LtL~g  409 (564)
T KOG1174|consen  347 LERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIR----------------LFQNSARSLTLFG  409 (564)
T ss_pred             ccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHH----------------Hhhcchhhhhhhc
Confidence            666666666666655432 12355666666666666666655544332211                1111111122211


Q ss_pred             HHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHH-HHHHHHHHhHhhhhhhHHHHHHHHHH
Q 012365          310 QLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRK-CLDFLLGACVNARDLKRAHLIWKEYE  388 (465)
Q Consensus       310 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~m~  388 (465)
                                        ...+   ..++..-++|..++++..   .+.|+-. ..+.+...|...|..+.+..+++...
T Consensus       410 ------------------~~V~---~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L  465 (564)
T KOG1174|consen  410 ------------------TLVL---FPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHL  465 (564)
T ss_pred             ------------------ceee---ccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHH
Confidence                              0000   111234566777777766   5667643 44556667888889999999988888


Q ss_pred             HcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHH
Q 012365          389 NAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACK  437 (465)
Q Consensus       389 ~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~  437 (465)
                      .  ..||....+.|.+.+...+.+.+|...|...+..+|.....+....
T Consensus       466 ~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~sl~Gl~  512 (564)
T KOG1174|consen  466 I--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRTLRGLR  512 (564)
T ss_pred             h--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHHHHHHH
Confidence            7  3788888899999998999999999999999988887766665443

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.96  E-value=2.7e-06  Score=75.41  Aligned_cols=214  Identities=9%  Similarity=-0.031  Sum_probs=132.3

Q ss_pred             CCHHHHHHHHHHHhhCC-CCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 012365           60 YEFNLVRRIYPMICHHN-LKPN--SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGAL  136 (465)
Q Consensus        60 ~~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  136 (465)
                      +..+.+..-+.++.... ..|+  ...|..+...|.+.|+.++|...|++..+.. +.+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            45566666666666532 1222  3557777778888899999999998888765 556788899999999999999999


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHhh---CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCC
Q 012365          137 MVLKEMEQANVKPD-SQTFSYLIHNC---SNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIP  212 (465)
Q Consensus       137 ~~~~~m~~~~~~p~-~~~~~~ll~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  212 (465)
                      +.|++..+.  .|+ ...+..+-..+   ++..++.+.++...+..  |+..........+...++.++|...|.+....
T Consensus       119 ~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        119 EAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            999988864  344 33443333333   45555666666666543  33222222223344567889999888652222


Q ss_pred             CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc---CC--CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          213 VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA---GC--NL-EPRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       213 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~--~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      ..+..  |.. .......|+...+ ..+..+.+.   .+  .| ....|..+...+.+.|++++|...|+.....+
T Consensus       195 ~~~~~--~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        195 LDKEQ--WGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             CCccc--cHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            11111  221 2222334555444 344444421   11  11 23568888888899999999999999887655

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.94  E-value=1.4e-06  Score=70.11  Aligned_cols=197  Identities=14%  Similarity=0.003  Sum_probs=142.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 012365          185 VFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNS  264 (465)
Q Consensus       185 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  264 (465)
                      +...|.-.|...|+...|.+-+++.-...+....+|..+...|-+.|..+.|.+-|+....... -+....|..-.-+|.
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC~  115 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHHh
Confidence            4445667889999999999999884444444444688899999999999999999998887652 145566777777888


Q ss_pred             cCcHHHHHHHHHHHcCCC---CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCch
Q 012365          265 EGELNRLIQLLEEVHDPD---YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDV  341 (465)
Q Consensus       265 ~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  341 (465)
                      .|++++|...|+.....+   ...+++..+..+..+.|+.+.|.+.|++..+..+....+.-.+....+..      |++
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~------~~y  189 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKA------GDY  189 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhc------ccc
Confidence            999999999999887654   34556777777778899999999999888875444444444444433333      777


Q ss_pred             hhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          342 QIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       342 ~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      -.|...++... ..+. ++..+.-..|+.-...|+.+.+-++=.++.+.
T Consensus       190 ~~Ar~~~~~~~-~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         190 APARLYLERYQ-QRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             hHHHHHHHHHH-hccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            78887777776 3333 77777777777777778877777766666654

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.93  E-value=1.3e-06  Score=70.21  Aligned_cols=198  Identities=10%  Similarity=0.028  Sum_probs=142.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYF  127 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  127 (465)
                      +...|.-.|...|+...|..-+++.++.. +.+..+|..+...|-+.|+.+.|.+-|++..+.. +.+..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            34445566778888888888888888775 4556778888888888888888888888877664 456677788888888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 012365          128 RKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVL  207 (465)
Q Consensus       128 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  207 (465)
                      ..|++++|...|++......-|                               --..+|..+.-+..+.|+.+.|.+.|+
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~-------------------------------~~s~t~eN~G~Cal~~gq~~~A~~~l~  163 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYG-------------------------------EPSDTLENLGLCALKAGQFDQAEEYLK  163 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCC-------------------------------CcchhhhhhHHHHhhcCCchhHHHHHH
Confidence            8888888888888877542111                               123455556666778888888888888


Q ss_pred             H-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcC
Q 012365          208 D-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD  280 (465)
Q Consensus       208 ~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  280 (465)
                      + +...+..+. +.-.+.......|++-.|..+++.....+. ++..+....|+.--..|+.+.+.+.=.++.+
T Consensus       164 raL~~dp~~~~-~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         164 RALELDPQFPP-ALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHhCcCCCh-HHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            7 333333332 366777788888888888888888887765 7777777777777777877777766555544

>PF12854 PPR_1: PPR repeat

Probab=98.91  E-value=2e-09  Score=59.73  Aligned_cols=33  Identities=21%  Similarity=0.374  Sum_probs=23.7

Q ss_pred             CCCCChhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          391 GLPYNVLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       391 g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      |++||..||+.||++|++.|+.++|.++|++|.
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

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.91  E-value=2.3e-06  Score=71.42  Aligned_cols=316  Identities=14%  Similarity=0.088  Sum_probs=181.9

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 012365           41 ELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN  120 (465)
Q Consensus        41 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  120 (465)
                      |+.....-+.+++..+.+..++..|.+++..-.++. +.+....+.|..+|....++..|-..++++...  .|...-|.
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYr   81 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYR   81 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHH
Confidence            333334456777888888899999999998877775 447888899999999999999999999999875  46666554


Q ss_pred             H-HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhC--ChhH---HHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012365          121 A-IMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCS--NEED---IIKYYEQLKSAGGQITKYVFMALINAYT  194 (465)
Q Consensus       121 ~-li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~  194 (465)
                      . -...+-+.+.+..|+.+...|.+.   |+...-..-+.+..  ..++   ...+.+..-.   .-+..+.+...-...
T Consensus        82 lY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~---en~Ad~~in~gClly  155 (459)
T KOG4340|consen   82 LYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPS---ENEADGQINLGCLLY  155 (459)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccC---CCccchhccchheee
Confidence            3 345677889999999999988753   33222222222211  1122   2223333221   123333333334456


Q ss_pred             hcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHH-H---HHHHHHHccCcH-
Q 012365          195 TCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAV-I---ALIEHLNSEGEL-  268 (465)
Q Consensus       195 ~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~-~---~ll~~~~~~g~~-  268 (465)
                      +.|+++.|.+-|+. .+.++-.+...||.-+..| +.|+++.|++...++.++|++-.+..= .   -.+.+ ..-|+. 
T Consensus       156 kegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv-rsvgNt~  233 (459)
T KOG4340|consen  156 KEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV-RSVGNTL  233 (459)
T ss_pred             ccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch-hcccchH
Confidence            78899999888886 4555544444577655544 568889999999888888764222100 0   00000 000000 


Q ss_pred             HHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccc--hhHHHHHHHHHHHHhhhcCCCCchhhhHH
Q 012365          269 NRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKD--DEMAMEYHFSEIFCQIATTDPPDVQIGLD  346 (465)
Q Consensus       269 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~~~A~~  346 (465)
                      ..+..-+         +..++.-...+-+.++++.|.+.+-.|..+...  +.++...+..  ..     -.+++-+..+
T Consensus       234 ~lh~Sal---------~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al--~n-----~~~~p~~g~~  297 (459)
T KOG4340|consen  234 VLHQSAL---------VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQAL--MN-----MDARPTEGFE  297 (459)
T ss_pred             HHHHHHH---------HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHH--hc-----ccCCccccHH
Confidence            0000000         001111111223667777777777666543211  2222211111  11     1344555555


Q ss_pred             hHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHH
Q 012365          347 LLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKE  386 (465)
Q Consensus       347 ~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~  386 (465)
                      -+.-..   ++.| -..||..++-.||+..-++.|-.++.+
T Consensus       298 KLqFLL---~~nPfP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  298 KLQFLL---QQNPFPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHHH---hcCCCChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            555554   4455 446888888888888888887776654

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.87  E-value=6.7e-07  Score=78.06  Aligned_cols=131  Identities=18%  Similarity=0.175  Sum_probs=94.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHH--HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 012365          182 TKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEV--KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALI  259 (465)
Q Consensus       182 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  259 (465)
                      +.......+..|.+.++++.|.+.++.+..-..+...+  ..+.+..+...+.+.+|.-+|+++.+. ..+++.+.+.+.
T Consensus       130 ~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A  208 (290)
T PF04733_consen  130 SLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLA  208 (290)
T ss_dssp             CHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHH
T ss_pred             cccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHH
Confidence            55666778899999999999999999876554444332  233333333445799999999998765 457889999999


Q ss_pred             HHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCCh-hHHHHHHHHHHH
Q 012365          260 EHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQL-SSATDLLKQLKD  313 (465)
Q Consensus       260 ~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~a~~~~~~~~~  313 (465)
                      .+....|++++|.+++.+....+. .+++...++......|+. +.+.+.+..+..
T Consensus       209 ~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  209 VCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            999999999999999999877654 366666666666667766 667778888776

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.87  E-value=1.2e-07  Score=82.61  Aligned_cols=156  Identities=15%  Similarity=0.132  Sum_probs=92.8

Q ss_pred             HHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCch
Q 012365          262 LNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDV  341 (465)
Q Consensus       262 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  341 (465)
                      +...|++++|+++++..    ..++.....+..+.+.++++.|.+.++.|.+..  +..+...+..+++.. ..+ ...+
T Consensus       112 ~~~~~~~~~AL~~l~~~----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~l~qLa~awv~l-~~g-~e~~  183 (290)
T PF04733_consen  112 LFHEGDYEEALKLLHKG----GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDSILTQLAEAWVNL-ATG-GEKY  183 (290)
T ss_dssp             HCCCCHHHHHHCCCTTT----TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCHHHHHHHHHHHHH-HHT-TTCC
T ss_pred             HHHcCCHHHHHHHHHcc----CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHHHHHHHH-HhC-chhH
Confidence            34445555555444332    223333444444555555555555555555421  112222222222222 111 1467


Q ss_pred             hhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh-hhHHHHHh
Q 012365          342 QIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNR-KSASKLLS  420 (465)
Q Consensus       342 ~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~  420 (465)
                      .+|.-+|+++.  ....+++.+.+.+..++...|++++|.+++++..+.+ +-++.++..++.+....|+. +.+.++++
T Consensus       184 ~~A~y~f~El~--~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  184 QDAFYIFEELS--DKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             CHHHHHHHHHH--CCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHHHHHHHH--hccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            88888888876  3456788888889989999999999999999987653 66777888888888888887 66788888


Q ss_pred             ccCCCCCC
Q 012365          421 KMPKDDPH  428 (465)
Q Consensus       421 ~m~~~~~~  428 (465)
                      ++....|.
T Consensus       261 qL~~~~p~  268 (290)
T PF04733_consen  261 QLKQSNPN  268 (290)
T ss_dssp             HCHHHTTT
T ss_pred             HHHHhCCC
Confidence            88876664

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.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.86  E-value=8.2e-05  Score=69.04  Aligned_cols=388  Identities=13%  Similarity=0.107  Sum_probs=211.3

Q ss_pred             HHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHH
Q 012365           20 YSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDS   99 (465)
Q Consensus        20 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~   99 (465)
                      .+...|+-++|.+....-.+..+. +.+.|+.+.-.+...+++++|.+.|......+ +-|..++.-+--.=++.++++.
T Consensus        50 ~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~  127 (700)
T KOG1156|consen   50 TLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEG  127 (700)
T ss_pred             hhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhh
Confidence            345567778888877776664443 56667766666666778888888888877765 5566777766666667777777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHh------hCChhHHHHHHH
Q 012365          100 AYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN-VKPDSQTFSYLIHN------CSNEEDIIKYYE  172 (465)
Q Consensus       100 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~------~~~~~~~~~~~~  172 (465)
                      .......+.+.. +.....|..+..++.-.|+...|..++++..+.. -.|+...|.....-      ..+.|..+..++
T Consensus       128 ~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale  206 (700)
T KOG1156|consen  128 YLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALE  206 (700)
T ss_pred             HHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHH
Confidence            777666665542 3345567777777777788888887777776543 24555554433322      122333344444


Q ss_pred             HHHHcC-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHH-cC-------------------
Q 012365          173 QLKSAG-GQITKYV-FMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALA-SH-------------------  230 (465)
Q Consensus       173 ~~~~~~-~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~-~~-------------------  230 (465)
                      .+.+.. -..|... -..-...+.+.++.++|..++..+....++....|..+..++. -.                   
T Consensus       207 ~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r  286 (700)
T KOG1156|consen  207 HLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPR  286 (700)
T ss_pred             HHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcc
Confidence            444321 1112111 1223455666677777777776644444444433333333332 11                   


Q ss_pred             ---------------CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHH----HHHcCCCC--------
Q 012365          231 ---------------GRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLL----EEVHDPDY--------  283 (465)
Q Consensus       231 ---------------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~----~~~~~~~~--------  283 (465)
                                     .-.+...+++..+.+.|+++-   |..+...|-.....+-..++.    ..+...+.        
T Consensus       287 ~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~  363 (700)
T KOG1156|consen  287 HECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGK  363 (700)
T ss_pred             cccchhccHHHhCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccc
Confidence                           112223344555556665432   223333232222221111111    11111110        


Q ss_pred             --Ccc----chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCC
Q 012365          284 --WMD----GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGL  357 (465)
Q Consensus       284 --~~~----~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~  357 (465)
                        .|.    .+..++..+-+.|+++.|...++.... ..|..+-.+.+=...+..     .|++++|..++++.. +.. 
T Consensus       364 ~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId-HTPTliEly~~KaRI~kH-----~G~l~eAa~~l~ea~-elD-  435 (700)
T KOG1156|consen  364 QEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID-HTPTLIELYLVKARIFKH-----AGLLDEAAAWLDEAQ-ELD-  435 (700)
T ss_pred             cCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc-cCchHHHHHHHHHHHHHh-----cCChHHHHHHHHHHH-hcc-
Confidence              111    122345556688899999998888776 223333333222222222     588999999988887 322 


Q ss_pred             CCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChh--------HHHHHH--HHHHhcCChhhHHHHHhccC
Q 012365          358 PPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVL--------SYLWMY--KAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       358 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--------~~~~l~--~~~~~~g~~~~A~~~~~~m~  423 (465)
                      .||...=.-...-..++.+.++|.++.....+.|.  +..        .|-.+-  .+|.+.|++.+|++-|..+.
T Consensus       436 ~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~  509 (700)
T KOG1156|consen  436 TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIE  509 (700)
T ss_pred             chhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHH
Confidence            23433222344444567888888888888877664  322        333332  36778877777776555443

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.86  E-value=3.4e-05  Score=67.57  Aligned_cols=314  Identities=9%  Similarity=0.012  Sum_probs=172.2

Q ss_pred             HHhCCCCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHhh-CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCC
Q 012365           37 MVQGELVPSTETINSILHACEE--SYEFNLVRRIYPMICH-HNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLM  113 (465)
Q Consensus        37 m~~~~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  113 (465)
                      |-....+|+..+....+.+++.  .++...+...+-.+.. .-++-|+.....+..++...|+.++|+..|+.....+ +
T Consensus       185 m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d-p  263 (564)
T KOG1174|consen  185 MHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN-P  263 (564)
T ss_pred             hhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC-h
Confidence            3333344544444444544332  3333333333333322 2345677788888888888888888888888877643 1


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh--CChhHHHH---HHHHHHHcCCCCCHHHHHH
Q 012365          114 PTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC--SNEEDIIK---YYEQLKSAGGQITKYVFMA  188 (465)
Q Consensus       114 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~--~~~~~~~~---~~~~~~~~~~~~~~~~~~~  188 (465)
                      -+........-.+...|+.+....+...+....- -+..  ..++.+|  -...++..   +.+.-++.. +.+...+-.
T Consensus       264 y~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~ta~--~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alil  339 (564)
T KOG1174|consen  264 DNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YTAS--HWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALIL  339 (564)
T ss_pred             hhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cchh--hhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHh
Confidence            2222333333445567777777777766654210 0111  1112221  12222222   222222221 112333433


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHH-HHH-HccC
Q 012365          189 LINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALI-EHL-NSEG  266 (465)
Q Consensus       189 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll-~~~-~~~g  266 (465)
                      --..+...++.++|.-.|+....-.+.....|.-|+.+|...|++.+|.-.-+.....- ..+..+.+.+- ..| ....
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 KGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLF-QNSARSLTLFGTLVLFPDPR  418 (564)
T ss_pred             ccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh-hcchhhhhhhcceeeccCch
Confidence            34677889999999999988555554455569999999999999999988776654431 13444443331 111 2223


Q ss_pred             cHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHH
Q 012365          267 ELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLD  346 (465)
Q Consensus       267 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~  346 (465)
                      .-++|.++++.-.+..                                  |........+.++...     .|..+.++.
T Consensus       419 ~rEKAKkf~ek~L~~~----------------------------------P~Y~~AV~~~AEL~~~-----Eg~~~D~i~  459 (564)
T KOG1174|consen  419 MREKAKKFAEKSLKIN----------------------------------PIYTPAVNLIAELCQV-----EGPTKDIIK  459 (564)
T ss_pred             hHHHHHHHHHhhhccC----------------------------------CccHHHHHHHHHHHHh-----hCccchHHH
Confidence            3456666665544322                                  2222222222222222     356666666


Q ss_pred             hHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHH
Q 012365          347 LLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSY  399 (465)
Q Consensus       347 ~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  399 (465)
                      +++.-.   ...||....+.|.+.+...+.+.+|+..|....+.+ |.|..+.
T Consensus       460 LLe~~L---~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d-P~~~~sl  508 (564)
T KOG1174|consen  460 LLEKHL---IIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD-PKSKRTL  508 (564)
T ss_pred             HHHHHH---hhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-ccchHHH
Confidence            666655   566777777788888888888888888888777652 3343343

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.84  E-value=6.8e-05  Score=68.02  Aligned_cols=396  Identities=12%  Similarity=0.064  Sum_probs=230.6

Q ss_pred             HHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC-HHHHHHHHHHHhccCCH
Q 012365           19 TYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPN-SETFRSMISLNVKIKDF   97 (465)
Q Consensus        19 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~   97 (465)
                      .+.+..|+++.|+.+|-+....... |...|..-..++...|++++|.+=-.+-.+.  .|+ ...|+....++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccH
Confidence            3556789999999999999887544 8888988999999999999988766665554  566 56899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH---HHHHHHHHHC---CCCCCHHHHHHHHHhhCCh-------
Q 012365           98 DSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGA---LMVLKEMEQA---NVKPDSQTFSYLIHNCSNE-------  164 (465)
Q Consensus        98 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a---~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~-------  164 (465)
                      ++|..-|.+-.+.. +-|...++-+..++.......+.   -.++..+...   ........|..++....+.       
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~  165 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLY  165 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcc
Confidence            99999999887764 45566677777666111000000   0011111100   0001112233333322110       


Q ss_pred             ---hHHHHHHHHHH--------HcC-------CCC----------------------CHHHHHHHHHHHHhcCCHHHHHH
Q 012365          165 ---EDIIKYYEQLK--------SAG-------GQI----------------------TKYVFMALINAYTTCGEFEKARQ  204 (465)
Q Consensus       165 ---~~~~~~~~~~~--------~~~-------~~~----------------------~~~~~~~l~~~~~~~g~~~~a~~  204 (465)
                         ....+..-.+.        ..+       ..|                      -..-...+.++..+..+++.|.+
T Consensus       166 l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q  245 (539)
T KOG0548|consen  166 LNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQ  245 (539)
T ss_pred             cccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHH
Confidence               11111111000        000       111                      01123345566666667777777


Q ss_pred             HHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHH-------HHHHHHccCcHHHHHHHHH
Q 012365          205 VVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIA-------LIEHLNSEGELNRLIQLLE  276 (465)
Q Consensus       205 ~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~-------ll~~~~~~g~~~~a~~~~~  276 (465)
                      -+.. +... .... -++....+|...|.+......-....+.|-. ...-|+.       +-.++.+.++++.+...+.
T Consensus       246 ~y~~a~el~-~~it-~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~  322 (539)
T KOG0548|consen  246 HYAKALELA-TDIT-YLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQ  322 (539)
T ss_pred             HHHHHHhHh-hhhH-HHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHH
Confidence            7765 2333 2222 2566667777777777777666665555421 1112222       2235556677777777777


Q ss_pred             HHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchh-HHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhc
Q 012365          277 EVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDE-MAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDEL  355 (465)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~  355 (465)
                      +....-..++..+       +....+++....+...- ..|.. .....--..+|.      .|++..|+..|.++. ..
T Consensus       323 kaLte~Rt~~~ls-------~lk~~Ek~~k~~e~~a~-~~pe~A~e~r~kGne~Fk------~gdy~~Av~~YteAI-kr  387 (539)
T KOG0548|consen  323 KALTEHRTPDLLS-------KLKEAEKALKEAERKAY-INPEKAEEEREKGNEAFK------KGDYPEAVKHYTEAI-KR  387 (539)
T ss_pred             HHhhhhcCHHHHH-------HHHHHHHHHHHHHHHHh-hChhHHHHHHHHHHHHHh------ccCHHHHHHHHHHHH-hc
Confidence            6544332222111       12222333322222211 01111 011111222333      489999999999988 33


Q ss_pred             CCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHH
Q 012365          356 GLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQA  435 (465)
Q Consensus       356 ~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~  435 (465)
                      . +-|...|..-.-+|.+.|.+..|+.-.+...+. -|+....|..=..++.-..+|++|.+.|++.++.+|....++..
T Consensus       388 ~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL-~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~  465 (539)
T KOG0548|consen  388 D-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL-DPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDG  465 (539)
T ss_pred             C-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Confidence            3 336678888888899999999999888888876 36666677777777777889999999999999999876555555


Q ss_pred             HHh
Q 012365          436 CKQ  438 (465)
Q Consensus       436 ~~~  438 (465)
                      ++.
T Consensus       466 ~~r  468 (539)
T KOG0548|consen  466 YRR  468 (539)
T ss_pred             HHH
Confidence            444

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.78  E-value=0.00018  Score=68.16  Aligned_cols=410  Identities=12%  Similarity=0.034  Sum_probs=233.3

Q ss_pred             ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---HhcCCHHHH-------------------HHH----HHHHhhCCC
Q 012365           24 LLKVHVALDVVEQMVQGELVPSTETINSILHAC---EESYEFNLV-------------------RRI----YPMICHHNL   77 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~---~~~~~~~~a-------------------~~~----~~~~~~~~~   77 (465)
                      .++.+.++.-+.....++...+..++..+-..+   ...++.+++                   .-.    +.++....+
T Consensus       240 ~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~~Lllli~es~i~Re~~~d~ilslm~~~~k~r~~~~  319 (799)
T KOG4162|consen  240 LSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEVILLLLIEESLIPRENIEDAILSLMLLLRKLRLKKF  319 (799)
T ss_pred             CCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHhhh
Confidence            455666666666665555554555444443331   222333333                   211    122222334


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012365           78 KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYL  157 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  157 (465)
                      .-+..+|..|--+....|+++.+-+.|++....- .-....|+.+-..+...|....|..+++.-....-.|+..+--.+
T Consensus       320 qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  320 QNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHH
Confidence            5678889999889999999999999998876432 245667888888999999999999998876643323443333333


Q ss_pred             HHh-hC-ChhHHHH---HHHHHHH----cCCCCCHHHHHHHHHHHHhc-----------CCHHHHHHHHHH-hcCCCCCh
Q 012365          158 IHN-CS-NEEDIIK---YYEQLKS----AGGQITKYVFMALINAYTTC-----------GEFEKARQVVLD-AEIPVKSR  216 (465)
Q Consensus       158 l~~-~~-~~~~~~~---~~~~~~~----~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~-~~~~~~~~  216 (465)
                      ... |. +.+.+++   +-....+    ..-...+..|-.+.-+|...           ....++.+.+++ ....+.++
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp  478 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDP  478 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence            332 33 3333332   2222222    11122333444443344321           123456666665 34444444


Q ss_pred             HHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcC-CCCCccchhhHhhHh
Q 012365          217 SEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD-PDYWMDGCCRLILHC  295 (465)
Q Consensus       217 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~  295 (465)
                      ...|. +.--|+..++.+.|.+..++..+.+-.-+...|..+.-.++..+++.+|+.+.+...+ .|.+......-+..-
T Consensus       479 ~~if~-lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~  557 (799)
T KOG4162|consen  479 LVIFY-LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIE  557 (799)
T ss_pred             hHHHH-HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhh
Confidence            43333 4445667788999999999998886566788888888888889999999988876543 221100000000000


Q ss_pred             hhcCChhHHHHHHHHHHHc----------------------------cc-------------------------------
Q 012365          296 VRFKQLSSATDLLKQLKDK----------------------------FK-------------------------------  316 (465)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~~----------------------------~~-------------------------------  316 (465)
                      ..-++.+++.+....+..-                            ..                               
T Consensus       558 ~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~  637 (799)
T KOG4162|consen  558 LTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSST  637 (799)
T ss_pred             hhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCccc
Confidence            0122222222221111110                            00                               


Q ss_pred             ---chhHHHHH------HHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHH
Q 012365          317 ---DDEMAMEY------HFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKE  386 (465)
Q Consensus       317 ---~~~~~~~~------~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~  386 (465)
                         .+..+|+.      +...++..     .++.++|...+.+..   ++.| ....|......+...|...+|.+.|..
T Consensus       638 ~~~~~~~~~~~~~~lwllaa~~~~~-----~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~  709 (799)
T KOG4162|consen  638 VLPGPDSLWYLLQKLWLLAADLFLL-----SGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAKEAFLV  709 (799)
T ss_pred             ccCCCCchHHHHHHHHHHHHHHHHh-----cCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHHHHHHH
Confidence               00111110      11111111     355555655555555   4444 334455555666778889999999998


Q ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChhhHHH--HHhccCCCCCChhHHHHHHHhhccccc
Q 012365          387 YENAGLPYNVLSYLWMYKAFLASGNRKSASK--LLSKMPKDDPHVRFVIQACKQTYTIPS  444 (465)
Q Consensus       387 m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~--~~~~m~~~~~~~~~~l~~~~~~~~~~~  444 (465)
                      ....+ |.++.+..++...+.+.|+..-|.+  ++.++++.||+.+......+......+
T Consensus       710 Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~G  768 (799)
T KOG4162|consen  710 ALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLG  768 (799)
T ss_pred             HHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcc
Confidence            88763 6677799999999999998888888  999999999987666655555443333

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.76  E-value=0.00022  Score=69.69  Aligned_cols=274  Identities=16%  Similarity=0.176  Sum_probs=151.5

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-HHHHHH---HHHH-----Hh-h-----------C
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYE-FNLVRR---IYPM-----IC-H-----------H   75 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~---~~~~-----~~-~-----------~   75 (465)
                      |+.-.-+.++.+--+..++...+.|.. |..++|+|.+.|..+++ ++..++   .|+.     .. +           +
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYer  922 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYER  922 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecc
Confidence            444455667777888888888888877 88899998888776543 222211   1111     11 1           1


Q ss_pred             CCCCCH---------HHHHHHHHHHhccCCHHHH-----------HHHHHHHHHcCCC--CCHHHHHHHHHHHHhcCCHH
Q 012365           76 NLKPNS---------ETFRSMISLNVKIKDFDSA-----------YSLLDDLKEMNLM--PTASMYNAIMAGYFRKKDVQ  133 (465)
Q Consensus        76 ~~~~~~---------~~~~~li~~~~~~g~~~~a-----------~~~~~~m~~~~~~--~~~~~~~~li~~~~~~g~~~  133 (465)
                      | .-|.         ..|-...+.+.+..+.+.-           ..+.+...+.+++  .|+.--+..+.++...+-+.
T Consensus       923 G-qcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~ 1001 (1666)
T KOG0985|consen  923 G-QCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPN 1001 (1666)
T ss_pred             c-CCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcH
Confidence            1 1111         1233333333333443322           2345555554432  35666677778888888888


Q ss_pred             HHHHHHHHHHHCC--CCCCHHHHHHHHHhhCC---------------------------hhHHHHHHHHHHHcCCCCCHH
Q 012365          134 GALMVLKEMEQAN--VKPDSQTFSYLIHNCSN---------------------------EEDIIKYYEQLKSAGGQITKY  184 (465)
Q Consensus       134 ~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~---------------------------~~~~~~~~~~~~~~~~~~~~~  184 (465)
                      +-.+++++..-.+  ..-+...-+.++-...+                           .+-.++.|...++.  ..+..
T Consensus      1002 eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf--~~n~~ 1079 (1666)
T KOG0985|consen 1002 ELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKF--DMNVS 1079 (1666)
T ss_pred             HHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHh--cccHH
Confidence            8888888876322  11122222222211111                           11122334444443  33555


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 012365          185 VFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNS  264 (465)
Q Consensus       185 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  264 (465)
                      ..+.|+.   .-+.++.|.+.-++.  .. |  ..|+.+..+-.+.|.+.+|++-|-+.      -|+..|..++....+
T Consensus      1080 A~~VLie---~i~~ldRA~efAe~~--n~-p--~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~ 1145 (1666)
T KOG0985|consen 1080 AIQVLIE---NIGSLDRAYEFAERC--NE-P--AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASR 1145 (1666)
T ss_pred             HHHHHHH---HhhhHHHHHHHHHhh--CC-h--HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHh
Confidence            5555543   335566666655421  11 1  13777777777777777777655432      356677777777777


Q ss_pred             cCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHH
Q 012365          265 EGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLL  308 (465)
Q Consensus       265 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  308 (465)
                      .|.+++-.+.+...++..-.+..-..++.+|++.++..+.++++
T Consensus      1146 ~~~~edLv~yL~MaRkk~~E~~id~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1146 TGKYEDLVKYLLMARKKVREPYIDSELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             cCcHHHHHHHHHHHHHhhcCccchHHHHHHHHHhchHHHHHHHh
Confidence            77777777777766665555555566777777777766666554

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.74  E-value=2.8e-05  Score=71.45  Aligned_cols=261  Identities=13%  Similarity=0.020  Sum_probs=155.3

Q ss_pred             HHhcccCHHHHHHHHHHHHhCCCCCCHHHHHH---HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           20 YSCDLLKVHVALDVVEQMVQGELVPSTETINS---ILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        20 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~---ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      .+...|++++|.+.+++..+.. +.|...+..   ........+....+.+.++.. ....+........+...+...|+
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~  129 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQ  129 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCC
Confidence            4456899999999999988763 224444442   111112245566666666551 12222334455566778889999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHH
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKS  176 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~  176 (465)
                      +++|...+++..+.. +.+...+..+...+...|++++|...+++.....-.+.                          
T Consensus       130 ~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~--------------------------  182 (355)
T cd05804         130 YDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSS--------------------------  182 (355)
T ss_pred             HHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCc--------------------------
Confidence            999999999998875 55677888899999999999999999998765321000                          


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcC-CC-CChHHHH-H--HHHHHHHcCCChhHHHHHHHHHHH---cCC
Q 012365          177 AGGQITKYVFMALINAYTTCGEFEKARQVVLDAEI-PV-KSRSEVK-S--ALVSALASHGRTSDAIIVYEEIKE---AGC  248 (465)
Q Consensus       177 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~-~~~~~~~-~--~l~~~~~~~g~~~~a~~~~~~m~~---~~~  248 (465)
                         ......|..+...+...|++++|..++++... .+ ....... +  .++.-+...|....+.++ +.+..   ...
T Consensus       183 ---~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w-~~~~~~~~~~~  258 (355)
T cd05804         183 ---MLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRW-EDLADYAAWHF  258 (355)
T ss_pred             ---chhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHH-HHHHHHHHhhc
Confidence               01122344566778888999999999987422 12 1111111 1  223333444543333332 22211   111


Q ss_pred             --CCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC----------ccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          249 --NLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW----------MDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       249 --~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                        ............++...|+.+.|..+++.+......          +.........+...|++++|.+.+.....
T Consensus       259 ~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         259 PDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             CcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              111122235566778888898888888877542211          11112222334578888888888877665

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.70  E-value=0.0001  Score=76.81  Aligned_cols=237  Identities=12%  Similarity=0.004  Sum_probs=137.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhc----CCCC--ChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc----CCC--C-CH
Q 012365          186 FMALINAYTTCGEFEKARQVVLDAE----IPVK--SRSEVKSALVSALASHGRTSDAIIVYEEIKEA----GCN--L-EP  252 (465)
Q Consensus       186 ~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~--p-~~  252 (465)
                      .+.+...+...|++++|...+++..    ....  ....++..+...+...|+++.|...+++....    +..  + ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            3445566777888888888876521    1111  11123455666777888888888887775542    211  1 12


Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHcCC----CCC--ccchhhHhhHhhhcCChhHHHHHHHHHHHc--ccchhHHHHH
Q 012365          253 RAVIALIEHLNSEGELNRLIQLLEEVHDP----DYW--MDGCCRLILHCVRFKQLSSATDLLKQLKDK--FKDDEMAMEY  324 (465)
Q Consensus       253 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~--~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~  324 (465)
                      ..+..+...+...|++++|...+.+....    +..  ...+..+.......|+++.|...+......  .......+..
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            23344455667778888888888776432    111  112223444556788888888888777542  1111111111


Q ss_pred             HHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcH---HHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CCCCC-h
Q 012365          325 HFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSR---KCLDFLLGACVNARDLKRAHLIWKEYENA----GLPYN-V  396 (465)
Q Consensus       325 ~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~---~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~  396 (465)
                      ........ .....|+.+.|...+.... ........   ..+..+..++...|+.++|...+++....    |.+++ .
T Consensus       654 ~~~~~~~~-~~~~~g~~~~A~~~l~~~~-~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a  731 (903)
T PRK04841        654 NADKVRLI-YWQMTGDKEAAANWLRQAP-KPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLN  731 (903)
T ss_pred             HHHHHHHH-HHHHCCCHHHHHHHHHhcC-CCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHH
Confidence            11000000 0001478888888877665 21111111   11345666778889999999999988753    33332 2


Q ss_pred             hHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          397 LSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       397 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      .++..+..+|.+.|+.++|...+.+.++
T Consensus       732 ~~~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        732 RNLILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3666777888999999999999988764

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.70  E-value=1.2e-06  Score=81.89  Aligned_cols=222  Identities=14%  Similarity=0.015  Sum_probs=176.9

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 012365          178 GGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIA  257 (465)
Q Consensus       178 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  257 (465)
                      +.+|-...-..+...+.+.|-...|..+|++..        .|..+|..|+..|+..+|..+..+-.++  +||+..|..
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle--------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~  462 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE--------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCL  462 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH--------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHH
Confidence            345556666778889999999999999998632        3788999999999999999999988884  489999999


Q ss_pred             HHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCC
Q 012365          258 LIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTD  337 (465)
Q Consensus       258 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  337 (465)
                      +........-+++|+++.+.....-     -..+.....+.+++.++.+.|+.-.+-.+-...+|+..-..++..     
T Consensus       463 LGDv~~d~s~yEkawElsn~~sarA-----~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALql-----  532 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYISARA-----QRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQL-----  532 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhhHHH-----HHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHH-----
Confidence            9999888888999999998765431     011111112578999999999987775444555555544444443     


Q ss_pred             CCchhhhHHhHHHHHhhcCCCCc-HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHH
Q 012365          338 PPDVQIGLDLLQFIKDELGLPPS-RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  416 (465)
                       ++++.|.+.|....   ...|| ...||.+-.+|.+.|+-.+|...+++..+.+ .-+...|...+....+.|.+++|+
T Consensus       533 -ek~q~av~aF~rcv---tL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~  607 (777)
T KOG1128|consen  533 -EKEQAAVKAFHRCV---TLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAI  607 (777)
T ss_pred             -hhhHHHHHHHHHHh---hcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHH
Confidence             88999999999888   66775 5789999999999999999999999999986 667778888888888999999999


Q ss_pred             HHHhccCC
Q 012365          417 KLLSKMPK  424 (465)
Q Consensus       417 ~~~~~m~~  424 (465)
                      +.+.++..
T Consensus       608 ~A~~rll~  615 (777)
T KOG1128|consen  608 KAYHRLLD  615 (777)
T ss_pred             HHHHHHHH
Confidence            99998875

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.69  E-value=5.8e-05  Score=71.88  Aligned_cols=240  Identities=12%  Similarity=0.206  Sum_probs=140.1

Q ss_pred             CHHHHHHHHH--HHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-C--------CC
Q 012365           10 SSASYKKLIT--YSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHH-N--------LK   78 (465)
Q Consensus        10 ~~~~y~~li~--~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~--------~~   78 (465)
                      |..|-.++++  .|...|+.+.|.+-.+.++      +...|..+.+.|.+.++++-|.-.+..|... |        -.
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            3444455554  4667899999988887765      3568899999999998888888777776542 1        11


Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012365           79 PNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLI  158 (465)
Q Consensus        79 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  158 (465)
                      |+ .+-....-.....|.+++|+.+|.+-+.         |..|=+.|...|.|++|+++-+.=-+-.++.+-.-|..-+
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~L  868 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYL  868 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHH
Confidence            21 2222222334567889999999988775         4445566777889999988876533333333444444444


Q ss_pred             HhhCChhHHHH-----------HHHHHHHc--------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHH
Q 012365          159 HNCSNEEDIIK-----------YYEQLKSA--------GGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEV  219 (465)
Q Consensus       159 ~~~~~~~~~~~-----------~~~~~~~~--------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  219 (465)
                      .+-+....+.+           +++.+.+.        .-..|...|.-....+-..|+.+.|+.++...+        -
T Consensus       869 ear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~--------D  940 (1416)
T KOG3617|consen  869 EARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK--------D  940 (1416)
T ss_pred             HhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh--------h
Confidence            44333222221           22222221        012244555555555566788888877775311        1


Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHc
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVH  279 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  279 (465)
                      |-++++..|-.|+.++|-++-++-   |   |......|.+.|-..|++.+|..+|...+
T Consensus       941 ~fs~VrI~C~qGk~~kAa~iA~es---g---d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  941 YFSMVRIKCIQGKTDKAARIAEES---G---DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hhhheeeEeeccCchHHHHHHHhc---c---cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            455556666666666666554432   2   33344455666666666666666665543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.68  E-value=0.00016  Score=62.01  Aligned_cols=215  Identities=11%  Similarity=0.087  Sum_probs=112.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHH-HHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN-AIMA  124 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-~li~  124 (465)
                      ..-.--+.+.+...|.+..|+.-|...++.+ +.+-.++-.-...|...|+...|..=+.+..+.  .||-..-. --..
T Consensus        38 vekhlElGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~  114 (504)
T KOG0624|consen   38 VEKHLELGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhch
Confidence            3334446666777788888888887776542 122223333345677778877777777777764  46633221 1224


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQ  204 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  204 (465)
                      .+.+.|.++.|..=|+...+..  |+..+-   ..+..+...+.+-             ......+..+.-.|+...|++
T Consensus       115 vllK~Gele~A~~DF~~vl~~~--~s~~~~---~eaqskl~~~~e~-------------~~l~~ql~s~~~~GD~~~ai~  176 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHE--PSNGLV---LEAQSKLALIQEH-------------WVLVQQLKSASGSGDCQNAIE  176 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcC--CCcchh---HHHHHHHHhHHHH-------------HHHHHHHHHHhcCCchhhHHH
Confidence            5678888888888888887653  322111   1111111111100             011122333445566666666


Q ss_pred             HHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          205 VVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      ....+-...+-+.+.|..-..+|...|.+..|+.-++...+-.- -+..++.-+-..+...|+.+.++..+++..+.+
T Consensus       177 ~i~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld  253 (504)
T KOG0624|consen  177 MITHLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKLD  253 (504)
T ss_pred             HHHHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC
Confidence            65552222222222355556666666666666655544443321 234444455555666666666666666665543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.66  E-value=0.00034  Score=64.44  Aligned_cols=51  Identities=16%  Similarity=0.177  Sum_probs=39.9

Q ss_pred             hHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          371 CVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       371 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      -.+.|+.++|..+++++.+. .++|..+...++.+|++. +.+.|..+-+++.
T Consensus       468 ~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L~  518 (652)
T KOG2376|consen  468 KLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTAYARL-DPEKAESLSKKLP  518 (652)
T ss_pred             HHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHHHHhc-CHHHHHHHhhcCC
Confidence            34568889999999999886 388888899999888876 4677777776655

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.60  E-value=0.00029  Score=60.48  Aligned_cols=322  Identities=11%  Similarity=0.109  Sum_probs=179.8

Q ss_pred             HHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHH---HHHHhcCCHHHHHHHHHHHhhCCCCCCHHH-HHHHHHH
Q 012365           15 KKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSIL---HACEESYEFNLVRRIYPMICHHNLKPNSET-FRSMISL   90 (465)
Q Consensus        15 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~   90 (465)
                      --+-..+..+|++..|+.-|....+.    |+..|-.+.   ..|...|+-..|+.=++..++.  +||-.. --.-...
T Consensus        42 lElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~v  115 (504)
T KOG0624|consen   42 LELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVV  115 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchh
Confidence            34556677788999999999988774    333444443   4577788888888888888776  577543 2334456


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh--CChhHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC--SNEEDII  168 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~--~~~~~~~  168 (465)
                      +.+.|.++.|+.=|+...+..  |+..+   ...++.+.--.++-..+..++.               +++  +....+.
T Consensus       116 llK~Gele~A~~DF~~vl~~~--~s~~~---~~eaqskl~~~~e~~~l~~ql~---------------s~~~~GD~~~ai  175 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQHE--PSNGL---VLEAQSKLALIQEHWVLVQQLK---------------SASGSGDCQNAI  175 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhcC--CCcch---hHHHHHHHHhHHHHHHHHHHHH---------------HHhcCCchhhHH
Confidence            789999999999999998764  43221   1222222222222222222222               111  1222233


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC
Q 012365          169 KYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGC  248 (465)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  248 (465)
                      .....+.+.. +.+...|..-..+|...|+...|+.=++....-..+...++--+-..+...|+.+.++...++..+-+ 
T Consensus       176 ~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld-  253 (504)
T KOG0624|consen  176 EMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKLD-  253 (504)
T ss_pred             HHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC-
Confidence            3444444433 34667777778899999999999888876433333333345567777888999999999999888755 


Q ss_pred             CCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHH
Q 012365          249 NLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSE  328 (465)
Q Consensus       249 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  328 (465)
                       ||.......   |-+   +.+..+.++.|.+              ..+.+++.+++...+...+.. |....+..-...
T Consensus       254 -pdHK~Cf~~---YKk---lkKv~K~les~e~--------------~ie~~~~t~cle~ge~vlk~e-p~~~~ir~~~~r  311 (504)
T KOG0624|consen  254 -PDHKLCFPF---YKK---LKKVVKSLESAEQ--------------AIEEKHWTECLEAGEKVLKNE-PEETMIRYNGFR  311 (504)
T ss_pred             -cchhhHHHH---HHH---HHHHHHHHHHHHH--------------HHhhhhHHHHHHHHHHHHhcC-Ccccceeeeeeh
Confidence             776532221   111   1122222222211              013445555555555444421 111111111122


Q ss_pred             HHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc-HHHHHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          329 IFCQIATTDPPDVQIGLDLLQFIKDELGLPPS-RKCLDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       329 ~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      .++.|. ...+++.+|++.-.++.   .+.|+ +.++.--..+|.-...++.|..-|+...+.
T Consensus       312 ~~c~C~-~~d~~~~eAiqqC~evL---~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  312 VLCTCY-REDEQFGEAIQQCKEVL---DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             eeeecc-cccCCHHHHHHHHHHHH---hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            222221 22455666665555555   45554 455555555666666666666666666654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.59  E-value=0.0003  Score=68.67  Aligned_cols=396  Identities=10%  Similarity=0.003  Sum_probs=202.8

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHH--HHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSET--FRSMIS   89 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~li~   89 (465)
                      ..|..|-+.|+...+..+|.+.|+..-+.... +..........+++..+++.|..+.-..-+.. +.-...  |...--
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~~~qka-~a~~~k~nW~~rG~  570 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLRAAQKA-PAFACKENWVQRGP  570 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHHHhhhc-hHHHHHhhhhhccc
Confidence            56777888888877888888888888775433 56667777778888888888877733222211 111111  222223


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh-----hCCh
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN-----CSNE  164 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-----~~~~  164 (465)
                      .|.+.++...|..-|+...... |.|...|..+..+|...|++..|+++|.+....  .|+.. |.....+     .++.
T Consensus       571 yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~-y~~fk~A~~ecd~GkY  646 (1238)
T KOG1127|consen  571 YYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSK-YGRFKEAVMECDNGKY  646 (1238)
T ss_pred             cccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhH-HHHHHHHHHHHHhhhH
Confidence            3555566666666666555443 456667777777777777777777777665432  33321 1111111     1111


Q ss_pred             hHHHHHHHHHHHc------CCCCCHHHHHHHHHHHHhcCCHHH--------------------------------HHHHH
Q 012365          165 EDIIKYYEQLKSA------GGQITKYVFMALINAYTTCGEFEK--------------------------------ARQVV  206 (465)
Q Consensus       165 ~~~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~--------------------------------a~~~~  206 (465)
                      ..+...+..+...      +..--..++..+...+.-.|-..+                                |..+|
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            1111111100000      000000000000000000000000                                00011


Q ss_pred             HHhc--------------------CCCCCh------------------HHHHHHHHHHHHc----CC----ChhHHHHHH
Q 012365          207 LDAE--------------------IPVKSR------------------SEVKSALVSALAS----HG----RTSDAIIVY  240 (465)
Q Consensus       207 ~~~~--------------------~~~~~~------------------~~~~~~l~~~~~~----~g----~~~~a~~~~  240 (465)
                      -..+                    ..+++.                  ..+|..+...|.+    .|    +...|+..+
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            0000                    000000                  1112222222222    11    122455555


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchh
Q 012365          241 EEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDE  319 (465)
Q Consensus       241 ~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  319 (465)
                      ....+..  .+...+...+......|++.-+...|-+-....+ ....|..+...+.+..+++-|...|.....-.+.+.
T Consensus       807 KkaV~L~--ann~~~WnaLGVlsg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl  884 (1238)
T KOG1127|consen  807 KKAVSLC--ANNEGLWNALGVLSGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNL  884 (1238)
T ss_pred             HHHHHHh--hccHHHHHHHHHhhccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHHhhhhcCchhh
Confidence            5544432  3334444444445555666666665554443332 234566777778899999999999999988777777


Q ss_pred             HHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHh---hcCCCCcHHHHHHHHHHhHhhhhhhHHH----------HHHHH
Q 012365          320 MAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKD---ELGLPPSRKCLDFLLGACVNARDLKRAH----------LIWKE  386 (465)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~---~~~~~p~~~~~~~ll~~~~~~g~~~~A~----------~~~~~  386 (465)
                      ..|-..-...-.      .|+.-+++.+|..-..   ..|-.|+..-|-....-....|+.++-.          -.++.
T Consensus       885 ~~WlG~Ali~ea------vG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~  958 (1238)
T KOG1127|consen  885 VQWLGEALIPEA------VGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSY  958 (1238)
T ss_pred             HHHHHHHHhHHH------HHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHH
Confidence            777554333222      2778888888876321   2444555555544333344555544322          22333


Q ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhcc
Q 012365          387 YENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKM  422 (465)
Q Consensus       387 m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  422 (465)
                      ... |.|.+...|.+......+.+.+++|..+..+.
T Consensus       959 yf~-~~p~~~fAy~~~gstlEhL~ey~~a~ela~Rl  993 (1238)
T KOG1127|consen  959 YFL-GHPQLCFAYAANGSTLEHLEEYRAALELATRL  993 (1238)
T ss_pred             HHh-cCcchhHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            333 46777888988888888888888887777664

>PLN02789 farnesyltranstransferase

Probab=98.57  E-value=0.00015  Score=64.38  Aligned_cols=222  Identities=9%  Similarity=0.001  Sum_probs=143.8

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY-EFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      .+++.+-..+...++.++|+.+++.+.+.... +..+|+.--.++...| ++++++..++.+.+.+ +-+..+|+..-.+
T Consensus        38 ~a~~~~ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~  115 (320)
T PLN02789         38 EAMDYFRAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHH
Confidence            35566666777788999999999999886433 4456666656666666 6799999999998876 4566678766655


Q ss_pred             HhccCCH--HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHH
Q 012365           91 NVKIKDF--DSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDII  168 (465)
Q Consensus        91 ~~~~g~~--~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  168 (465)
                      +.+.|+.  +++..+++++.+.+ +.|..+|+...-.+...|+++++++.++++.+.+... ...|+.....+.+.+.  
T Consensus       116 l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N-~sAW~~R~~vl~~~~~--  191 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRN-NSAWNQRYFVITRSPL--  191 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCc-hhHHHHHHHHHHhccc--
Confidence            6666653  67888888888776 6788999999999999999999999999998765322 2222211111100000  


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcC----CChhHHHHHHHHH
Q 012365          169 KYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASH----GRTSDAIIVYEEI  243 (465)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~m  243 (465)
                              .|-               .....++..+...+ +...+.+.. .|+-+...+...    +...+|.+.+.+.
T Consensus       192 --------l~~---------------~~~~~e~el~y~~~aI~~~P~N~S-aW~Yl~~ll~~~~~~l~~~~~~~~~~~~~  247 (320)
T PLN02789        192 --------LGG---------------LEAMRDSELKYTIDAILANPRNES-PWRYLRGLFKDDKEALVSDPEVSSVCLEV  247 (320)
T ss_pred             --------ccc---------------ccccHHHHHHHHHHHHHhCCCCcC-HHHHHHHHHhcCCcccccchhHHHHHHHh
Confidence                    000               00012334444433 344444433 477777777663    3445688888777


Q ss_pred             HHcCCCCCHHHHHHHHHHHHc
Q 012365          244 KEAGCNLEPRAVIALIEHLNS  264 (465)
Q Consensus       244 ~~~~~~p~~~~~~~ll~~~~~  264 (465)
                      .+.++ .++.....|+..|+.
T Consensus       248 ~~~~~-~s~~al~~l~d~~~~  267 (320)
T PLN02789        248 LSKDS-NHVFALSDLLDLLCE  267 (320)
T ss_pred             hcccC-CcHHHHHHHHHHHHh
Confidence            66542 356677777777765

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.53  E-value=0.00011  Score=60.74  Aligned_cols=180  Identities=12%  Similarity=0.123  Sum_probs=123.6

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccc
Q 012365          238 IVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKD  317 (465)
Q Consensus       238 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  317 (465)
                      ++.+.+.......+......-...|++.|++++|++..+.    +..++....-+....+..+++.|.+.++.|.+.  .
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~----~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i--d  167 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHL----GENLEAAALNVQILLKMHRFDLAEKELKKMQQI--D  167 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhc----cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--c
Confidence            3444454444433333333444567888899988887776    233444444455566888899999999999873  2


Q ss_pred             hhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChh
Q 012365          318 DEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVL  397 (465)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  397 (465)
                      +..+.+-+..+++.. +.. .+.+..|.-+|++|.  .+..|++.+.+....++...|++++|..++++..... ..++.
T Consensus       168 ed~tLtQLA~awv~l-a~g-gek~qdAfyifeE~s--~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~dpe  242 (299)
T KOG3081|consen  168 EDATLTQLAQAWVKL-ATG-GEKIQDAFYIFEELS--EKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPE  242 (299)
T ss_pred             hHHHHHHHHHHHHHH-hcc-chhhhhHHHHHHHHh--cccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHH
Confidence            333333344443333 322 356899999999998  3488999999999999999999999999999999873 66777


Q ss_pred             HHHHHHHHHHhcCCh-hhHHHHHhccCCCCCC
Q 012365          398 SYLWMYKAFLASGNR-KSASKLLSKMPKDDPH  428 (465)
Q Consensus       398 ~~~~l~~~~~~~g~~-~~A~~~~~~m~~~~~~  428 (465)
                      +...++-.-...|.. +...+.+.+.....|.
T Consensus       243 tL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~  274 (299)
T KOG3081|consen  243 TLANLIVLALHLGKDAEVTERNLSQLKLSHPE  274 (299)
T ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHhcCCc
Confidence            777777666666654 4456777777766664

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.52  E-value=1.2e-05  Score=80.55  Aligned_cols=204  Identities=13%  Similarity=0.095  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHh--cCCCCCh---HHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 012365          183 KYVFMALINAYTTCGEFEKARQVVLDA--EIPVKSR---SEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIA  257 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g~~~~a~~~~~~~--~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  257 (465)
                      ...|-..|......+++++|.+++++.  .+..+..   ...|.++++.-...|.-+...++|++..+..  -....|..
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~ 1535 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLK 1535 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHH
Confidence            345555555556666666666666552  1111111   1135555555555555555566666655543  11233455


Q ss_pred             HHHHHHccCcHHHHHHHHHHHcCC-CCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcC
Q 012365          258 LIEHLNSEGELNRLIQLLEEVHDP-DYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATT  336 (465)
Q Consensus       258 ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  336 (465)
                      |...|.+.++.++|.++++.|.+. +.....|...+....+..+-+.|..++.+..+..+.                   
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk------------------- 1596 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPK------------------- 1596 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcch-------------------
Confidence            555555555555555555555432 223334444444444444555555555544442111                   


Q ss_pred             CCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHH
Q 012365          337 DPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       337 ~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  416 (465)
                                           +-......-.+..-.+.|+.++++.+|+..... .|-....|+.+++.-.+.|+.+.++
T Consensus      1597 ---------------------~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR 1654 (1710)
T KOG1070|consen 1597 ---------------------QEHVEFISKFAQLEFKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVR 1654 (1710)
T ss_pred             ---------------------hhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHH
Confidence                                 001112222233334455555555555555543 3444455555555555555555555


Q ss_pred             HHHhccCCCCCCh
Q 012365          417 KLLSKMPKDDPHV  429 (465)
Q Consensus       417 ~~~~~m~~~~~~~  429 (465)
                      .+|+++...++..
T Consensus      1655 ~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1655 DLFERVIELKLSI 1667 (1710)
T ss_pred             HHHHHHHhcCCCh
Confidence            5555555544433

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.52  E-value=1.1e-05  Score=73.50  Aligned_cols=214  Identities=15%  Similarity=0.130  Sum_probs=123.4

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 012365           56 CEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGA  135 (465)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  135 (465)
                      +.+.|++.+|.-.|+..++.. +-+...|..|...-+..++-..|+..+.+..+.+ +-|....-.|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            456677888888888877765 5567788888888888888888888888877665 45666777777788888888888


Q ss_pred             HHHHHHHHHCCCC-----C---CHHHHHHHHHhhCCh---hHHHH-HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 012365          136 LMVLKEMEQANVK-----P---DSQTFSYLIHNCSNE---EDIIK-YYEQLKSAGGQITKYVFMALINAYTTCGEFEKAR  203 (465)
Q Consensus       136 ~~~~~~m~~~~~~-----p---~~~~~~~ll~~~~~~---~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  203 (465)
                      ++.++.-.....+     +   +...-..  ..+...   ..+.+ +++.....+..+|+.+...|--.|--.|++++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            8888776543200     0   0000000  011111   11222 2333333444456666666666666666666666


Q ss_pred             HHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCcHHHHHHHH
Q 012365          204 QVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEP-RAVIALIEHLNSEGELNRLIQLL  275 (465)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~  275 (465)
                      +.|+..-...+.+...||.|..+++...+.++|+.-|++..+-  +|+. .....|--+|...|.+++|.+.|
T Consensus       451 Dcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hl  521 (579)
T KOG1125|consen  451 DCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHL  521 (579)
T ss_pred             HHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHH
Confidence            6666533333333444666666666666666666666666653  2432 12223333444444444444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.51  E-value=5.2e-05  Score=71.33  Aligned_cols=111  Identities=16%  Similarity=0.157  Sum_probs=69.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHH
Q 012365          190 INAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELN  269 (465)
Q Consensus       190 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~  269 (465)
                      +.+......|.+|+.+++.+.-....+. .|..+...|...|+++.|.++|.+.         ..++-.|..|.+.|+++
T Consensus       739 ieaai~akew~kai~ildniqdqk~~s~-yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~  808 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTASG-YYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWE  808 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccccc-cchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHH
Confidence            4455566777888877775433322222 2677778888888888888887653         23445667788888888


Q ss_pred             HHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHH
Q 012365          270 RLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQ  310 (465)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  310 (465)
                      .|.++-.+.....-.+..|..-..-.-+.|++.+|.+++-.
T Consensus       809 da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyit  849 (1636)
T KOG3616|consen  809 DAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYIT  849 (1636)
T ss_pred             HHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEE
Confidence            88887777665443333333333334456666666666543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.50  E-value=0.00015  Score=65.94  Aligned_cols=351  Identities=14%  Similarity=0.104  Sum_probs=219.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCH
Q 012365           54 HACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTA-SMYNAIMAGYFRKKDV  132 (465)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~g~~  132 (465)
                      .+.+..|+++.|...|-...... ++|...|+.-..+|+..|++++|.+=-.+-++.  .|+. -.|+-...++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccH
Confidence            45667899999999999998877 678999999999999999999998766665554  5764 5789999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHH------HHHHHHHcC---CCCCHHHHHHHHHH----------H
Q 012365          133 QGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK------YYEQLKSAG---GQITKYVFMALINA----------Y  193 (465)
Q Consensus       133 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~------~~~~~~~~~---~~~~~~~~~~l~~~----------~  193 (465)
                      ++|+.-|.+-.+.. +.+...++-+..+..-.....+      ++..+....   .......|..++..          |
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~  165 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLY  165 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcc
Confidence            99999999866542 2234455555544411000000      111111000   00011111111111          1


Q ss_pred             HhcCCHHHHHHHHHH-----------h-----cCC------CCCh--H-----------HHHHHHHHHHHcCCChhHHHH
Q 012365          194 TTCGEFEKARQVVLD-----------A-----EIP------VKSR--S-----------EVKSALVSALASHGRTSDAII  238 (465)
Q Consensus       194 ~~~g~~~~a~~~~~~-----------~-----~~~------~~~~--~-----------~~~~~l~~~~~~~g~~~~a~~  238 (465)
                      ..-.++..+.-.+..           +     ..+      +.+.  .           .-...+.++..+..+++.|++
T Consensus       166 l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q  245 (539)
T KOG0548|consen  166 LNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQ  245 (539)
T ss_pred             cccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHH
Confidence            111111222211110           0     000      0000  0           013456667777788888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc--------chhhHhhHhhhcCChhHHHHHHHH
Q 012365          239 VYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD--------GCCRLILHCVRFKQLSSATDLLKQ  310 (465)
Q Consensus       239 ~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~a~~~~~~  310 (465)
                      -+....+..  -+..-++..-.++...|.+...........+.|....        .+..+..+|.+.++++.++..|.+
T Consensus       246 ~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~k  323 (539)
T KOG0548|consen  246 HYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQK  323 (539)
T ss_pred             HHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHH
Confidence            888887765  3444455666778888888877777666655553221        222344467778888999999888


Q ss_pred             HHHcccc-hhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHH-HHHHHHHhHhhhhhhHHHHHHHHHH
Q 012365          311 LKDKFKD-DEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKC-LDFLLGACVNARDLKRAHLIWKEYE  388 (465)
Q Consensus       311 ~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~-~~~ll~~~~~~g~~~~A~~~~~~m~  388 (465)
                      ....... +...-               ....++++...+...   -+.|.... ...-...+.+.|++..|...+.+++
T Consensus       324 aLte~Rt~~~ls~---------------lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAI  385 (539)
T KOG0548|consen  324 ALTEHRTPDLLSK---------------LKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAI  385 (539)
T ss_pred             HhhhhcCHHHHHH---------------HHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            6653222 11111               133444444444333   44554421 1223566788999999999999999


Q ss_pred             HcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          389 NAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       389 ~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      +.. |.|...|....-+|.+.|.+..|.+=.+...+.+|.|
T Consensus       386 kr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~  425 (539)
T KOG0548|consen  386 KRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNF  425 (539)
T ss_pred             hcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchH
Confidence            985 8899999999999999999999999999999999876

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.48  E-value=2.9e-05  Score=64.03  Aligned_cols=131  Identities=8%  Similarity=-0.031  Sum_probs=87.2

Q ss_pred             cCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHh-Hhhh
Q 012365          298 FKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGAC-VNAR  375 (465)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~-~~~g  375 (465)
                      .++.++++..++......+.+...|..+-..+..      .|++++|...|++..   ...| +...+..+..++ ...|
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~------~g~~~~A~~a~~~Al---~l~P~~~~~~~~lA~aL~~~~g  122 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQNSEQWALLGEYYLW------RNDYDNALLAYRQAL---QLRGENAELYAALATVLYYQAG  122 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH------CCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHhcC
Confidence            4555666666666666444555555544333333      378888888887777   4445 455666666653 5666


Q ss_pred             h--hhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC---hhHHHHHHHh
Q 012365          376 D--LKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH---VRFVIQACKQ  438 (465)
Q Consensus       376 ~--~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~---~~~~l~~~~~  438 (465)
                      +  .++|.+++++..+.+ |.+..++..+...+.+.|++++|...|+++++.++.   -..+|.+...
T Consensus       123 ~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~~~r~~~i~~i~~  189 (198)
T PRK10370        123 QHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSPRVNRTQLVESINM  189 (198)
T ss_pred             CCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Confidence            6  488888888888873 667788888888888899999999999888876553   2345554443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.47  E-value=1.6e-05  Score=68.27  Aligned_cols=62  Identities=11%  Similarity=0.089  Sum_probs=48.7

Q ss_pred             HHHHHhHhhhhhhHHHHHHHHHHHcC--CCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCC
Q 012365          366 FLLGACVNARDLKRAHLIWKEYENAG--LPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDP  427 (465)
Q Consensus       366 ~ll~~~~~~g~~~~A~~~~~~m~~~g--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  427 (465)
                      .+...+.+.|++.+|...+++..+..  .+.....+..+..++.+.|++++|..+++.+..+.|
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            45556788899999999999998751  123456888999999999999999999888766543

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).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.47  E-value=9.3e-05  Score=63.50  Aligned_cols=183  Identities=12%  Similarity=0.086  Sum_probs=98.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH---HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC-HH---
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNS---ETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT-AS---  117 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~---  117 (465)
                      ....+..+...+...|+++.|...++.+.+.. +.+.   .++..+..++.+.|++++|...++++.+..  |+ ..   
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~  108 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPDADY  108 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCchHH
Confidence            44566667777778888888888888877653 2222   456667777888888888888888887653  32 21   


Q ss_pred             HHHHHHHHHHhc--------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365          118 MYNAIMAGYFRK--------KDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMAL  189 (465)
Q Consensus       118 ~~~~li~~~~~~--------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  189 (465)
                      ++..+..++.+.        |+.++|.+.|+.+.+.  .|+.......+...   ....   ...        ......+
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~---~~~~---~~~--------~~~~~~~  172 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM---DYLR---NRL--------AGKELYV  172 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH---HHHH---HHH--------HHHHHHH
Confidence            344444445443        6677788888777654  23322111111000   0000   000        0001123


Q ss_pred             HHHHHhcCCHHHHHHHHHHhc-CCC--CChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          190 INAYTTCGEFEKARQVVLDAE-IPV--KSRSEVKSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       190 ~~~~~~~g~~~~a~~~~~~~~-~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                      ...+.+.|++++|...++... ..+  +.....+..+..++...|++++|..+++.+...
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344556666666666665521 111  111223555666666666666666666555543

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.45  E-value=2.1e-05  Score=64.82  Aligned_cols=125  Identities=9%  Similarity=0.128  Sum_probs=95.3

Q ss_pred             ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH-HhccCC--HHHH
Q 012365           24 LLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL-NVKIKD--FDSA  100 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~--~~~a  100 (465)
                      .++.+++...++...+.. +.|...|..+...+...|+++.|...|+...+.. +.+...+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            344566666666666654 3478888888888889999999999999888876 4577777777775 466676  4889


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 012365          101 YSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQ  152 (465)
Q Consensus       101 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  152 (465)
                      .+++++..+.+ +.+...+..+...+.+.|++++|...|+++.+.. +|+..
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~  179 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVN  179 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcc
Confidence            99999888776 5577888888888899999999999999988653 34443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.42  E-value=0.0004  Score=65.61  Aligned_cols=194  Identities=11%  Similarity=0.122  Sum_probs=110.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012365           53 LHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDV  132 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  132 (465)
                      +.+....+.|.+|..+++.+....  .-..-|..+..-|+..|+++.|+++|-+.-         .++--|..|.++|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            344456678888888888877654  234557777888899999999998885432         356678889999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCC
Q 012365          133 QGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIP  212 (465)
Q Consensus       133 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  212 (465)
                      +.|.++-++...  -......|..-..-.-+.|...+.-+.....| .|+     ..|.+|-+.|..+..+++..+  -.
T Consensus       808 ~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~-~p~-----~aiqmydk~~~~ddmirlv~k--~h  877 (1636)
T KOG3616|consen  808 EDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIG-EPD-----KAIQMYDKHGLDDDMIRLVEK--HH  877 (1636)
T ss_pred             HHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEcc-Cch-----HHHHHHHhhCcchHHHHHHHH--hC
Confidence            999888766542  12222333222221222222211111111122 222     245677777777777777763  23


Q ss_pred             CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 012365          213 VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLE  276 (465)
Q Consensus       213 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  276 (465)
                      +.....|...+..-|-..|+...|..-|-+..+         |.+-++.|-.++.+++|.++-+
T Consensus       878 ~d~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  878 GDHLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             hhhhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHh
Confidence            333333455566666667777777665544322         2233444445555555554433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.40  E-value=2.4e-05  Score=60.93  Aligned_cols=94  Identities=4%  Similarity=-0.065  Sum_probs=64.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR  128 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  128 (465)
                      +..+..++...|++++|...|+...... +.+...|..+..++.+.|++++|...|++....+ +.+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            4445556666777777777777776654 4566677777777777777777777777776654 4566667777777777


Q ss_pred             cCCHHHHHHHHHHHHH
Q 012365          129 KKDVQGALMVLKEMEQ  144 (465)
Q Consensus       129 ~g~~~~a~~~~~~m~~  144 (465)
                      .|++++|...|+...+
T Consensus       105 ~g~~~eAi~~~~~Al~  120 (144)
T PRK15359        105 MGEPGLAREAFQTAIK  120 (144)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7777777777777665

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.39  E-value=5.6e-07  Score=50.81  Aligned_cols=33  Identities=27%  Similarity=0.526  Sum_probs=29.8

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPS   45 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~   45 (465)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            789999999999999999999999999998887

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.39  E-value=0.003  Score=62.15  Aligned_cols=296  Identities=13%  Similarity=0.158  Sum_probs=161.0

Q ss_pred             cccCCCCCHHHHH------HHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHH-------------HHHHHHHHhcCCHH
Q 012365            3 AKLEITPSSASYK------KLITYSCDLLKVHVALDVVEQMVQGELVPSTETI-------------NSILHACEESYEFN   63 (465)
Q Consensus         3 ~~~~~~p~~~~y~------~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~-------------~~ll~~~~~~~~~~   63 (465)
                      .++++.+|...|-      ..|..|.+.-++.+.-.+.-.+..-.+  +....             ..|+.-+-+.+++.
T Consensus       778 DRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC--~E~~ik~Li~~v~gq~~~deLv~EvEkRNRLk  855 (1666)
T KOG0985|consen  778 DRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDC--SEDFIKNLILSVRGQFPVDELVEEVEKRNRLK  855 (1666)
T ss_pred             cccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCC--cHHHHHHHHHHHhccCChHHHHHHHHhhhhHH
Confidence            4677788877663      256667766665555555555544322  22222             23344456677888


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHH-HH---HHHH-----H-HHc-----------C--------CCC
Q 012365           64 LVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSA-YS---LLDD-----L-KEM-----------N--------LMP  114 (465)
Q Consensus        64 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a-~~---~~~~-----m-~~~-----------~--------~~~  114 (465)
                      .-...++...+.| ..++.++|+|...|...++-.+- .+   .|+.     . .++           |        +..
T Consensus       856 lLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD~elI~vcN  934 (1666)
T KOG0985|consen  856 LLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQCDLELINVCN  934 (1666)
T ss_pred             HHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccCCcHHHHHhcC
Confidence            8888889888888 47999999999988766442221 10   1111     0 111           1        011


Q ss_pred             CHHHHHHHHHHHHhcCC---HHHH--------HHHHHHHHHCCCC--CCHHHHHHHHHhhCChh---HHHHHHHHHHHcC
Q 012365          115 TASMYNAIMAGYFRKKD---VQGA--------LMVLKEMEQANVK--PDSQTFSYLIHNCSNEE---DIIKYYEQLKSAG  178 (465)
Q Consensus       115 ~~~~~~~li~~~~~~g~---~~~a--------~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~---~~~~~~~~~~~~~  178 (465)
                      ....|-...+-+.+..+   |.+.        ..+.++..+.+++  .|+.-.+....++...+   +..++++.+.-..
T Consensus       935 eNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~ 1014 (1666)
T KOG0985|consen  935 ENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDN 1014 (1666)
T ss_pred             chhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCC
Confidence            11223333333333333   2222        2455555544432  23444444444443332   2233333332111


Q ss_pred             --CCCCHHHHHHHH---------------------------HHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHc
Q 012365          179 --GQITKYVFMALI---------------------------NAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALAS  229 (465)
Q Consensus       179 --~~~~~~~~~~l~---------------------------~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  229 (465)
                        +.-+...-|.|+                           ..+..++-+++|..+|+.......    ..+.|+.-   
T Consensus      1015 S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~----A~~VLie~--- 1087 (1666)
T KOG0985|consen 1015 SVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVS----AIQVLIEN--- 1087 (1666)
T ss_pred             cccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHH----HHHHHHHH---
Confidence              111112222222                           233344556666666663222111    12333332   


Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHH
Q 012365          230 HGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLK  309 (465)
Q Consensus       230 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  309 (465)
                      .+..+.|.++-++.      -.+..|+.+..+-.+.|.+.+|.+-|-...+    |..|..++..+.+.|.+++-.+++.
T Consensus      1088 i~~ldRA~efAe~~------n~p~vWsqlakAQL~~~~v~dAieSyikadD----ps~y~eVi~~a~~~~~~edLv~yL~ 1157 (1666)
T KOG0985|consen 1088 IGSLDRAYEFAERC------NEPAVWSQLAKAQLQGGLVKDAIESYIKADD----PSNYLEVIDVASRTGKYEDLVKYLL 1157 (1666)
T ss_pred             hhhHHHHHHHHHhh------CChHHHHHHHHHHHhcCchHHHHHHHHhcCC----cHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            24455555544433      2577889999999999999999887766544    7788899999999999999999998


Q ss_pred             HHHHcccch
Q 012365          310 QLKDKFKDD  318 (465)
Q Consensus       310 ~~~~~~~~~  318 (465)
                      ..+++...+
T Consensus      1158 MaRkk~~E~ 1166 (1666)
T KOG0985|consen 1158 MARKKVREP 1166 (1666)
T ss_pred             HHHHhhcCc
Confidence            877754443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.38  E-value=0.00014  Score=60.12  Aligned_cols=158  Identities=13%  Similarity=0.090  Sum_probs=106.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 012365           50 NSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRK  129 (465)
Q Consensus        50 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  129 (465)
                      ..+-..+.-.|+-+....+........ +.|....+..+....+.|++..|...|.+..... ++|...|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            556666777788888887777654432 4566777778888899999999999999887665 78899999999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 012365          130 KDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA  209 (465)
Q Consensus       130 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  209 (465)
                      |+.++|..-|.+..+..  |+                               ++..++.+.-.+.-.|+.+.|..++...
T Consensus       148 Gr~~~Ar~ay~qAl~L~--~~-------------------------------~p~~~nNlgms~~L~gd~~~A~~lll~a  194 (257)
T COG5010         148 GRFDEARRAYRQALELA--PN-------------------------------EPSIANNLGMSLLLRGDLEDAETLLLPA  194 (257)
T ss_pred             cChhHHHHHHHHHHHhc--cC-------------------------------CchhhhhHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998887642  21                               2334444444455556666666666553


Q ss_pred             cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHH
Q 012365          210 EIPVKSRSEVKSALVSALASHGRTSDAIIVYEE  242 (465)
Q Consensus       210 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  242 (465)
                      ...+..+..+-..+.......|+++.|.++...
T Consensus       195 ~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         195 YLSPAADSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             HhCCCCchHHHHHHHHHHhhcCChHHHHhhccc
Confidence            333333333344455555556666666555443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.37  E-value=5.8e-07  Score=50.33  Aligned_cols=33  Identities=18%  Similarity=0.323  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCC
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVP   44 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p   44 (465)
                      .+||.+|.+|++.|+++.|.++|+.|.+.|++|
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

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.36  E-value=2.3e-05  Score=61.01  Aligned_cols=107  Identities=10%  Similarity=-0.098  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      +..+..+...+...|++++|...|+......+ .+...+..+..++...|++++|...|+...+.+ +.+...+..+..+
T Consensus        24 p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~  101 (144)
T PRK15359         24 PETVYASGYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVC  101 (144)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence            33456677888899999999999999988753 378888999999999999999999999999876 6688999999999


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYN  120 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  120 (465)
                      +.+.|++++|...|+...... +.+...|.
T Consensus       102 l~~~g~~~eAi~~~~~Al~~~-p~~~~~~~  130 (144)
T PRK15359        102 LKMMGEPGLAREAFQTAIKMS-YADASWSE  130 (144)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            999999999999999988764 33344443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.35  E-value=0.0035  Score=65.62  Aligned_cols=369  Identities=10%  Similarity=-0.044  Sum_probs=170.3

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHh
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMVQGELVPS-TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNV   92 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~   92 (465)
                      +......+...|++.+|.......   +..+. ..............|++..+...++.+.......++.........+.
T Consensus       344 h~raa~~~~~~g~~~~Al~~a~~a---~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~  420 (903)
T PRK04841        344 HRAAAEAWLAQGFPSEAIHHALAA---GDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQ  420 (903)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC---CCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHH
Confidence            444455566677777666544332   11100 01111122234445666666666655422111112222233344445


Q ss_pred             ccCCHHHHHHHHHHHHHcC--C----CCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHH-
Q 012365           93 KIKDFDSAYSLLDDLKEMN--L----MPTA--SMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS----QTFSYLIH-  159 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~--~----~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~-  159 (465)
                      ..|+++++..++......-  .    .+..  .....+...+...|++++|...+++..+.--..+.    ...+.+-. 
T Consensus       421 ~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~  500 (903)
T PRK04841        421 SQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEV  500 (903)
T ss_pred             HCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHH
Confidence            5677777777766554320  0    0111  11122233445677777777777766542111111    11111111 


Q ss_pred             --hhCChhHHHHHHHHHHH----cCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHh----c-CCC--CC-hHHHHHHHH
Q 012365          160 --NCSNEEDIIKYYEQLKS----AGGQ-ITKYVFMALINAYTTCGEFEKARQVVLDA----E-IPV--KS-RSEVKSALV  224 (465)
Q Consensus       160 --~~~~~~~~~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~-~~~--~~-~~~~~~~l~  224 (465)
                        ..++.+.+...++....    .|.. ....+...+...+...|+++.|...+++.    . ...  .+ ....+..+.
T Consensus       501 ~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  580 (903)
T PRK04841        501 HHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRA  580 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHH
Confidence              13344444444443332    1211 11223444555667777777777776541    1 111  11 111233445


Q ss_pred             HHHHcCCChhHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHHcCC----CCCccchh----hHh
Q 012365          225 SALASHGRTSDAIIVYEEIKEA--GCNLE--PRAVIALIEHLNSEGELNRLIQLLEEVHDP----DYWMDGCC----RLI  292 (465)
Q Consensus       225 ~~~~~~g~~~~a~~~~~~m~~~--~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~----~~~  292 (465)
                      ..+...|++++|...+.+....  ...+.  ...+..+.......|+.+.|...+......    +.......    ...
T Consensus       581 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~  660 (903)
T PRK04841        581 QLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRL  660 (903)
T ss_pred             HHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHH
Confidence            5566667777777777665432  11121  223344455666777777777776665321    11100000    112


Q ss_pred             hHhhhcCChhHHHHHHHHHHHcccchhHHH---HHHHHHHHHhhhcCCCCchhhhHHhHHHHHh---hcCCCCc-HHHHH
Q 012365          293 LHCVRFKQLSSATDLLKQLKDKFKDDEMAM---EYHFSEIFCQIATTDPPDVQIGLDLLQFIKD---ELGLPPS-RKCLD  365 (465)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~---~~~~~p~-~~~~~  365 (465)
                      ..+...|+.+.|...+..............   ...+..++..     .|+.++|...+++...   ..+..++ ..+..
T Consensus       661 ~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~-----~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~  735 (903)
T PRK04841        661 IYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL-----LGQFDEAEIILEELNENARSLRLMSDLNRNLI  735 (903)
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH-----cCCHHHHHHHHHHHHHHHHHhCchHHHHHHHH
Confidence            333456677777777655443111111110   1111111111     3677777777666543   2333332 23455


Q ss_pred             HHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          366 FLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       366 ~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      .+..++...|+.++|...+.+..+.
T Consensus       736 ~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        736 LLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5566677778888888887777765

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.34  E-value=3.6e-05  Score=63.49  Aligned_cols=129  Identities=13%  Similarity=0.051  Sum_probs=83.9

Q ss_pred             HHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc
Q 012365           15 KKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI   94 (465)
Q Consensus        15 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~   94 (465)
                      ..+-..+.-.|+-+....+....... .+.|....+...+...+.|++..|...+.+..... ++|..+|+.+--+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            33444555566666666666654432 22355555566777777777777777777776654 66777777777777777


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 012365           95 KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN  146 (465)
Q Consensus        95 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  146 (465)
                      |+++.|..-|.+..+.. +.+....|.+.-.+.-.|+.+.|..++......+
T Consensus       148 Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         148 GRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             cChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            77777777776666543 3455566666667777777777777777766554

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.34  E-value=0.00035  Score=70.61  Aligned_cols=150  Identities=13%  Similarity=0.092  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcC
Q 012365           99 SAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAG  178 (465)
Q Consensus        99 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~  178 (465)
                      .|.++-..+++.  |.+...|-..|......++.++|.+++++.... +.+...                          
T Consensus      1443 saeDferlvrss--PNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REe-------------------------- 1493 (1710)
T KOG1070|consen 1443 SAEDFERLVRSS--PNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREE-------------------------- 1493 (1710)
T ss_pred             CHHHHHHHHhcC--CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchh--------------------------
Confidence            444444444432  455678888899999999999999999887643 211100                          


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365          179 GQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIAL  258 (465)
Q Consensus       179 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  258 (465)
                       .--..+|.++++.-..-|.-+...++|++...-..+. ..|..|...|.+.+.+++|.++++.|.++-- -....|...
T Consensus      1494 -eEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~-~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y 1570 (1710)
T KOG1070|consen 1494 -EEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAY-TVHLKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMY 1570 (1710)
T ss_pred             -HHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchH-HHHHHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHH
Confidence             0012345555555555566666777777633322222 2477778888888888888888888776521 356677777


Q ss_pred             HHHHHccCcHHHHHHHHHHHcC
Q 012365          259 IEHLNSEGELNRLIQLLEEVHD  280 (465)
Q Consensus       259 l~~~~~~g~~~~a~~~~~~~~~  280 (465)
                      +..+.+..+-+.|..++.+..+
T Consensus      1571 ~~fLl~~ne~~aa~~lL~rAL~ 1592 (1710)
T KOG1070|consen 1571 ADFLLRQNEAEAARELLKRALK 1592 (1710)
T ss_pred             HHHHhcccHHHHHHHHHHHHHh
Confidence            7777777777777777777654

>PLN02789 farnesyltranstransferase

Probab=98.34  E-value=0.00022  Score=63.40  Aligned_cols=233  Identities=10%  Similarity=0.002  Sum_probs=147.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 012365          188 ALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHG-RTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSE  265 (465)
Q Consensus       188 ~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  265 (465)
                      .+-..+...++.++|+.+..+. ...+... .+|+.--..+...| .+++++..++++...+.+ +..+|+.--..+.+.
T Consensus        42 ~~ra~l~~~e~serAL~lt~~aI~lnP~~y-taW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l  119 (320)
T PLN02789         42 YFRAVYASDERSPRALDLTADVIRLNPGNY-TVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKL  119 (320)
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHCchhH-HHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHc
Confidence            3344455667788888888773 3344333 34666666666666 578999999988887632 334454443344445


Q ss_pred             Cc--HHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhc-C-CCCc
Q 012365          266 GE--LNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIAT-T-DPPD  340 (465)
Q Consensus       266 g~--~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~-~~~~  340 (465)
                      |+  .+++..+++.+.+.+.. ..++......+...|.++++++.++++.+..+.+...|+.....+... .. . ....
T Consensus       120 ~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~-~~l~~~~~~  198 (320)
T PLN02789        120 GPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRS-PLLGGLEAM  198 (320)
T ss_pred             CchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhc-ccccccccc
Confidence            54  36678888777665433 445666666666778899999999999987777777776654332221 00 0 0112


Q ss_pred             hhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhh----hhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC-----
Q 012365          341 VQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNA----RDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASG-----  410 (465)
Q Consensus       341 ~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~----g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g-----  410 (465)
                      .++.++...++.   ...| |...|+.+...+...    +...+|.+.+.+..+.+ +.++..+..|++.|+...     
T Consensus       199 ~e~el~y~~~aI---~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~  274 (320)
T PLN02789        199 RDSELKYTIDAI---LANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAE  274 (320)
T ss_pred             HHHHHHHHHHHH---HhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchh
Confidence            345667776666   3445 566777777777663    44567888888877753 567778999999998643     


Q ss_pred             -------------ChhhHHHHHhccCCCCC
Q 012365          411 -------------NRKSASKLLSKMPKDDP  427 (465)
Q Consensus       411 -------------~~~~A~~~~~~m~~~~~  427 (465)
                                   ..++|.++++.+.+-+|
T Consensus       275 ~~~~~~~~~~~~~~~~~a~~~~~~l~~~d~  304 (320)
T PLN02789        275 FRDTVDTLAEELSDSTLAQAVCSELEVADP  304 (320)
T ss_pred             hhhhhhccccccccHHHHHHHHHHHHhhCc
Confidence                         23557777776654444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.32  E-value=0.0011  Score=60.04  Aligned_cols=124  Identities=14%  Similarity=0.042  Sum_probs=94.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365          182 TKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEH  261 (465)
Q Consensus       182 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  261 (465)
                      |+.......+.+.+.|+.++|.+.++......+.....+-.+..+|.+.|++.+|+.+++...... +-|+..|..|.++
T Consensus       339 N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqa  417 (484)
T COG4783         339 NPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQA  417 (484)
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHH
Confidence            445555667888999999999999988433333323346778899999999999999999988775 3478899999999


Q ss_pred             HHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHH
Q 012365          262 LNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAM  322 (465)
Q Consensus       262 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  322 (465)
                      |...|+..++..-..+..                ...|+++.|...+....+....+...|
T Consensus       418 y~~~g~~~~a~~A~AE~~----------------~~~G~~~~A~~~l~~A~~~~~~~~~~~  462 (484)
T COG4783         418 YAELGNRAEALLARAEGY----------------ALAGRLEQAIIFLMRASQQVKLGFPDW  462 (484)
T ss_pred             HHHhCchHHHHHHHHHHH----------------HhCCCHHHHHHHHHHHHHhccCCcHHH
Confidence            999999988877665543                368899999999888887544444443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.32  E-value=0.0038  Score=60.17  Aligned_cols=391  Identities=12%  Similarity=0.084  Sum_probs=192.0

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh----------CC---------CCCCH
Q 012365           21 SCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICH----------HN---------LKPNS   81 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----------~~---------~~~~~   81 (465)
                      |-..|.+++|+++-+.=.+-.   =..||..-..-+...++.+.|++.|++...          ..         -..|.
T Consensus       836 yQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~  912 (1416)
T KOG3617|consen  836 YQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDE  912 (1416)
T ss_pred             HHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccch
Confidence            333455555555544322211   124666666666677788888877765321          11         02244


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHc----------C----------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365           82 ETFRSMISLNVKIKDFDSAYSLLDDLKEM----------N----------LMPTASMYNAIMAGYFRKKDVQGALMVLKE  141 (465)
Q Consensus        82 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----------~----------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  141 (465)
                      ..|......+-..|+.+.|+.+|...++.          |          -.-|....-.|.+.|-..|++.+|..+|.+
T Consensus       913 ~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTr  992 (1416)
T KOG3617|consen  913 SLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTR  992 (1416)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            55555556566678888888877765542          0          122444555677777777788888777776


Q ss_pred             HHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHH-----------HHHHHHHHHHhcCCHHHHHHHHHH--
Q 012365          142 MEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKY-----------VFMALINAYTTCGEFEKARQVVLD--  208 (465)
Q Consensus       142 m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~a~~~~~~--  208 (465)
                      .+         +|...|+.|...+--++++......+.. |..           -..-.+..|-+.|.+.+|+++--+  
T Consensus       993 Aq---------afsnAIRlcKEnd~~d~L~nlal~s~~~-d~v~aArYyEe~g~~~~~AVmLYHkAGm~~kALelAF~tq 1062 (1416)
T KOG3617|consen  993 AQ---------AFSNAIRLCKENDMKDRLANLALMSGGS-DLVSAARYYEELGGYAHKAVMLYHKAGMIGKALELAFRTQ 1062 (1416)
T ss_pred             HH---------HHHHHHHHHHhcCHHHHHHHHHhhcCch-hHHHHHHHHHHcchhhhHHHHHHHhhcchHHHHHHHHhhc
Confidence            54         3444454444433333333322222211 100           011234457778888877776311  


Q ss_pred             ---------hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHH----------cC----------------CCCCHH
Q 012365          209 ---------AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKE----------AG----------------CNLEPR  253 (465)
Q Consensus       209 ---------~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~----------~~----------------~~p~~~  253 (465)
                               ....+..+....+.-..-++.+.++++|..++-..++          +|                -.|+..
T Consensus      1063 Qf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~ 1142 (1416)
T KOG3617|consen 1063 QFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQ 1142 (1416)
T ss_pred             ccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHH
Confidence                     1223333333345555566666677776665432211          11                123333


Q ss_pred             ----HHHHHHHHHHccCcHHHHHHHHHHH----------cCCCCC--ccch---------hhHhhHhhhcCChhHHHHHH
Q 012365          254 ----AVIALIEHLNSEGELNRLIQLLEEV----------HDPDYW--MDGC---------CRLILHCVRFKQLSSATDLL  308 (465)
Q Consensus       254 ----~~~~ll~~~~~~g~~~~a~~~~~~~----------~~~~~~--~~~~---------~~~~~~~~~~~~~~~a~~~~  308 (465)
                          ....+...|.+.|.+..|-+=|.+.          .+.|-.  +..+         ..+..-|.+.-++..--+++
T Consensus      1143 ~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdKl~AMraLLKSGdt~KI~FFAn~sRqkEiYImAANyLQtlDWq~~pq~m 1222 (1416)
T KOG3617|consen 1143 ERKQVLEQVAELCLQQGAYHAATKKFTQAGDKLSAMRALLKSGDTQKIRFFANTSRQKEIYIMAANYLQTLDWQDNPQTM 1222 (1416)
T ss_pred             HHHHHHHHHHHHHHhccchHHHHHHHhhhhhHHHHHHHHHhcCCcceEEEEeeccccceeeeehhhhhhhcccccChHHH
Confidence                3445567778888877665554432          222211  1111         11222233333444333333


Q ss_pred             HHHHHcccchhHHHHHHHHHHHHhhhcCC----------CCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhh---
Q 012365          309 KQLKDKFKDDEMAMEYHFSEIFCQIATTD----------PPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNAR---  375 (465)
Q Consensus       309 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----------~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g---  375 (465)
                      +.+..-... .. ..-.+..++..++..+          .|-.++|-..+.+.. +..  .....++.|-.-..+-.   
T Consensus      1223 K~I~tFYTK-gq-afd~LanFY~~cAqiEiee~q~ydKa~gAl~eA~kCl~ka~-~k~--~~~t~l~~Lq~~~a~vk~~l 1297 (1416)
T KOG3617|consen 1223 KDIETFYTK-GQ-AFDHLANFYKSCAQIEIEELQTYDKAMGALEEAAKCLLKAE-QKN--MSTTGLDALQEDLAKVKVQL 1297 (1416)
T ss_pred             hhhHhhhhc-ch-hHHHHHHHHHHHHHhhHHHHhhhhHHhHHHHHHHHHHHHHH-hhc--chHHHHHHHHHHHHHHHHHH
Confidence            333321000 00 0112223333333221          233444444444444 111  22223333332222221   


Q ss_pred             --------hhhHHHHHHHHHHHcCCCCC----hhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          376 --------DLKRAHLIWKEYENAGLPYN----VLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       376 --------~~~~A~~~~~~m~~~g~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                              |......-.+.|.+...-||    ...|..||..|.+..+|..|-+.+++|.++.|.|
T Consensus      1298 ~~~q~~~eD~~~~i~qc~~lleep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k~p~~ 1363 (1416)
T KOG3617|consen 1298 RKLQIMKEDAADGIRQCTTLLEEPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKKVPNV 1363 (1416)
T ss_pred             HHHHHhhhhHHHHHHHHHHHhhCcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhcCCcc
Confidence                    33333333444444322332    2478999999999999999999999999998865

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.32  E-value=1.3e-06  Score=49.26  Aligned_cols=33  Identities=33%  Similarity=0.629  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 012365          118 MYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD  150 (465)
Q Consensus       118 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  150 (465)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777776

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.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.30  E-value=0.00014  Score=60.16  Aligned_cols=222  Identities=17%  Similarity=0.122  Sum_probs=142.8

Q ss_pred             HHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHH
Q 012365          191 NAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNR  270 (465)
Q Consensus       191 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  270 (465)
                      +-+.-.|.+..++..-....... .....-.-+-++|...|.+.....-   ..... .|....+..+-......++.++
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~-~~~e~d~y~~raylAlg~~~~~~~e---I~~~~-~~~lqAvr~~a~~~~~e~~~~~   90 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSK-TDVELDVYMYRAYLALGQYQIVISE---IKEGK-ATPLQAVRLLAEYLELESNKKS   90 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhcccc-chhHHHHHHHHHHHHcccccccccc---ccccc-CChHHHHHHHHHHhhCcchhHH
Confidence            44556677777777665422221 2222334467788888877655532   22222 3455555555555555666555


Q ss_pred             HHHHH-HHHcCCCCCcc-ch-hhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHh
Q 012365          271 LIQLL-EEVHDPDYWMD-GC-CRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDL  347 (465)
Q Consensus       271 a~~~~-~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~  347 (465)
                      -..-+ +.+.......+ .+ ......|+..+++++|++.......   -.....+..+.  +.      ..+.+.|.+.
T Consensus        91 ~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~---lE~~Al~VqI~--lk------~~r~d~A~~~  159 (299)
T KOG3081|consen   91 ILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGEN---LEAAALNVQIL--LK------MHRFDLAEKE  159 (299)
T ss_pred             HHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccch---HHHHHHHHHHH--HH------HHHHHHHHHH
Confidence            44433 34443333333 22 2233457899999999999876322   22222222221  12      2678999999


Q ss_pred             HHHHHhhcCCCCcHHHHHHHHHHhHh----hhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          348 LQFIKDELGLPPSRKCLDFLLGACVN----ARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       348 ~~~m~~~~~~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      ++.|.   .+ .+..|.+.|..++.+    .+.+.+|.-+|++|-++ .+|++.+.+-...++...|++++|..++++.+
T Consensus       160 lk~mq---~i-ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL  234 (299)
T KOG3081|consen  160 LKKMQ---QI-DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEAL  234 (299)
T ss_pred             HHHHH---cc-chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHH
Confidence            99998   32 345566666666554    46789999999999986 79999999999999999999999999999999


Q ss_pred             CCCCChhHHH
Q 012365          424 KDDPHVRFVI  433 (465)
Q Consensus       424 ~~~~~~~~~l  433 (465)
                      .+++.++..|
T Consensus       235 ~kd~~dpetL  244 (299)
T KOG3081|consen  235 DKDAKDPETL  244 (299)
T ss_pred             hccCCCHHHH
Confidence            9988754433

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.29  E-value=1.4e-06  Score=48.71  Aligned_cols=33  Identities=33%  Similarity=0.569  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 012365          117 SMYNAIMAGYFRKKDVQGALMVLKEMEQANVKP  149 (465)
Q Consensus       117 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  149 (465)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            356666666666666666666666666666655

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.28  E-value=0.00077  Score=63.77  Aligned_cols=219  Identities=16%  Similarity=0.108  Sum_probs=164.9

Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 012365           77 LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSY  156 (465)
Q Consensus        77 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  156 (465)
                      ++|-...-..+...+...|-...|..+|+++.         .|.-+|.+|...|+..+|..+..+-.+  -+||...|..
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~  462 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCL  462 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHH
Confidence            34555566677788889999999999998776         477789999999999999999988877  3688888888


Q ss_pred             HHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhH
Q 012365          157 LIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSD  235 (465)
Q Consensus       157 ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~  235 (465)
                      +.+...+..-.++.++.-...    +...-..+.....+.++++++.+.|+. +.+.+-... +|-..-.+..+.++++.
T Consensus       463 LGDv~~d~s~yEkawElsn~~----sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~-~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYI----SARAQRSLALLILSNKDFSEADKHLERSLEINPLQLG-TWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhh----hHHHHHhhccccccchhHHHHHHHHHHHhhcCccchh-HHHhccHHHHHHhhhHH
Confidence            877766654444444433322    122222222333457899999999987 555554444 58788888889999999


Q ss_pred             HHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          236 AIIVYEEIKEAGCNLE-PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       236 a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      |.+.|..-..-.  || ...|+.+-.+|.+.++-.+|...+++..+.+.. +..+-..+......|.+++|++.+.++..
T Consensus       538 av~aF~rcvtL~--Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  538 AVKAFHRCVTLE--PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHHHhhcC--CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            999999887744  66 456999999999999999999999999887743 34455555556689999999999998876

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.27  E-value=0.00035  Score=64.20  Aligned_cols=216  Identities=12%  Similarity=0.005  Sum_probs=155.4

Q ss_pred             HHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHH
Q 012365           20 YSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDS   99 (465)
Q Consensus        20 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~   99 (465)
                      -+.+.|++.+|.-.|+...+..+. +...|-.|.......++-..|+..+.+..+.. +-|....-.|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            456789999999999999887654 78899999888889999999999999999876 5578888888889999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHH-----------HHHHhcCCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHhh---CCh
Q 012365          100 AYSLLDDLKEMNLMPTASMYNAIM-----------AGYFRKKDVQGALMVLKEME-QANVKPDSQTFSYLIHNC---SNE  164 (465)
Q Consensus       100 a~~~~~~m~~~~~~~~~~~~~~li-----------~~~~~~g~~~~a~~~~~~m~-~~~~~p~~~~~~~ll~~~---~~~  164 (465)
                      |.+.++...... +|    |..+.           ..+.....+....++|-++. +.+..+|......|=-.|   ...
T Consensus       372 Al~~L~~Wi~~~-p~----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~ef  446 (579)
T KOG1125|consen  372 ALKMLDKWIRNK-PK----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEF  446 (579)
T ss_pred             HHHHHHHHHHhC-cc----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHH
Confidence            999999876542 11    11111           12233334556666776665 455334444433333333   344


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHH
Q 012365          165 EDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEI  243 (465)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  243 (465)
                      +++...|+..+... +-|..+||-|-..+....+.++|+..|.+ +...|.-.. ++..|.-+|...|.+++|.+.|-..
T Consensus       447 draiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR-~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  447 DRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVR-VRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeee-eehhhhhhhhhhhhHHHHHHHHHHH
Confidence            55555666666554 33678999999999999999999999998 444444333 3455777889999999999988765


Q ss_pred             H
Q 012365          244 K  244 (465)
Q Consensus       244 ~  244 (465)
                      .
T Consensus       525 L  525 (579)
T KOG1125|consen  525 L  525 (579)
T ss_pred             H
Confidence            4

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.27  E-value=6e-05  Score=58.26  Aligned_cols=116  Identities=9%  Similarity=0.103  Sum_probs=79.7

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCC
Q 012365           33 VVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNL  112 (465)
Q Consensus        33 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  112 (465)
                      .|+...+.... +......+...+...|++++|.+.++.+...+ +.+...+..+...+...|++++|...++.....+ 
T Consensus         5 ~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            34444443222 33445556666777788888888888877765 4567777777788888888888888888776654 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 012365          113 MPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQT  153 (465)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  153 (465)
                      +.+...+..+...+...|++++|...|+...+.  .|+...
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~  120 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEI--CGENPE  120 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--ccccch
Confidence            556677777777888888888888888777764  344443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.26  E-value=0.0001  Score=72.27  Aligned_cols=149  Identities=11%  Similarity=-0.019  Sum_probs=120.4

Q ss_pred             CCCCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365            6 EITPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus         6 ~~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      .+..++..+-.|.....+.|++++|+.+++...+..+. +......+..++.+.+++++|....++..+.. +-+.....
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~  158 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREIL  158 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHH
Confidence            35567888888999999999999999999999886332 45667778888999999999999999998876 55678888


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLI  158 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  158 (465)
                      .+..++.+.|++++|..+|++....+ +-+..++..+..++...|+.++|...|+...+.. .|...-|+..+
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~  229 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH
Confidence            88889999999999999999998743 4457888899999999999999999999987642 23344444443

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.24  E-value=0.001  Score=66.34  Aligned_cols=150  Identities=16%  Similarity=0.117  Sum_probs=87.7

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcC
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFK  299 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (465)
                      +..+..+|-+.|+.++|..+|+++.+.. +-|+...+.+.-.|+.. ++++|.+++.+....             +...+
T Consensus       119 l~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~-------------~i~~k  183 (906)
T PRK14720        119 LRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR-------------FIKKK  183 (906)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH-------------HHhhh
Confidence            4456666666666666666666666655 22455566666666666 666666666655432             23455


Q ss_pred             ChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhH
Q 012365          300 QLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKR  379 (465)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~  379 (465)
                      ++..+.++|.++....+.                      +++.-.++.+.+....+..--..++-.+-..|...+++++
T Consensus       184 q~~~~~e~W~k~~~~~~~----------------------d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~  241 (906)
T PRK14720        184 QYVGIEEIWSKLVHYNSD----------------------DFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDE  241 (906)
T ss_pred             cchHHHHHHHHHHhcCcc----------------------cchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhH
Confidence            667777777766662222                      2222222333333122333344455566666777778888


Q ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 012365          380 AHLIWKEYENAGLPYNVLSYLWMYKAFL  407 (465)
Q Consensus       380 A~~~~~~m~~~g~~p~~~~~~~l~~~~~  407 (465)
                      +..+++.+.+.. +-|......++..|.
T Consensus       242 ~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        242 VIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            888888888763 556667777777665

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.21  E-value=3.4e-05  Score=70.18  Aligned_cols=132  Identities=14%  Similarity=0.192  Sum_probs=109.8

Q ss_pred             HHHHHHh---CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 012365           33 VVEQMVQ---GELVPSTETINSILHACEESYEFNLVRRIYPMICHH--NLKPNSETFRSMISLNVKIKDFDSAYSLLDDL  107 (465)
Q Consensus        33 ~~~~m~~---~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  107 (465)
                      ++..|.+   ++.+.+...+..+++.+....+++.+..++-.....  ....-+.|..++|+.|...|..+.+..+++.=
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~  129 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNR  129 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhCh
Confidence            4444432   445667888888899998888899999998888764  22233456679999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCCh
Q 012365          108 KEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNE  164 (465)
Q Consensus       108 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  164 (465)
                      ...|+-||..++|.||..+.+.|++..|.++..+|...+...+..|+...+.+|.+.
T Consensus       130 ~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  130 LQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999887777888888888776555

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 [].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.21  E-value=0.00059  Score=56.14  Aligned_cols=198  Identities=12%  Similarity=0.067  Sum_probs=134.0

Q ss_pred             CChhHHHHHHHHHHHc---C-CCCCHHH-HHHHHHHHHccCcHHHHHHHHHHHcCCCCCccch---hhHhhHhhhcCChh
Q 012365          231 GRTSDAIIVYEEIKEA---G-CNLEPRA-VIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGC---CRLILHCVRFKQLS  302 (465)
Q Consensus       231 g~~~~a~~~~~~m~~~---~-~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~  302 (465)
                      .+.++..+++.++...   | ..++..+ |-.++-+....|+.+-|...++++.+.-  |.+.   -.-.+.+-..|+++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchh
Confidence            4566666666666532   3 4455554 4455666677788888888888776543  2221   11122334678889


Q ss_pred             HHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHH
Q 012365          303 SATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHL  382 (465)
Q Consensus       303 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~  382 (465)
                      +|+++++.+.+..+.+..++-.-+...-.      .|..-+|++-+..-.  ..+..|...|.-+...|...|++++|.-
T Consensus       104 ~A~e~y~~lL~ddpt~~v~~KRKlAilka------~GK~l~aIk~ln~YL--~~F~~D~EAW~eLaeiY~~~~~f~kA~f  175 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPTDTVIRKRKLAILKA------QGKNLEAIKELNEYL--DKFMNDQEAWHELAEIYLSEGDFEKAAF  175 (289)
T ss_pred             hHHHHHHHHhccCcchhHHHHHHHHHHHH------cCCcHHHHHHHHHHH--HHhcCcHHHHHHHHHHHHhHhHHHHHHH
Confidence            99999998888655555554433332222      366667777666655  3566789999999999999999999999


Q ss_pred             HHHHHHHcCCCCChhHHHHHHHHHHhcC---ChhhHHHHHhccCCCCCC-hhHHHHHHHhh
Q 012365          383 IWKEYENAGLPYNVLSYLWMYKAFLASG---NRKSASKLLSKMPKDDPH-VRFVIQACKQT  439 (465)
Q Consensus       383 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~m~~~~~~-~~~~l~~~~~~  439 (465)
                      .++++.=. -|.++..+..+...+...|   +.+-|.+++.+.++.++. ..++.+-|..+
T Consensus       176 ClEE~ll~-~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI~lc~  235 (289)
T KOG3060|consen  176 CLEELLLI-QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGIYLCG  235 (289)
T ss_pred             HHHHHHHc-CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHHHHHH
Confidence            99999875 3777777788887765554   567799999999999884 35555554444

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.20  E-value=0.0023  Score=63.95  Aligned_cols=168  Identities=10%  Similarity=0.020  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETIN-SILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      ...+..|+..+...+++++|.++.+...+.  .|+...+- .+...+...++.+.+.-+                 .++.
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~   91 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------NLID   91 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------hhhh
Confidence            456777777777777777777777755553  33332222 222233334443332222                 3334


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK  169 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  169 (465)
                      ......++..+..+...|...+  -+...+..+..+|-+.|+.++|..+++++.+..  |                    
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~--------------------  147 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--R--------------------  147 (906)
T ss_pred             hcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--c--------------------
Confidence            4444444544444555555432  344567777777777888888888887777643  2                    


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  247 (465)
                                 -|..+.|.+...|... ++++|.+++.+              .+..|...+++..+.++|.++....
T Consensus       148 -----------~n~~aLNn~AY~~ae~-dL~KA~~m~~K--------------AV~~~i~~kq~~~~~e~W~k~~~~~  199 (906)
T PRK14720        148 -----------DNPEIVKKLATSYEEE-DKEKAITYLKK--------------AIYRFIKKKQYVGIEEIWSKLVHYN  199 (906)
T ss_pred             -----------ccHHHHHHHHHHHHHh-hHHHHHHHHHH--------------HHHHHHhhhcchHHHHHHHHHHhcC
Confidence                       2556666677777777 78888777653              2223555567777777777776654

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.18  E-value=9.8e-05  Score=66.93  Aligned_cols=126  Identities=14%  Similarity=0.173  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      ..-..|+..+...++++.|+++|+++.+..  |+.  ...+++.+...++-.+|.+++.+..+.. +.+......-...+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            444556667777899999999999998875  453  4457788888888999999999988764 55777888888889


Q ss_pred             hccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365           92 VKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                      .+.++.+.|..+.++..... |-+-.+|..|..+|.+.|+++.|+-.++.+.
T Consensus       245 l~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999998763 3345599999999999999999999998875

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.18  E-value=0.0054  Score=56.29  Aligned_cols=404  Identities=13%  Similarity=0.124  Sum_probs=208.8

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      +-|+.+|+.||+-+-.. .++++.+.++++... .+-....|..-+..-...++++.++.+|.+.+..-  .+...|..-
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~lY   92 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHHH
Confidence            34789999999988766 999999999999874 34466788888999889999999999999998764  467777777


Q ss_pred             HHHHhcc-CCHHH----HHHHHHH-HHHcCCCC-CHHHHHHHHHHH---------HhcCCHHHHHHHHHHHHHCCCCC--
Q 012365           88 ISLNVKI-KDFDS----AYSLLDD-LKEMNLMP-TASMYNAIMAGY---------FRKKDVQGALMVLKEMEQANVKP--  149 (465)
Q Consensus        88 i~~~~~~-g~~~~----a~~~~~~-m~~~~~~~-~~~~~~~li~~~---------~~~g~~~~a~~~~~~m~~~~~~p--  149 (465)
                      |+.--+. |+...    ..+.|+- +.+.|..+ +...|+..+..+         ..+.+++...++|.++....+.-  
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlE  172 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLE  172 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHH
Confidence            7643332 22222    2223332 23334322 223355444332         23345566677777776432211  


Q ss_pred             ----CHHHHHHHHHhh-C------Ch---hHHHHHHHHHHH--cCCCCCHH---------------HHHHHHHHHHhcC-
Q 012365          150 ----DSQTFSYLIHNC-S------NE---EDIIKYYEQLKS--AGGQITKY---------------VFMALINAYTTCG-  197 (465)
Q Consensus       150 ----~~~~~~~ll~~~-~------~~---~~~~~~~~~~~~--~~~~~~~~---------------~~~~l~~~~~~~g-  197 (465)
                          |-..|..-|+.. +      +.   -.+.++++++..  .|......               .|-.+|.-=-..+ 
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL  252 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCc
Confidence                111121111110 0      00   112222222221  12111110               1111221110000 


Q ss_pred             -----CHHH--HHHHHHH-h-cCCCCChHHH-HHH----HHHHHHcCCC-------hhHHHHHHHHHHHcCCCCCHHHHH
Q 012365          198 -----EFEK--ARQVVLD-A-EIPVKSRSEV-KSA----LVSALASHGR-------TSDAIIVYEEIKEAGCNLEPRAVI  256 (465)
Q Consensus       198 -----~~~~--a~~~~~~-~-~~~~~~~~~~-~~~----l~~~~~~~g~-------~~~a~~~~~~m~~~~~~p~~~~~~  256 (465)
                           ..-.  ..-.+++ + -....+..-. +..    .-+.+...|+       .+++..+++.....-..-+..+|.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 0000  0000111 0 0011111000 000    0111222233       233444444433322222223332


Q ss_pred             HHHHHH---HccCcHHHHHHHHHHHcCCC-CCcc-chhhHhhHhhhcCChhHHHHHHHHHHHc-ccchhHHHHHHHHHHH
Q 012365          257 ALIEHL---NSEGELNRLIQLLEEVHDPD-YWMD-GCCRLILHCVRFKQLSSATDLLKQLKDK-FKDDEMAMEYHFSEIF  330 (465)
Q Consensus       257 ~ll~~~---~~~g~~~~a~~~~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  330 (465)
                      .+..-=   .+..+.+....+++.+.... ..++ .|...+.+-.+......|..+|.+.++. ..+..+...+.+.+++
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~  412 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYY  412 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHH
Confidence            222111   11112445555555554322 2233 3455666666778888889999888883 3332333333444445


Q ss_pred             HhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCCh--hHHHHHHHHHHh
Q 012365          331 CQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNV--LSYLWMYKAFLA  408 (465)
Q Consensus       331 ~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~~  408 (465)
                      +.      ++.+.|.++|+--....|  -++..-...+.-+...++-..|+.+|+.....+++|+.  ..|..++.-=..
T Consensus       413 cs------kD~~~AfrIFeLGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~  484 (656)
T KOG1914|consen  413 CS------KDKETAFRIFELGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESN  484 (656)
T ss_pred             hc------CChhHHHHHHHHHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHh
Confidence            54      888889999887651222  23333356667777888888899999999887666655  488888887778


Q ss_pred             cCChhhHHHHHhccC
Q 012365          409 SGNRKSASKLLSKMP  423 (465)
Q Consensus       409 ~g~~~~A~~~~~~m~  423 (465)
                      -|+...+.++-+++.
T Consensus       485 vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  485 VGDLNSILKLEKRRF  499 (656)
T ss_pred             cccHHHHHHHHHHHH
Confidence            888888888777654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.15  E-value=4.5e-05  Score=54.16  Aligned_cols=76  Identities=16%  Similarity=0.454  Sum_probs=39.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCC-CCCHHHHHHHHHHHhccC--------CHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 012365           53 LHACEESYEFNLVRRIYPMICHHNL-KPNSETFRSMISLNVKIK--------DFDSAYSLLDDLKEMNLMPTASMYNAIM  123 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~~~~~~~~~~~~li  123 (465)
                      |..|...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...++.|+..+|+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3334444555555555555555555 455555555555444331        1234455556666556666666666666


Q ss_pred             HHHHh
Q 012365          124 AGYFR  128 (465)
Q Consensus       124 ~~~~~  128 (465)
                      ..+.+
T Consensus       112 ~~Llk  116 (120)
T PF08579_consen  112 GSLLK  116 (120)
T ss_pred             HHHHH
Confidence            55443

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 [, , ].

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.13  E-value=0.00014  Score=56.17  Aligned_cols=110  Identities=11%  Similarity=0.095  Sum_probs=90.8

Q ss_pred             CCCC-HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365            7 ITPS-SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus         7 ~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      ..|+ ......+...+.+.|++++|.+.|+.....+. .+...+..+..++...|+++.|..+++...+.+ +.+...+.
T Consensus        12 ~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~   89 (135)
T TIGR02552        12 LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDP-YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYF   89 (135)
T ss_pred             CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHH
Confidence            4454 35566677888899999999999999988653 377888888899999999999999999988876 56788888


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYN  120 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  120 (465)
                      .+...+...|+++.|...|+...+..  |+...+.
T Consensus        90 ~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~  122 (135)
T TIGR02552        90 HAAECLLALGEPESALKALDLAIEIC--GENPEYS  122 (135)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhc--cccchHH
Confidence            88999999999999999999988763  5554443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.11  E-value=0.0052  Score=60.51  Aligned_cols=357  Identities=11%  Similarity=0.006  Sum_probs=204.2

Q ss_pred             CHHHHHHHHHHHhhCCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 012365           61 EFNLVRRIYPMICHHNLKPN-SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVL  139 (465)
Q Consensus        61 ~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  139 (465)
                      +...+...|=+..+.  .++ ...|..|...|....+...|.+.|++.-+.+ .-+...+......|+...+++.|..+.
T Consensus       473 ~~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  473 NSALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             hHHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHH
Confidence            455566555554444  333 5688999999998889999999999988765 457788999999999999999999983


Q ss_pred             HHHHHCCCCCCHHHHHHHHHh--hCChhHHHHHHHHHHH-cCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCC
Q 012365          140 KEMEQANVKPDSQTFSYLIHN--CSNEEDIIKYYEQLKS-AGG-QITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKS  215 (465)
Q Consensus       140 ~~m~~~~~~p~~~~~~~ll~~--~~~~~~~~~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  215 (465)
                      -..-+. -+.-...++..-.+  +-+.++..+....++. ..+ +-|...|..+..+|..+|++..|.++|.+...-.+.
T Consensus       550 l~~~qk-a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~  628 (1238)
T KOG1127|consen  550 LRAAQK-APAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPL  628 (1238)
T ss_pred             HHHhhh-chHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcH
Confidence            322221 11122333333333  3334444444444433 122 336788999999999999999999999863322222


Q ss_pred             hHHHHHH--HHHHHHcCCChhHHHHHHHHHHHcC------CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHc-------C
Q 012365          216 RSEVKSA--LVSALASHGRTSDAIIVYEEIKEAG------CNLEPRAVIALIEHLNSEGELNRLIQLLEEVH-------D  280 (465)
Q Consensus       216 ~~~~~~~--l~~~~~~~g~~~~a~~~~~~m~~~~------~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-------~  280 (465)
                      .  +|..  .....+..|.+.+|...+.......      ..--..++..+...+...|-..++..+++.-.       .
T Consensus       629 s--~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~  706 (1238)
T KOG1127|consen  629 S--KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLI  706 (1238)
T ss_pred             h--HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Confidence            2  2332  2234567789999998887765431      11112233333333333333333333333221       1


Q ss_pred             CCCC--------------------cc----chhhHhhH-hhhcCCh---h---HHHHHHHHHHHcccchhHHHHHHHHHH
Q 012365          281 PDYW--------------------MD----GCCRLILH-CVRFKQL---S---SATDLLKQLKDKFKDDEMAMEYHFSEI  329 (465)
Q Consensus       281 ~~~~--------------------~~----~~~~~~~~-~~~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (465)
                      ....                    |+    .+..++.. ....+..   +   -+.+.+-.-. +......+|+.+...+
T Consensus       707 h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl-sl~~~~~~WyNLGiny  785 (1238)
T KOG1127|consen  707 HSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL-SLAIHMYPWYNLGINY  785 (1238)
T ss_pred             HhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH-HHhhccchHHHHhHHH
Confidence            1100                    00    01111111 1111111   1   0111111111 1222356677776666


Q ss_pred             HHhhhcC-CC-CchhhhHHhHHHHHhhcCCC-CcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHH
Q 012365          330 FCQIATT-DP-PDVQIGLDLLQFIKDELGLP-PSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAF  406 (465)
Q Consensus       330 ~~~~~~~-~~-~~~~~A~~~~~~m~~~~~~~-p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  406 (465)
                      +...... +. .+...|+..+.+..   ... .+..+|+.|.-. ...|++.-|...|-+-... .|-...+|..+.-.+
T Consensus       786 lr~f~~l~et~~~~~~Ai~c~KkaV---~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~s-ep~~~~~W~NlgvL~  860 (1238)
T KOG1127|consen  786 LRYFLLLGETMKDACTAIRCCKKAV---SLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFS-EPTCHCQWLNLGVLV  860 (1238)
T ss_pred             HHHHHHcCCcchhHHHHHHHHHHHH---HHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhc-cccchhheeccceeE
Confidence            6633222 22 23346777777766   233 345566665443 6667888887777766655 366677888888888


Q ss_pred             HhcCChhhHHHHHhccCCCCCCh
Q 012365          407 LASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       407 ~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      .+..+++-|...|......+|.+
T Consensus       861 l~n~d~E~A~~af~~~qSLdP~n  883 (1238)
T KOG1127|consen  861 LENQDFEHAEPAFSSVQSLDPLN  883 (1238)
T ss_pred             EecccHHHhhHHHHhhhhcCchh
Confidence            89999999999999988888743

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.11  E-value=5.2e-05  Score=68.96  Aligned_cols=124  Identities=10%  Similarity=0.075  Sum_probs=105.8

Q ss_pred             CCCCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHH
Q 012365            6 EITPSSASYKKLITYSCDLLKVHVALDVVEQMVQG--ELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSET   83 (465)
Q Consensus         6 ~~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   83 (465)
                      +.+.+......++..+....+++.+..++.+.+..  ....-..|.+++++.|...|..+.+..++..=...|+=||..+
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            34557778888999999999999999999999875  2222345667999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 012365           84 FRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRK  129 (465)
Q Consensus        84 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  129 (465)
                      +|.||+.+.+.|++..|.++...|...+...+..|+..-+.+|.+-
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            9999999999999999999999998777777777777777666555

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 [].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.11  E-value=6.3e-05  Score=53.45  Aligned_cols=75  Identities=19%  Similarity=0.317  Sum_probs=40.3

Q ss_pred             HHHHhcccCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365           18 ITYSCDLLKVHVALDVVEQMVQGEL-VPSTETINSILHACEESY--------EFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus        18 i~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      |..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+|+.|...+++|+..+|+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3444444555555556665555555 555556665555544431        2334455555555555556666665555


Q ss_pred             HHHh
Q 012365           89 SLNV   92 (465)
Q Consensus        89 ~~~~   92 (465)
                      ..+.
T Consensus       112 ~~Ll  115 (120)
T PF08579_consen  112 GSLL  115 (120)
T ss_pred             HHHH
Confidence            5443

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 [, , ].

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.10  E-value=0.00099  Score=65.56  Aligned_cols=132  Identities=8%  Similarity=-0.028  Sum_probs=89.1

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 012365           42 LVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNA  121 (465)
Q Consensus        42 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  121 (465)
                      ...+...+..|..+..+.|++++|..+++...+.. +-+......+...+.+.+++++|...+++..+.+ +-+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            34456777777777778888888888888877764 3345666777777888888888888888877764 445566667


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCC-H---HHHHHHHHhhCChhHHHHHHHHHHHc
Q 012365          122 IMAGYFRKKDVQGALMVLKEMEQANVKPD-S---QTFSYLIHNCSNEEDIIKYYEQLKSA  177 (465)
Q Consensus       122 li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~---~~~~~ll~~~~~~~~~~~~~~~~~~~  177 (465)
                      +..++.+.|++++|..+|++....+  |+ .   ..+..++...++.+++...|+...+.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~--p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH--PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7777788888888888888887632  22 2   23444444455555555555555543

>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=98.09  E-value=9.9e-05  Score=59.44  Aligned_cols=75  Identities=20%  Similarity=0.368  Sum_probs=46.9

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----------------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012365           95 KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR----------------KKDVQGALMVLKEMEQANVKPDSQTFSYLI  158 (465)
Q Consensus        95 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----------------~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  158 (465)
                      |..+=....+..|.+.|+..|..+|+.|++.+=+                -.+-+-|++++++|...|+.||..|+..++
T Consensus        66 GHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll  145 (228)
T PF06239_consen   66 GHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLL  145 (228)
T ss_pred             ChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            3344444444444444444444444444444332                123466888888888888888888888888


Q ss_pred             HhhCChhHHHH
Q 012365          159 HNCSNEEDIIK  169 (465)
Q Consensus       159 ~~~~~~~~~~~  169 (465)
                      ..+++.+....
T Consensus       146 ~iFG~~s~p~~  156 (228)
T PF06239_consen  146 NIFGRKSHPMK  156 (228)
T ss_pred             HHhccccHHHH
Confidence            88888766544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.08  E-value=0.00037  Score=54.50  Aligned_cols=128  Identities=13%  Similarity=0.077  Sum_probs=96.8

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH--HHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPST---ETINSILHACEESYEFNLVRRIYPMICHHNLKPNS--ETFR   85 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   85 (465)
                      ...|..++..+. .++...+.+.++.+.+.... +.   ...-.+...+...|++++|...|+.+......|+.  ...-
T Consensus        12 ~~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~~~-s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l   89 (145)
T PF09976_consen   12 SALYEQALQALQ-AGDPAKAEAAAEQLAKDYPS-SPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHHHHH-CCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHH
Confidence            456777888774 89999999999999886433 32   22333446688899999999999999987622322  2444


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEM  142 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  142 (465)
                      .|...+...|++++|...++.....  ......+......+.+.|++++|...|+..
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            5678888999999999999775443  345566778889999999999999999863

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.07  E-value=4.4e-06  Score=45.47  Aligned_cols=30  Identities=27%  Similarity=0.515  Sum_probs=24.8

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCC
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGEL   42 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~   42 (465)
                      +||.+|++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            688888888888888888888888887764

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.04  E-value=0.00025  Score=55.44  Aligned_cols=125  Identities=15%  Similarity=0.109  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChH---HHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCH--HHHHHHH
Q 012365          185 VFMALINAYTTCGEFEKARQVVLDAEIPVKSRS---EVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEP--RAVIALI  259 (465)
Q Consensus       185 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll  259 (465)
                      .|..++..+ ..++...+...++.+....+.+.   ...-.+...+...|++++|...|+........|+.  .....+.
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            444455544 46777777777766433333331   12344567778888888888888888887622221  2333456


Q ss_pred             HHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHH
Q 012365          260 EHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQ  310 (465)
Q Consensus       260 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  310 (465)
                      ..+...|++++|+..++........+.........+.+.|++++|...|+.
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            777888888888888877655455455555666677778888888777765

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.99  E-value=0.00081  Score=60.72  Aligned_cols=124  Identities=17%  Similarity=0.061  Sum_probs=92.2

Q ss_pred             hhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc-HHHHHHHHHHhHhh
Q 012365          296 VRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS-RKCLDFLLGACVNA  374 (465)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~  374 (465)
                      ...+++++|+..++.+.... |++..+..+....+..     .++..+|.+.++++.   ...|+ ....-.+..++.+.
T Consensus       317 ~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~-----~nk~~~A~e~~~kal---~l~P~~~~l~~~~a~all~~  387 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLE-----ANKAKEAIERLKKAL---ALDPNSPLLQLNLAQALLKG  387 (484)
T ss_pred             HHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHH-----cCChHHHHHHHHHHH---hcCCCccHHHHHHHHHHHhc
Confidence            37888999999999877743 4444444444443333     488999999999988   55666 45556677888899


Q ss_pred             hhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          375 RDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       375 g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      |++.+|..+++..... .|.|+..|..|..+|...|+..+|..-.-+.....-.|
T Consensus       388 g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~  441 (484)
T COG4783         388 GKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRL  441 (484)
T ss_pred             CChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCH
Confidence            9999999999888876 58888899999999988888887777666665544444

>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=97.99  E-value=0.0003  Score=63.86  Aligned_cols=84  Identities=14%  Similarity=0.131  Sum_probs=62.0

Q ss_pred             CchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHH
Q 012365          339 PDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKL  418 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  418 (465)
                      ++-.+|.+++++.. + ..+-+...+..-...|.+.++++.|+.+.+++.+. .|.+..+|..|..+|...|++++|+..
T Consensus       214 ~~E~~AI~ll~~aL-~-~~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l-sP~~f~~W~~La~~Yi~~~d~e~ALla  290 (395)
T PF09295_consen  214 NEEVEAIRLLNEAL-K-ENPQDSELLNLQAEFLLSKKKYELALEIAKKAVEL-SPSEFETWYQLAECYIQLGDFENALLA  290 (395)
T ss_pred             CcHHHHHHHHHHHH-H-hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-CchhHHHHHHHHHHHHhcCCHHHHHHH
Confidence            44455666665555 1 12224555555566678889999999999999987 366666999999999999999999999


Q ss_pred             HhccCCC
Q 012365          419 LSKMPKD  425 (465)
Q Consensus       419 ~~~m~~~  425 (465)
                      ++.++..
T Consensus       291 LNs~Pm~  297 (395)
T PF09295_consen  291 LNSCPML  297 (395)
T ss_pred             HhcCcCC
Confidence            9988754

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.99  E-value=0.0031  Score=61.23  Aligned_cols=64  Identities=6%  Similarity=-0.106  Sum_probs=36.6

Q ss_pred             HhHhhhhhhHHHHHH-HHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC-hhHHH
Q 012365          370 ACVNARDLKRAHLIW-KEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH-VRFVI  433 (465)
Q Consensus       370 ~~~~~g~~~~A~~~~-~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~-~~~~l  433 (465)
                      .+...|++++|..++ ....+.-.+-+...-+--+..+...++|.+-.++..+++..+.+ |....
T Consensus       199 iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~Ddy~~~~  264 (932)
T KOG2053|consen  199 ILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGNDDYKIYT  264 (932)
T ss_pred             HHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCcchHHHH
Confidence            345667777777777 33333322333333344455666777777777777776666665 44433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.98  E-value=9.4e-06  Score=44.15  Aligned_cols=29  Identities=31%  Similarity=0.625  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 012365          118 MYNAIMAGYFRKKDVQGALMVLKEMEQAN  146 (465)
Q Consensus       118 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~  146 (465)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45556666666666666666666655544

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.92  E-value=3e-05  Score=54.10  Aligned_cols=82  Identities=15%  Similarity=0.102  Sum_probs=60.5

Q ss_pred             CCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHH
Q 012365          338 PPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASK  417 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~  417 (465)
                      .|+++.|+.+++++.......|+...+-.+..++.+.|++++|..+++. .+.+ +.+......+..+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            4788888888888882223233555666689999999999999999999 4332 2344555566889999999999999


Q ss_pred             HHhc
Q 012365          418 LLSK  421 (465)
Q Consensus       418 ~~~~  421 (465)
                      .+++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9876

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.90  E-value=0.00077  Score=55.50  Aligned_cols=165  Identities=13%  Similarity=0.097  Sum_probs=118.5

Q ss_pred             CcHHHHHHHHHHHcC---CC-CCccch---hhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCC
Q 012365          266 GELNRLIQLLEEVHD---PD-YWMDGC---CRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDP  338 (465)
Q Consensus       266 g~~~~a~~~~~~~~~---~~-~~~~~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  338 (465)
                      .+.++..+++.++..   .+ ..++.+   -.++.+....++.+.|...++.+.... |.+.....+-.-.+..     .
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa-----~   99 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEA-----T   99 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHH-----h
Confidence            344555555555432   12 223322   344555568899999999999998865 4333333332223333     4


Q ss_pred             CchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHH
Q 012365          339 PDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKL  418 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  418 (465)
                      |++++|+++++... ... +.|..++.--+...-.+|+-.+|.+-+.+..+. +..|...|..+...|...|++++|.-.
T Consensus       100 ~~~~~A~e~y~~lL-~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen  100 GNYKEAIEYYESLL-EDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hchhhHHHHHHHHh-ccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            99999999999999 333 346677776666677788888999999998887 899999999999999999999999999


Q ss_pred             HhccCCCCCChhHHHHHHHhh
Q 012365          419 LSKMPKDDPHVRFVIQACKQT  439 (465)
Q Consensus       419 ~~~m~~~~~~~~~~l~~~~~~  439 (465)
                      ++++.-.+|..+..-..++..
T Consensus       177 lEE~ll~~P~n~l~f~rlae~  197 (289)
T KOG3060|consen  177 LEELLLIQPFNPLYFQRLAEV  197 (289)
T ss_pred             HHHHHHcCCCcHHHHHHHHHH
Confidence            999999999766555554443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.89  E-value=0.017  Score=51.99  Aligned_cols=410  Identities=15%  Similarity=0.115  Sum_probs=213.2

Q ss_pred             HHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHHhhC--CCCC------------
Q 012365           16 KLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHA--CEESYEFNLVRRIYPMICHH--NLKP------------   79 (465)
Q Consensus        16 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~--~~~~------------   79 (465)
                      .+|.+|.. .+.+.....+..+.+..  | ...|-.+..+  +-+.+.+++|.+.+..-...  +..|            
T Consensus        51 rilnAffl-~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~  126 (549)
T PF07079_consen   51 RILNAFFL-NNLDLMEKQLMELRQQF--G-KSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFS  126 (549)
T ss_pred             HHHHHHHH-hhHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhh
Confidence            34444442 33444544444444321  1 1233344444  23566777777776655443  2111            


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHHHhcC--------C-------HHHHHHHHH
Q 012365           80 NSETFRSMISLNVKIKDFDSAYSLLDDLKEMNL----MPTASMYNAIMAGYFRKK--------D-------VQGALMVLK  140 (465)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~----~~~~~~~~~li~~~~~~g--------~-------~~~a~~~~~  140 (465)
                      |...=+..++++...|++.++..+++++...=+    .-+..+|+.++-.+.++=        .       ++-+.-..+
T Consensus       127 df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~k  206 (549)
T PF07079_consen  127 DFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLK  206 (549)
T ss_pred             HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHH
Confidence            222234566677777888888777777654322    256677776554444321        1       122222233


Q ss_pred             HHHHC------CCCCCHHHHHHHHHhh-C----ChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          141 EMEQA------NVKPDSQTFSYLIHNC-S----NEEDIIKYYEQLKSAGGQITKY-VFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       141 ~m~~~------~~~p~~~~~~~ll~~~-~----~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                      +|...      .+.|....+..++... .    +..-..++++.....-+.|+-. +...++..+.+  +.+++..+-+.
T Consensus       207 ki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~  284 (549)
T PF07079_consen  207 KIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEA  284 (549)
T ss_pred             HHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHH
Confidence            33211      2344444444444431 1    1112233444444444455432 33344444443  33333333222


Q ss_pred             -----hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHH-------HHHHHHH----ccCcHHHHH
Q 012365          209 -----AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVI-------ALIEHLN----SEGELNRLI  272 (465)
Q Consensus       209 -----~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-------~ll~~~~----~~g~~~~a~  272 (465)
                           ...-......++..++...++.++...|...+.-+.--.  |+...-.       .+.+..+    ..-+...-+
T Consensus       285 ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ld--p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL  362 (549)
T PF07079_consen  285 IASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILD--PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYL  362 (549)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC--CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHH
Confidence                 111112223357888888888888888888888776543  3333211       1122222    112334445


Q ss_pred             HHHHHHcCCCCCccch----hhHhhHhhhcCC-hhHHHHHHHHHHHcccchhHHHHHHH---HHHHHhhhcCCCCchhhh
Q 012365          273 QLLEEVHDPDYWMDGC----CRLILHCVRFKQ-LSSATDLLKQLKDKFKDDEMAMEYHF---SEIFCQIATTDPPDVQIG  344 (465)
Q Consensus       273 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~~~~~~A  344 (465)
                      .+|+.+...+++..-.    .....-+-+.|. -+.|+++++.+..-..-+...-+.++   ...+...-.  ...+.+-
T Consensus       363 ~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs--~~~~~rL  440 (549)
T PF07079_consen  363 NLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALS--MHAIPRL  440 (549)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHh--hhhHHHH
Confidence            6666666555442211    122223335555 78889999888874333333333222   222222110  1223333


Q ss_pred             HHhHHHHHhhcCCCCc----HHHHHHHHHH--hHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHH
Q 012365          345 LDLLQFIKDELGLPPS----RKCLDFLLGA--CVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKL  418 (465)
Q Consensus       345 ~~~~~~m~~~~~~~p~----~~~~~~ll~~--~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  418 (465)
                      +.+-+-+. +.|+.|-    ...-|.|.+|  +...|++.++.-.-..+.+  +.|++.+|.-+.-.+....++++|..+
T Consensus       441 lkLe~fi~-e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~  517 (549)
T PF07079_consen  441 LKLEDFIT-EVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEY  517 (549)
T ss_pred             HHHHHHHH-hcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHH
Confidence            33333334 6788773    3455666665  4578999999877777666  689999999999999999999999999


Q ss_pred             HhccCCCCCChh----HHHHHHHh
Q 012365          419 LSKMPKDDPHVR----FVIQACKQ  438 (465)
Q Consensus       419 ~~~m~~~~~~~~----~~l~~~~~  438 (465)
                      +.+++..+-.++    -.+.-|.+
T Consensus       518 l~~LP~n~~~~dskvqKAl~lCqK  541 (549)
T PF07079_consen  518 LQKLPPNERMRDSKVQKALALCQK  541 (549)
T ss_pred             HHhCCCchhhHHHHHHHHHHHHHH
Confidence            999998555443    34444544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.86  E-value=0.034  Score=54.48  Aligned_cols=223  Identities=12%  Similarity=0.104  Sum_probs=153.4

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHH
Q 012365           21 SCDLLKVHVALDVVEQMVQGELVPSTETINSILHAC--EESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFD   98 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~   98 (465)
                      ....+++..|++....+.+.  .|+. .|..+++++  .+.|+.++|..+++.....+. .|..|...+-.+|-..++.+
T Consensus        19 ~ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~-~D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKG-TDDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCC-CchHHHHHHHHHHHHHhhhh
Confidence            34578899999999998775  3444 455566664  578999999999998877663 38899999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCC-------------hh
Q 012365           99 SAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSN-------------EE  165 (465)
Q Consensus        99 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-------------~~  165 (465)
                      +|..+|++....  -|+......+..+|++.+.+.+-.+.--+|-+ ..+-+.++|-.+++...+             ..
T Consensus        95 ~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~  171 (932)
T KOG2053|consen   95 EAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLA  171 (932)
T ss_pred             HHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHH
Confidence            999999999876  47888888888899998887765554444433 233445555555554211             12


Q ss_pred             HHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH--hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHH
Q 012365          166 DIIKYYEQLKSAG-GQITKYVFMALINAYTTCGEFEKARQVVLD--AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEE  242 (465)
Q Consensus       166 ~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  242 (465)
                      -+++..+.+.+.+ -.-+..-.......+...|++++|.+++..  .......+...-+.-+..+...+++.+..++-.+
T Consensus       172 LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~  251 (932)
T KOG2053|consen  172 LAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSR  251 (932)
T ss_pred             HHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHH
Confidence            2344555555443 222333333445667788999999999954  2222222222234556777788899999999999


Q ss_pred             HHHcCCCCCH
Q 012365          243 IKEAGCNLEP  252 (465)
Q Consensus       243 m~~~~~~p~~  252 (465)
                      +..+|  +|.
T Consensus       252 Ll~k~--~Dd  259 (932)
T KOG2053|consen  252 LLEKG--NDD  259 (932)
T ss_pred             HHHhC--Ccc
Confidence            98888  553

>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=97.81  E-value=0.00053  Score=48.78  Aligned_cols=91  Identities=11%  Similarity=0.094  Sum_probs=41.7

Q ss_pred             HHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccC
Q 012365           16 KLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIK   95 (465)
Q Consensus        16 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g   95 (465)
                      .+...+...|++++|...++...+... .+...+..+...+...+++++|.+.++...+.. +.+..++..+...+...|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHH
Confidence            344444455555555555555544321 122334444444444455555555555544433 223334444444444445


Q ss_pred             CHHHHHHHHHHHH
Q 012365           96 DFDSAYSLLDDLK  108 (465)
Q Consensus        96 ~~~~a~~~~~~m~  108 (465)
                      +++.|...+....
T Consensus        83 ~~~~a~~~~~~~~   95 (100)
T cd00189          83 KYEEALEAYEKAL   95 (100)
T ss_pred             hHHHHHHHHHHHH
Confidence            5555554444443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.81  E-value=0.0011  Score=49.79  Aligned_cols=97  Identities=6%  Similarity=-0.020  Sum_probs=46.5

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCCHHHHHHHHH
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMVQGELV--PSTETINSILHACEESYEFNLVRRIYPMICHHNL--KPNSETFRSMIS   89 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~   89 (465)
                      +-.+...+.+.|++++|.+.|+.+.+....  .....+..+..++...|+++.|...++.+....-  +....++..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            344445555555555565555555443211  0122333445555555555555555555544320  111334444445


Q ss_pred             HHhccCCHHHHHHHHHHHHHc
Q 012365           90 LNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      ++.+.|+.++|...++++...
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555544

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.79  E-value=0.00086  Score=58.82  Aligned_cols=144  Identities=10%  Similarity=0.133  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHA-CEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      .+|-.++...-+.+..+.|..+|.+.++.+. .+...|...... +...++.+.|.++|+...+. ++.+...|..-++.
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            5789999999999999999999999986532 234444444333 33357888899999999876 46788999999999


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTA---SMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN  160 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  160 (465)
                      +...++.+.|..+|++.... ++++.   ..|...+..=.+.|+++.+.++.+++.+.  .|+......++.-
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~r  149 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDR  149 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCC
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHH
Confidence            99999999999999998865 33322   48999999999999999999999998874  4444444444443

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.

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.77  E-value=0.00058  Score=55.14  Aligned_cols=89  Identities=11%  Similarity=0.216  Sum_probs=75.1

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc----------------CCHHHHH
Q 012365           43 VPSTETINSILHACEES-----YEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI----------------KDFDSAY  101 (465)
Q Consensus        43 ~p~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------------g~~~~a~  101 (465)
                      ..|..+|..++..+.+.     |.++-....+..|.+.|+.-|..+|+.||+.+=+.                .+.+-|.
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            34788888888887644     77888888899999999999999999999987542                2346799


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 012365          102 SLLDDLKEMNLMPTASMYNAIMAGYFRKKD  131 (465)
Q Consensus       102 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  131 (465)
                      +++++|...|+-||..++..+++.+.+.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            999999999999999999999999976654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.76  E-value=0.00068  Score=48.21  Aligned_cols=95  Identities=11%  Similarity=0.183  Sum_probs=80.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR  128 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  128 (465)
                      +..+...+...|++++|...++...+.. +.+...+..+...+...+++++|.+.|+...... +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            4556777888999999999999998765 4456788888899999999999999999988765 4556788899999999


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 012365          129 KKDVQGALMVLKEMEQA  145 (465)
Q Consensus       129 ~g~~~~a~~~~~~m~~~  145 (465)
                      .|++++|...+....+.
T Consensus        81 ~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          81 LGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHhHHHHHHHHHHHHcc
Confidence            99999999999887653

>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=97.72  E-value=8e-05  Score=49.64  Aligned_cols=67  Identities=19%  Similarity=0.168  Sum_probs=59.2

Q ss_pred             cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC-ChhhHHHHHhccCCCCC
Q 012365          360 SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASG-NRKSASKLLSKMPKDDP  427 (465)
Q Consensus       360 ~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~~~~  427 (465)
                      ++.+|..+...+...|++++|...|++..+.. |.++..|..+..+|.+.| ++++|++.+++.++.+|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            45678888899999999999999999999984 778889999999999999 79999999998876554

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.71  E-value=0.00026  Score=59.78  Aligned_cols=98  Identities=18%  Similarity=0.053  Sum_probs=82.1

Q ss_pred             CCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHH
Q 012365          338 PPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  416 (465)
                      .+++++|+..|.+..   .+.| |++.|..=..+|++.|.++.|.+-.+..++.+ |--..+|..|..+|...|++++|.
T Consensus        94 ~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   94 NKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             hhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHHH
Confidence            389999999999998   7777 55666777889999999999999999888853 445569999999999999999999


Q ss_pred             HHHhccCCCCCChhHHHHHHHhh
Q 012365          417 KLLSKMPKDDPHVRFVIQACKQT  439 (465)
Q Consensus       417 ~~~~~m~~~~~~~~~~l~~~~~~  439 (465)
                      +.|++.++.+|.+.++-.....+
T Consensus       170 ~aykKaLeldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  170 EAYKKALELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHhhhccCCCcHHHHHHHHHH
Confidence            99999999999876555444444

>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=0.00022  Score=47.30  Aligned_cols=57  Identities=23%  Similarity=0.324  Sum_probs=49.1

Q ss_pred             HhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          372 VNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       372 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      ...|++++|.++|+++.+. .|.+...+..++.+|.+.|++++|.++++++...+|..
T Consensus         2 l~~~~~~~A~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~   58 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQR-NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDN   58 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHH-TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTH
T ss_pred             hhccCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCH
Confidence            4679999999999999887 47788888899999999999999999999999888764

...

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.59  E-value=0.0033  Score=47.11  Aligned_cols=99  Identities=5%  Similarity=-0.071  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcC--CCCCHHHHHHH
Q 012365           47 ETINSILHACEESYEFNLVRRIYPMICHHNL--KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMN--LMPTASMYNAI  122 (465)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~l  122 (465)
                      .++-.+...+.+.|++++|.+.++.+.+..-  +.....+..+..++.+.|+++.|...|+.+....  .+....++..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            3556677788899999999999999987531  1124567778899999999999999999988653  11125668888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 012365          123 MAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       123 i~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ..++.+.|+.++|.+.++++.+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHH
Confidence            88999999999999999999876

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.59  E-value=0.0041  Score=50.25  Aligned_cols=96  Identities=17%  Similarity=0.109  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHHNLKPN--SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG  125 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  125 (465)
                      .+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+++..+.. +.+...+..+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            344444555555566666655555554321111  2345555555555566666666555555432 2234444444455


Q ss_pred             HHhcCC--------------HHHHHHHHHHHHH
Q 012365          126 YFRKKD--------------VQGALMVLKEMEQ  144 (465)
Q Consensus       126 ~~~~g~--------------~~~a~~~~~~m~~  144 (465)
                      +...|+              +++|.+++++...
T Consensus       116 ~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~  148 (172)
T PRK02603        116 YHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR  148 (172)
T ss_pred             HHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh
Confidence            555444              4667777776654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.58  E-value=0.00014  Score=47.74  Aligned_cols=61  Identities=16%  Similarity=0.187  Sum_probs=49.4

Q ss_pred             HHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          367 LLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       367 ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      +...+...|++++|...|+++.+.. |-+...+..+..++...|++++|..+|+++.+.+|.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            3456778899999999999999874 667778888999999999999999999988776654

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.58  E-value=0.0021  Score=58.61  Aligned_cols=90  Identities=10%  Similarity=0.020  Sum_probs=57.2

Q ss_pred             HHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHH
Q 012365           19 TYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFD   98 (465)
Q Consensus        19 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~   98 (465)
                      ..+...|+++.|++.|++..+.... +...|..+..++...|++++|...++.+.+.. +.+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            3444566777777777776665432 45566666666666677777777777666654 345566666666666677777


Q ss_pred             HHHHHHHHHHHc
Q 012365           99 SAYSLLDDLKEM  110 (465)
Q Consensus        99 ~a~~~~~~m~~~  110 (465)
                      +|...|++....
T Consensus        88 eA~~~~~~al~l   99 (356)
T PLN03088         88 TAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHh
Confidence            777777666654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.55  E-value=0.0068  Score=53.43  Aligned_cols=174  Identities=18%  Similarity=0.177  Sum_probs=92.9

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHcCC--C-CC--HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHh
Q 012365          221 SALVSALASHGRTSDAIIVYEEIKEAGC--N-LE--PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHC  295 (465)
Q Consensus       221 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~--~-p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  295 (465)
                      ......|-..|++++|.+.|.+..+...  . +.  ...|......|.+ +++++|...+++..             ..|
T Consensus        39 ~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~-------------~~y  104 (282)
T PF14938_consen   39 EKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAI-------------EIY  104 (282)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHH-------------HHH
T ss_pred             HHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHH-------------HHH
Confidence            3344555566666666666655432210  0 00  1122233333322 25555555554443             234


Q ss_pred             hhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCC-CchhhhHHhHHHHHhh---cCCCCc--HHHHHHHHH
Q 012365          296 VRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDP-PDVQIGLDLLQFIKDE---LGLPPS--RKCLDFLLG  369 (465)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~A~~~~~~m~~~---~~~~p~--~~~~~~ll~  369 (465)
                      ...|++..|-+.+.++.+               +     .... |++++|++.|++..+-   .+ .+.  ..++..+..
T Consensus       105 ~~~G~~~~aA~~~~~lA~---------------~-----ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~  163 (282)
T PF14938_consen  105 REAGRFSQAAKCLKELAE---------------I-----YEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAAD  163 (282)
T ss_dssp             HHCT-HHHHHHHHHHHHH---------------H-----HCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHH---------------H-----HHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHH
Confidence            456666666666655544               1     1113 5666666666665521   12 221  235566777


Q ss_pred             HhHhhhhhhHHHHHHHHHHHcCCCC-----Chh-HHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          370 ACVNARDLKRAHLIWKEYENAGLPY-----NVL-SYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       370 ~~~~~g~~~~A~~~~~~m~~~g~~p-----~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      .+.+.|++++|.++|+++...-...     +.. .+...+-++...||...|.+.+++....+|.+
T Consensus       164 l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F  229 (282)
T PF14938_consen  164 LYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSF  229 (282)
T ss_dssp             HHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTS
T ss_pred             HHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            8889999999999999988653222     222 23334446677899999999999998887754

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.54  E-value=0.0042  Score=59.26  Aligned_cols=72  Identities=13%  Similarity=0.075  Sum_probs=61.4

Q ss_pred             CCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhH
Q 012365          358 PPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRF  431 (465)
Q Consensus       358 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  431 (465)
                      ..++..|..+.-.....|++++|...+++..+.  .|+...|..+...+...|+.++|.+.+++....+|.+++
T Consensus       417 ~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        417 NVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             cCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            345567777765566679999999999999996  478899999999999999999999999999998887654

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.54  E-value=0.00016  Score=50.42  Aligned_cols=80  Identities=9%  Similarity=0.148  Sum_probs=35.9

Q ss_pred             ccCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 012365           24 LLKVHVALDVVEQMVQGELV-PSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYS  102 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  102 (465)
                      .|+++.|+.+|+++.+.... |+...+..+..++.+.|++++|..+++. .+.+ +.+....-.+..++.+.|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            35555555555555543321 1223333345555555555555555555 2221 1122333333455555555555555


Q ss_pred             HHH
Q 012365          103 LLD  105 (465)
Q Consensus       103 ~~~  105 (465)
                      +|+
T Consensus        80 ~l~   82 (84)
T PF12895_consen   80 ALE   82 (84)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            554

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.54  E-value=0.0032  Score=57.36  Aligned_cols=103  Identities=18%  Similarity=0.241  Sum_probs=86.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012365           53 LHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDV  132 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  132 (465)
                      ...+...|+++.|.+.|+++++.. +.+...|..+..+|.+.|++++|...+++..... +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            345667899999999999999876 5678899999999999999999999999998875 55778899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012365          133 QGALMVLKEMEQANVKPDSQTFSYLIH  159 (465)
Q Consensus       133 ~~a~~~~~~m~~~~~~p~~~~~~~ll~  159 (465)
                      ++|...|++..+.  .|+.......+.
T Consensus        87 ~eA~~~~~~al~l--~P~~~~~~~~l~  111 (356)
T PLN03088         87 QTAKAALEKGASL--APGDSRFTKLIK  111 (356)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            9999999999874  465555444443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.52  E-value=0.0035  Score=50.44  Aligned_cols=96  Identities=11%  Similarity=-0.013  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKP--NSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIM  123 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  123 (465)
                      ...+..+...+...|++++|...++........+  ...++..+..++...|++++|...+++..... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            4455666666667778888888777776543222  23467777777777788888888877776542 33345555555


Q ss_pred             HHHH-------hcCCHHHHHHHHHHH
Q 012365          124 AGYF-------RKKDVQGALMVLKEM  142 (465)
Q Consensus       124 ~~~~-------~~g~~~~a~~~~~~m  142 (465)
                      ..+.       ..|+++.|...+++.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            5555       677777555555443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.49  E-value=0.0032  Score=48.55  Aligned_cols=94  Identities=13%  Similarity=0.070  Sum_probs=74.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 012365           50 NSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRK  129 (465)
Q Consensus        50 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  129 (465)
                      -.+...+...|++++|.++|+.+.... +-+..-|-.|..++-..|++++|...|......+ +-|+..+-.+..++...
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHc
Confidence            344455667888999999988888775 4566777778888888888999999888887776 46778888888888888


Q ss_pred             CCHHHHHHHHHHHHHC
Q 012365          130 KDVQGALMVLKEMEQA  145 (465)
Q Consensus       130 g~~~~a~~~~~~m~~~  145 (465)
                      |+.+.|.+.|+.....
T Consensus       117 G~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        117 DNVCYAIKALKAVVRI  132 (157)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999988888877653

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.49  E-value=0.029  Score=49.42  Aligned_cols=63  Identities=21%  Similarity=0.209  Sum_probs=34.8

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCC-----CCHH-HHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCN-----LEPR-AVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-----p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      +..+...+.+.|++++|.++|++.......     ++.. .|...+-++...|+...|.+.++......
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~  226 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQD  226 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTS
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            555666677777777777777776554221     1111 22233334555677777777777766543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.47  E-value=0.015  Score=44.88  Aligned_cols=96  Identities=6%  Similarity=-0.013  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      ...-.+-..+...|++++|..+|+.+....+. +..-|-.|..++-..|++.+|...|....... +-|+..+-.+..++
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~  113 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            33444555666789999999999988775433 55566667777777889999999998888876 46788888888888


Q ss_pred             hccCCHHHHHHHHHHHHH
Q 012365           92 VKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~  109 (465)
                      ...|+.+.|.+.|+..+.
T Consensus       114 L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        114 LACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            889999999988887664

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.44  E-value=0.031  Score=53.50  Aligned_cols=145  Identities=14%  Similarity=0.060  Sum_probs=102.5

Q ss_pred             CCCCCHHHHHHHHHHHhcc-----cCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------CCHHHHHHHHHHH
Q 012365            6 EITPSSASYKKLITYSCDL-----LKVHVALDVVEQMVQGELVPSTETINSILHACEES--------YEFNLVRRIYPMI   72 (465)
Q Consensus         6 ~~~p~~~~y~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~--------~~~~~a~~~~~~~   72 (465)
                      +.+.|...|...+++....     ++...|.++|++..+..+. ....|..+..++...        .++..+.+..+..
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            4567889999999986543     3378999999999986432 344555444333222        1233444444443


Q ss_pred             hhC-CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 012365           73 CHH-NLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS  151 (465)
Q Consensus        73 ~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  151 (465)
                      ... ..+.+...|..+.-.....|++++|...+++..+.+  |+...|..+...+...|+.++|.+.|++....  .|..
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~  486 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGE  486 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCC
Confidence            332 234566788877666777899999999999999875  78999999999999999999999999998764  4544


Q ss_pred             HHHH
Q 012365          152 QTFS  155 (465)
Q Consensus       152 ~~~~  155 (465)
                      .||.
T Consensus       487 pt~~  490 (517)
T PRK10153        487 NTLY  490 (517)
T ss_pred             chHH
Confidence            4443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.41  E-value=0.0087  Score=52.56  Aligned_cols=142  Identities=12%  Similarity=0.027  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHcCCC-CCccchhhHhhH-hhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHH
Q 012365          253 RAVIALIEHLNSEGELNRLIQLLEEVHDPD-YWMDGCCRLILH-CVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIF  330 (465)
Q Consensus       253 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  330 (465)
                      .+|..++...-+.+..+.|..+|++..+.+ ...+.|...... +...++.+.|.++|+...+....+...|...+.-++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~   81 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFLI   81 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            345666666666677777777777776543 223333322222 334566777899998888876677777776666555


Q ss_pred             HhhhcCCCCchhhhHHhHHHHHhhcCCCCcH---HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          331 CQIATTDPPDVQIGLDLLQFIKDELGLPPSR---KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       331 ~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~---~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      ..      ++.+.|..+|++.. .. +.++.   ..|...+.--.+.|+.+.+..+.+++.+.  -|+......+++
T Consensus        82 ~~------~d~~~aR~lfer~i-~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen   82 KL------NDINNARALFERAI-SS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             HT------T-HHHHHHHHHHHC-CT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHC
T ss_pred             Hh------CcHHHHHHHHHHHH-Hh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHH
Confidence            44      88999999999988 22 33333   48999999888999999999999999885  444444444444

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.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.40  E-value=0.03  Score=52.79  Aligned_cols=78  Identities=9%  Similarity=0.013  Sum_probs=43.9

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCC
Q 012365          221 SALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ  300 (465)
Q Consensus       221 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  300 (465)
                      ..+..-+-+...+.-|-++|..|-+..         ++++.....+++++|..+-+...+.  .++.|.......+...+
T Consensus       751 ~~~a~ylk~l~~~gLAaeIF~k~gD~k---------siVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~Dr  819 (1081)
T KOG1538|consen  751 LLCATYLKKLDSPGLAAEIFLKMGDLK---------SLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDR  819 (1081)
T ss_pred             HHHHHHHhhccccchHHHHHHHhccHH---------HHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhh
Confidence            334444445556667777777764432         5666777888888888777665442  23333333333444455


Q ss_pred             hhHHHHHHH
Q 012365          301 LSSATDLLK  309 (465)
Q Consensus       301 ~~~a~~~~~  309 (465)
                      +++|.+.|-
T Consensus       820 FeEAqkAfh  828 (1081)
T KOG1538|consen  820 FEEAQKAFH  828 (1081)
T ss_pred             HHHHHHHHH
Confidence            555555443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.37  E-value=0.12  Score=47.92  Aligned_cols=370  Identities=11%  Similarity=0.094  Sum_probs=198.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365           43 VPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAI  122 (465)
Q Consensus        43 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  122 (465)
                      +-|..+|..|++-+... ..+++.+.++++... ++-+...|..-|..-.+..+++.++.+|.+....  ..+...|..-
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--vLnlDLW~lY   92 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVK--VLNLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HhhHhHHHHH
Confidence            45899999999988766 999999999999875 3667889999999999999999999999997765  3567778777


Q ss_pred             HHHHHh-cCCHHH----HHHHHHHHH-HCCCCCCH-HH---HHHHHHh---hCChh---H---HHHHHHHHHHcCCCCCH
Q 012365          123 MAGYFR-KKDVQG----ALMVLKEME-QANVKPDS-QT---FSYLIHN---CSNEE---D---IIKYYEQLKSAGGQITK  183 (465)
Q Consensus       123 i~~~~~-~g~~~~----a~~~~~~m~-~~~~~p~~-~~---~~~ll~~---~~~~~---~---~~~~~~~~~~~~~~~~~  183 (465)
                      |.--.+ +|+...    ..+.|+-.. +.|+.+-+ ..   |...+..   .++..   .   +.++++.+...-+.-=.
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlE  172 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLE  172 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHH
Confidence            764332 333333    223333322 34543322 12   2233332   22221   1   22333333322111001


Q ss_pred             HHH------HHHHHHH-------HhcCCHHHHHHHHHHh------------cCCCCChHH------HHHHHHHHHHcCCC
Q 012365          184 YVF------MALINAY-------TTCGEFEKARQVVLDA------------EIPVKSRSE------VKSALVSALASHGR  232 (465)
Q Consensus       184 ~~~------~~l~~~~-------~~~g~~~~a~~~~~~~------------~~~~~~~~~------~~~~l~~~~~~~g~  232 (465)
                      ..|      ..-|+..       -+...+..|.+++++.            ..+++.+..      .|-.+|.-=-.++.
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL  252 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCc
Confidence            111      1111111       1223455566666542            011111110      13333332211111


Q ss_pred             h--------hHHHHHHHH-HHHcCCCCCHHHH-HHHH----HHHHccCc-------HHHHHHHHHHHcCCCCCcc--chh
Q 012365          233 T--------SDAIIVYEE-IKEAGCNLEPRAV-IALI----EHLNSEGE-------LNRLIQLLEEVHDPDYWMD--GCC  289 (465)
Q Consensus       233 ~--------~~a~~~~~~-m~~~~~~p~~~~~-~~ll----~~~~~~g~-------~~~a~~~~~~~~~~~~~~~--~~~  289 (465)
                      -        ....=.+++ |.-.+..|+..-. ...+    +.+...|+       .+++..+++...+.-....  .+.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            0        011111222 1112333332211 1111    12222333       2344444444332111111  111


Q ss_pred             hHhhHhh---hcCChhHHHHHHHHHHHc-ccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHH
Q 012365          290 RLILHCV---RFKQLSSATDLLKQLKDK-FKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCL  364 (465)
Q Consensus       290 ~~~~~~~---~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~  364 (465)
                      .+...--   .....+.....+++.... ....+..+-..+...-..      ..++.|..+|.+.+ +.+..+ ++..+
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~------eGlkaaR~iF~kaR-~~~r~~hhVfVa  405 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRA------EGLKAARKIFKKAR-EDKRTRHHVFVA  405 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHh------hhHHHHHHHHHHHh-hccCCcchhhHH
Confidence            1111100   111345555666666553 333444444444433332      67899999999999 777777 77777


Q ss_pred             HHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCC
Q 012365          365 DFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKD  425 (465)
Q Consensus       365 ~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  425 (465)
                      ++++.-+| .+|.+-|.++|+--.++ ++.++.--...++-+...|+-..|..+|++.+..
T Consensus       406 ~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s  464 (656)
T KOG1914|consen  406 AALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS  464 (656)
T ss_pred             HHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc
Confidence            88887664 58899999999988876 5666666677888888999999999999999877

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.33  E-value=0.084  Score=45.20  Aligned_cols=197  Identities=10%  Similarity=-0.041  Sum_probs=97.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhcCCCCChHHH---HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 012365          188 ALINAYTTCGEFEKARQVVLDAEIPVKSRSEV---KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNS  264 (465)
Q Consensus       188 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  264 (465)
                      .....+...|++++|.+.|+......+.....   .-.+..++.+.+++++|...+++..+....-....+...+.+.+.
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            34445566788888888887743322222221   234566777888888888888887776532223334344444331


Q ss_pred             cCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhh
Q 012365          265 EGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIG  344 (465)
Q Consensus       265 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A  344 (465)
                      ...   ....+......+..          .........|+..|+.+.+..+....                    ..+|
T Consensus       117 ~~~---~~~~~~~~~~~~~~----------~rD~~~~~~A~~~~~~li~~yP~S~y--------------------a~~A  163 (243)
T PRK10866        117 MAL---DDSALQGFFGVDRS----------DRDPQHARAAFRDFSKLVRGYPNSQY--------------------TTDA  163 (243)
T ss_pred             hhc---chhhhhhccCCCcc----------ccCHHHHHHHHHHHHHHHHHCcCChh--------------------HHHH
Confidence            100   00001110000000          00111233455556665553221111                    1122


Q ss_pred             HHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc--CCCCChhHHHHHHHHHHhcCChhhHHHHHhcc
Q 012365          345 LDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA--GLPYNVLSYLWMYKAFLASGNRKSASKLLSKM  422 (465)
Q Consensus       345 ~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  422 (465)
                      ...+..+.+.    --. .--.+.+-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|.+....+
T Consensus       164 ~~rl~~l~~~----la~-~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        164 TKRLVFLKDR----LAK-YELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHHH----HHH-HHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            2211111100    000 0113455577788888888888888865  33334446667778888888888888766543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.28  E-value=0.033  Score=43.90  Aligned_cols=158  Identities=11%  Similarity=0.089  Sum_probs=97.0

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      +..+..+.=|+++...-..+-..  ..|+...--.|..++.+.|+..+|...|++...--+.-|....-.+..+....++
T Consensus        62 ~~~a~~q~ldP~R~~Rea~~~~~--~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~  139 (251)
T COG4700          62 LLMALQQKLDPERHLREATEELA--IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQE  139 (251)
T ss_pred             HHHHHHHhcChhHHHHHHHHHHh--hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhcc
Confidence            44444444455544433332222  3455555556777788888888888888887765555677777777777777788


Q ss_pred             HHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHhhCChhHHH----HH
Q 012365           97 FDSAYSLLDDLKEMN-LMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD-SQTFSYLIHNCSNEEDII----KY  170 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~----~~  170 (465)
                      +..|...++++-+.. -..++.+.-.+.+.+...|....|..-|+.....---|. ...|..++..-++..++.    .+
T Consensus       140 ~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         140 FAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            888888888776542 001233445566777778888888888887775422222 345666666666554433    34


Q ss_pred             HHHHHH
Q 012365          171 YEQLKS  176 (465)
Q Consensus       171 ~~~~~~  176 (465)
                      ++.+.+
T Consensus       220 ~d~~~r  225 (251)
T COG4700         220 VDTAKR  225 (251)
T ss_pred             HHHHHh
Confidence            555444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.26  E-value=0.025  Score=41.99  Aligned_cols=103  Identities=9%  Similarity=0.003  Sum_probs=57.8

Q ss_pred             HHHhcccCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HHHHHHHHHHHh
Q 012365           19 TYSCDLLKVHVALDVVEQMVQGELVPS--TETINSILHACEESYEFNLVRRIYPMICHHNLKPN----SETFRSMISLNV   92 (465)
Q Consensus        19 ~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~   92 (465)
                      .++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..+++......  |+    ......+..++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            344556777777777777777665433  2344445556666777777777777766542  22    222222333455


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYF  127 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  127 (465)
                      ..|+.++|.+.+-....    ++...|.--|..|.
T Consensus        87 ~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            66777777776655443    23334544444443

>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=97.25  E-value=0.0012  Score=43.62  Aligned_cols=23  Identities=0%  Similarity=0.065  Sum_probs=8.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHh
Q 012365           51 SILHACEESYEFNLVRRIYPMIC   73 (465)
Q Consensus        51 ~ll~~~~~~~~~~~a~~~~~~~~   73 (465)
                      .+..++.+.|++++|.++++.+.
T Consensus        30 ~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen   30 LLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            33333333444444444433333

...

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.23  E-value=0.0097  Score=46.55  Aligned_cols=70  Identities=16%  Similarity=0.273  Sum_probs=52.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HCCCCCCHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME-----QANVKPDSQT  153 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~~~~p~~~~  153 (465)
                      +...++..+...|+++.|..+.+.+.... |-|...|..+|.+|...|+...|.++|+++.     +.|+.|+..+
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            55567777888899999999999988776 6788899999999999999999999998875     3477777655

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.22  E-value=0.037  Score=47.32  Aligned_cols=28  Identities=14%  Similarity=0.216  Sum_probs=22.8

Q ss_pred             HHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          401 WMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       401 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      .+..-|.+.|++.-|..-++.+.++-|.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~  207 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPD  207 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCC
Confidence            4566788999999999999999887663

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.17  E-value=0.0038  Score=40.79  Aligned_cols=59  Identities=24%  Similarity=0.230  Sum_probs=42.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC
Q 012365          189 LINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       189 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  247 (465)
                      +...+.+.|++++|.+.|++.....+.....+..+..++...|++++|...|+++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34567788888888888887554445455567778888888888888888888887655

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=97.17  E-value=0.36  Score=49.31  Aligned_cols=97  Identities=21%  Similarity=0.116  Sum_probs=60.9

Q ss_pred             hhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHH--HHHHHHH
Q 012365          292 ILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRK--CLDFLLG  369 (465)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~--~~~~ll~  369 (465)
                      ...|.++|+.++|+..++..                           |++++|+.+-.++.    ..-+..  +-..|..
T Consensus       959 al~Ye~~GklekAl~a~~~~---------------------------~dWr~~l~~a~ql~----~~~de~~~~a~~L~s 1007 (1265)
T KOG1920|consen  959 ALMYERCGKLEKALKAYKEC---------------------------GDWREALSLAAQLS----EGKDELVILAEELVS 1007 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHHh---------------------------ccHHHHHHHHHhhc----CCHHHHHHHHHHHHH
Confidence            33445667777777666543                           77777777777665    111111  1245666


Q ss_pred             HhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCC
Q 012365          370 ACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDP  427 (465)
Q Consensus       370 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  427 (465)
                      -+...++.-+|-++..+..+.        ....+..|++...|++|.++.....+.+.
T Consensus      1008 ~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~eAlrva~~~~~~d~ 1057 (1265)
T KOG1920|consen 1008 RLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEWEEALRVASKAKRDDI 1057 (1265)
T ss_pred             HHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHHHhcccchH
Confidence            677778888887777776653        34455566777788888887777665444

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.16  E-value=0.012  Score=46.13  Aligned_cols=110  Identities=11%  Similarity=0.192  Sum_probs=75.1

Q ss_pred             CHHHHHHHHHH---HhcccCHHHHHHHHHHHHhC--CC-CCC------H------------HHHHHHHHHHHhcCCHHHH
Q 012365           10 SSASYKKLITY---SCDLLKVHVALDVVEQMVQG--EL-VPS------T------------ETINSILHACEESYEFNLV   65 (465)
Q Consensus        10 ~~~~y~~li~~---~~~~g~~~~A~~~~~~m~~~--~~-~p~------~------------~~~~~ll~~~~~~~~~~~a   65 (465)
                      |...|..++..   ....|+.+.+.+.++++...  |. -|+      .            .....++..+...|+++.|
T Consensus         2 D~~~F~~~~~~a~~~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a   81 (146)
T PF03704_consen    2 DVDRFEALVREARAAARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEA   81 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHH
Confidence            44556666443   35578999999999998763  21 111      0            1333445556678999999


Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH-----HcCCCCCHHHHH
Q 012365           66 RRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLK-----EMNLMPTASMYN  120 (465)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~~~~~~~~~~~  120 (465)
                      .++...+.... +.+...|..+|.+|...|+...|.++|+++.     +.|++|+..+-.
T Consensus        82 ~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   82 LRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            99999999876 6788999999999999999999999998874     458889876543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.13  E-value=0.07  Score=50.43  Aligned_cols=26  Identities=12%  Similarity=0.102  Sum_probs=15.6

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHH
Q 012365           78 KPNSETFRSMISLNVKIKDFDSAYSL  103 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~a~~~  103 (465)
                      .|....+.+-+..|...|.+++|.++
T Consensus       553 ~~~evp~~~~m~q~Ieag~f~ea~~i  578 (1081)
T KOG1538|consen  553 SAVEVPQSAPMYQYIERGLFKEAYQI  578 (1081)
T ss_pred             ecccccccccchhhhhccchhhhhcc
Confidence            34444555555667777777776554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.12  E-value=0.016  Score=46.57  Aligned_cols=62  Identities=10%  Similarity=-0.028  Sum_probs=28.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMP--TASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .|..+...+...|++++|...|++.......+  ...+|..+...+...|++++|...+++...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34444444444555555555555544321111  122444455555555555555555555443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.10  E-value=0.034  Score=46.41  Aligned_cols=140  Identities=11%  Similarity=0.090  Sum_probs=101.3

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccch-------hhHh
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGC-------CRLI  292 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~  292 (465)
                      .+.++..+...|.+.-....+++.++...+-++.....|.+.-.+.|+.+.|...|++..+..-..+..       ....
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            467777788888899999999999998767788888889999999999999999999776543222211       1223


Q ss_pred             hHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHH
Q 012365          293 LHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLL  368 (465)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll  368 (465)
                      ..+.-.+++.+|...|.++......+....|.-..+.+-.      |+...|++..+.|.   ...|.+.+-++++
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYl------g~l~DAiK~~e~~~---~~~P~~~l~es~~  326 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYL------GKLKDALKQLEAMV---QQDPRHYLHESVL  326 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHH------HHHHHHHHHHHHHh---ccCCccchhhhHH
Confidence            3455677888999999888875555555444433333333      88999999999998   6667766665544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.08  E-value=0.022  Score=45.96  Aligned_cols=63  Identities=8%  Similarity=0.006  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           82 ETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT--ASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        82 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ..+..+...+...|++++|...|++....+-.+.  ...+..+...+.+.|++++|...+++..+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555555556666666666665554321111  24555555566666666666666665554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.99  E-value=0.067  Score=45.74  Aligned_cols=101  Identities=10%  Similarity=0.173  Sum_probs=77.1

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 012365           56 CEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGA  135 (465)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  135 (465)
                      +.+.+++.+|...|.+.++.. +-|.+.|..-..+|++.|.++.|.+=.+.....+ +....+|..|-.+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            446788888888888888775 5677778888888888888888888777777654 34466788888888888888888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHh
Q 012365          136 LMVLKEMEQANVKPDSQTFSYLIHN  160 (465)
Q Consensus       136 ~~~~~~m~~~~~~p~~~~~~~ll~~  160 (465)
                      .+.|++..+  +.|+..+|-.=|..
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHHH
Confidence            888887765  56777777776665

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.96  E-value=0.26  Score=44.01  Aligned_cols=24  Identities=17%  Similarity=0.239  Sum_probs=18.4

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQ   36 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~   36 (465)
                      +|..+...-...|+.+-|..+++.
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~~   25 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLEL   25 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHHc
Confidence            466677777788999999887763

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=96.95  E-value=0.0027  Score=42.70  Aligned_cols=62  Identities=13%  Similarity=0.062  Sum_probs=51.8

Q ss_pred             HHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhH
Q 012365          369 GACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRF  431 (465)
Q Consensus       369 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  431 (465)
                      ..|.+.++++.|.++++.+.+. .|.++..|......|.+.|++++|.+.+++..+.+|....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~   64 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALEL-DPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPD   64 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh-CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHH
Confidence            4577889999999999999987 3777788888888999999999999999998888775433

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.089  Score=45.17  Aligned_cols=112  Identities=12%  Similarity=0.006  Sum_probs=88.4

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc---CCHHHHHHHHHHH
Q 012365           31 LDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI---KDFDSAYSLLDDL  107 (465)
Q Consensus        31 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m  107 (465)
                      ..-++.-.+.++ -|...|-.|..+|...|+++.|..-|....+.. ++++..+..+..++...   .+..++..+|++.
T Consensus       142 ~a~Le~~L~~nP-~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~a  219 (287)
T COG4235         142 IARLETHLQQNP-GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQA  219 (287)
T ss_pred             HHHHHHHHHhCC-CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            333333344443 388899999999999999999999999998865 56778777777665544   3457889999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365          108 KEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       108 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ...+ +-|+.+...|...+...|++.+|...|+.|.+.
T Consensus       220 l~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         220 LALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            8876 567788888888999999999999999999975

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.91  E-value=0.13  Score=42.87  Aligned_cols=170  Identities=14%  Similarity=0.134  Sum_probs=86.7

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-cc---chhhHhhH
Q 012365          221 SALVSALASHGRTSDAIIVYEEIKEAGCN--LEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MD---GCCRLILH  294 (465)
Q Consensus       221 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~---~~~~~~~~  294 (465)
                      -.....+...|++.+|.+.|+.+...-..  --....-.+..++.+.|+++.|...++...+.-+. +.   .+..+...
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~   88 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHH
Confidence            34556667788999999999998876421  12344556777888888888888888887653222 11   11222221


Q ss_pred             hhhc--------C---ChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHH
Q 012365          295 CVRF--------K---QLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKC  363 (465)
Q Consensus       295 ~~~~--------~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~  363 (465)
                      +...        .   ...+|...|+.+....+                    +..-..+|...+..+.+..     ...
T Consensus        89 ~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~yP--------------------~S~y~~~A~~~l~~l~~~l-----a~~  143 (203)
T PF13525_consen   89 YYKQIPGILRSDRDQTSTRKAIEEFEELIKRYP--------------------NSEYAEEAKKRLAELRNRL-----AEH  143 (203)
T ss_dssp             HHHHHHHHH-TT---HHHHHHHHHHHHHHHH-T--------------------TSTTHHHHHHHHHHHHHHH-----HHH
T ss_pred             HHHhCccchhcccChHHHHHHHHHHHHHHHHCc--------------------CchHHHHHHHHHHHHHHHH-----HHH
Confidence            1110        0   01122222222222100                    0122222322222222000     000


Q ss_pred             HHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChh---HHHHHHHHHHhcCChhhHH
Q 012365          364 LDFLLGACVNARDLKRAHLIWKEYENAGLPYNVL---SYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       364 ~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---~~~~l~~~~~~~g~~~~A~  416 (465)
                      --.+..-|.+.|.+..|..-++.+++. .|-+..   ....++.+|.+.|..+.|.
T Consensus       144 e~~ia~~Y~~~~~y~aA~~r~~~v~~~-yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  144 ELYIARFYYKRGKYKAAIIRFQYVIEN-YPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHCTT-HHHHHHHHHHHHHH-STTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH-CCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            112456678889999999999999886 333333   5667778888888877544

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.87  E-value=0.055  Score=40.20  Aligned_cols=104  Identities=15%  Similarity=0.108  Sum_probs=73.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHH
Q 012365           52 ILHACEESYEFNLVRRIYPMICHHNLKPN--SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT----ASMYNAIMAG  125 (465)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~  125 (465)
                      +..++-..|+.++|..+|++....|....  ...+-.+.+.+...|++++|..+|++.....  |+    ......+..+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHH
Confidence            44566778999999999999999886544  3456667778888999999999999887642  44    2222333456


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh
Q 012365          126 YFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC  161 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  161 (465)
                      +...|+.++|++.+-....    ++...|.--|..|
T Consensus        85 L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~y  116 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA----ETLPRYRRAIRFY  116 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence            7788999999998877654    2333454444433

>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=96.83  E-value=0.0077  Score=39.90  Aligned_cols=62  Identities=15%  Similarity=0.270  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 012365           81 SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK-DVQGALMVLKEME  143 (465)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~  143 (465)
                      ..+|..+...+...|++++|+..|++..+.+ +.+...|..+..++.+.| ++++|++.+++..
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            3344444445555555555555555544443 233444444555555555 4555555554443

...

>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=96.77  E-value=0.035  Score=41.70  Aligned_cols=48  Identities=17%  Similarity=0.180  Sum_probs=26.2

Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH-HcCCCCCHHHHHHHHH
Q 012365           77 LKPNSETFRSMISLNVKIKDFDSAYSLLDDLK-EMNLMPTASMYNAIMA  124 (465)
Q Consensus        77 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~~~~~~~~~~~~li~  124 (465)
                      ..|+..+..+++.+|+..|++..|.++.+... ..+++-+...|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            34555555666666666666666666555543 3344445555555554

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.76  E-value=0.13  Score=40.66  Aligned_cols=135  Identities=13%  Similarity=-0.007  Sum_probs=92.6

Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhc-CCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC---CCCCH
Q 012365          177 AGGQITKYVFMALINAYTTCGEFEKARQVVLDAE-IPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG---CNLEP  252 (465)
Q Consensus       177 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~---~~p~~  252 (465)
                      ....|+...-..|..++...|+..+|...|++.- .....+....-.+.++....+++..|...++.+.+.+   -.|| 
T Consensus        83 ~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd-  161 (251)
T COG4700          83 LAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD-  161 (251)
T ss_pred             HhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC-
Confidence            3456777777778888888899999998888732 2233333345667777788888888888888877764   2233 


Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          253 RAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       253 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                       +.-.+...+...|+...|..-|+.....-+.+.+.........+.|+.+++..-+..+.+
T Consensus       162 -~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         162 -GHLLFARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             -chHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence             334566778888888888888888877666666555555556677777666555444443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.74  E-value=0.59  Score=45.00  Aligned_cols=222  Identities=13%  Similarity=0.106  Sum_probs=109.8

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHh-CCCCC--------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQ-GELVP--------STETINSILHACEESYEFNLVRRIYPMICHHNLK   78 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~-~~~~p--------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~   78 (465)
                      .|-+..|..+...-...-.++.|...|-+... .|++.        +...-..=+  -+--|++++|+++|-.|.++.  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei--~~~~g~feeaek~yld~drrD--  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEI--SAFYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhH--hhhhcchhHhhhhhhccchhh--
Confidence            46677777777777777777777777665533 23321        000000111  122367777777776665553  


Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-------------
Q 012365           79 PNSETFRSMISLNVKIKDFDSAYSLLDDLKEM-NLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ-------------  144 (465)
Q Consensus        79 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-------------  144 (465)
                             ..|..+.+.|++-.+.++++.--.. +-+.-...|+.+...++....|++|.+.|..-..             
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~~ecly~le~  837 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQIECLYRLEL  837 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhHHHHHHHHHh
Confidence                   3445555566665555554321100 0011134566666666666666666555544211             


Q ss_pred             --------CCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCCh
Q 012365          145 --------ANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSR  216 (465)
Q Consensus       145 --------~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  216 (465)
                              ..++-+......+-..+.+.|.-++..+...+.+.+      ...++.|...++|.+|.++-++...+...+
T Consensus       838 f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~p------kaAv~tCv~LnQW~~avelaq~~~l~qv~t  911 (1189)
T KOG2041|consen  838 FGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLP------KAAVHTCVELNQWGEAVELAQRFQLPQVQT  911 (1189)
T ss_pred             hhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhccCc------HHHHHHHHHHHHHHHHHHHHHhccchhHHH
Confidence                    112223333333334444444444444444443322      234566677777777777776533332221


Q ss_pred             HHH-----------HHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          217 SEV-----------KSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       217 ~~~-----------~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                      ...           ..--|..+.+.|++-+|-+++.+|-++
T Consensus       912 liak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~  952 (1189)
T KOG2041|consen  912 LIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAER  952 (1189)
T ss_pred             HHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHH
Confidence            110           011234455667766777777776543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.74  E-value=0.06  Score=46.20  Aligned_cols=37  Identities=11%  Similarity=-0.067  Sum_probs=24.4

Q ss_pred             HHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          277 EVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      .+...+-+..+|..+..+|...++++.|...|.+..+
T Consensus       148 ~L~~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r  184 (287)
T COG4235         148 HLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALR  184 (287)
T ss_pred             HHHhCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            3344445566677777777777777777777776665

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.73  E-value=0.094  Score=43.91  Aligned_cols=147  Identities=10%  Similarity=0.079  Sum_probs=89.1

Q ss_pred             ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 012365           24 LLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSL  103 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  103 (465)
                      ....+..+++|++=..       ...+.++..+...|.+.-....+....+..-+.++...+.|++.-.+.||.+.|...
T Consensus       162 ~~~~ESsv~lW~KRl~-------~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~y  234 (366)
T KOG2796|consen  162 GLAEESSIRLWRKRLG-------RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKY  234 (366)
T ss_pred             ccchhhHHHHHHHHHH-------HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHH
Confidence            3344666666665432       244556666667777777778888877766566777778888888888888888888


Q ss_pred             HHHHHHcCCCCCHHHHHH-----HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHh-hCChhHHHHHHHHHH
Q 012365          104 LDDLKEMNLMPTASMYNA-----IMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFS--YLIHN-CSNEEDIIKYYEQLK  175 (465)
Q Consensus       104 ~~~m~~~~~~~~~~~~~~-----li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~--~ll~~-~~~~~~~~~~~~~~~  175 (465)
                      |++..+..-..|..+.+.     ....|..++++.+|...|.+....+- .|....|  +++.- .++..++.+..+.++
T Consensus       235 f~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~  313 (366)
T KOG2796|consen  235 FQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMV  313 (366)
T ss_pred             HHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHh
Confidence            886654432334333333     33445667777777777777665321 1111111  22222 355666666777776


Q ss_pred             HcC
Q 012365          176 SAG  178 (465)
Q Consensus       176 ~~~  178 (465)
                      ...
T Consensus       314 ~~~  316 (366)
T KOG2796|consen  314 QQD  316 (366)
T ss_pred             ccC
Confidence            654

>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=96.70  E-value=0.042  Score=41.29  Aligned_cols=86  Identities=8%  Similarity=0.090  Sum_probs=72.7

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHh---------------CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQ---------------GELVPSTETINSILHACEESYEFNLVRRIYPMICH   74 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~---------------~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   74 (465)
                      |..++.++|.++++.|+++....+++..-.               ....|+..+..+++.+++..|++..|.++++...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            567899999999999999999999987621               12458899999999999999999999999998875


Q ss_pred             -CCCCCCHHHHHHHHHHHhccC
Q 012365           75 -HNLKPNSETFRSMISLNVKIK   95 (465)
Q Consensus        75 -~~~~~~~~~~~~li~~~~~~g   95 (465)
                       .+++.+..+|..|+.-....-
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~s  102 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVLS  102 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHhc
Confidence             678888999999998655443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.64  E-value=0.49  Score=42.78  Aligned_cols=27  Identities=22%  Similarity=0.147  Sum_probs=18.5

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                      +.+++.+..-.|++++|.+..+.|...
T Consensus       308 ~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  308 VATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            455666667777777777777777654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.55  E-value=0.035  Score=46.85  Aligned_cols=89  Identities=19%  Similarity=0.286  Sum_probs=54.5

Q ss_pred             CCCHHHHHHHHHHHhcc-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----------------CHHHHH
Q 012365           78 KPNSETFRSMISLNVKI-----KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK----------------DVQGAL  136 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g----------------~~~~a~  136 (465)
                      +.|..+|-..+..+...     +.++-....++.|.+.|+..|..+|+.||+.+-+-.                +-+-++
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            34555666655555433     455555566677777777777777777776654322                123456


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHhhCChhH
Q 012365          137 MVLKEMEQANVKPDSQTFSYLIHNCSNEED  166 (465)
Q Consensus       137 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  166 (465)
                      .++++|...|+.||..+-..++.++++.+-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            666777767777776666666666666543

>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=96.52  E-value=0.0053  Score=41.89  Aligned_cols=62  Identities=10%  Similarity=0.021  Sum_probs=50.2

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHc--CCC---CC-hhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          362 KCLDFLLGACVNARDLKRAHLIWKEYENA--GLP---YN-VLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       362 ~~~~~ll~~~~~~g~~~~A~~~~~~m~~~--g~~---p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      .+|+.+...|...|++++|+..|++..+.  ..+   |+ ..++..+...|...|++++|.+++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46788889999999999999999999854  122   22 4488899999999999999999998754

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.51  E-value=0.1  Score=45.14  Aligned_cols=97  Identities=7%  Similarity=-0.005  Sum_probs=44.0

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CCCCHHHHHHHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPS--TETINSILHACEESYEFNLVRRIYPMICHHN--LKPNSETFRSMI   88 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li   88 (465)
                      .|+..+..+.+.|++++|+..|+.+.+.-+...  ...+-.+..++...|++++|...|+.+.+.-  -+.....+-.+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344444433444555555555555554321110  1233344455555555555555555555421  011122333333


Q ss_pred             HHHhccCCHHHHHHHHHHHHH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~  109 (465)
                      ..+...|+.+.|..+|+.+..
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            444455555555555555544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.43  E-value=0.027  Score=37.72  Aligned_cols=54  Identities=15%  Similarity=0.238  Sum_probs=28.5

Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .|.+.++++.|.++++.+...+ |.+...|......+.+.|++++|.+.|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3445555555555555555443 33444455555555555555555555555553

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.40  E-value=0.062  Score=46.44  Aligned_cols=93  Identities=15%  Similarity=0.134  Sum_probs=59.8

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHccCcHHHHHHHHHHHcCCC----CCccchhhH
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLE----PRAVIALIEHLNSEGELNRLIQLLEEVHDPD----YWMDGCCRL  291 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~  291 (465)
                      |...+..+.+.|++++|...|+.+....  |+    +..+..+..+|...|++++|...|+.+.+..    ..++.+..+
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            5554544455677777777777777654  33    2455566677777777777777777775422    234455556


Q ss_pred             hhHhhhcCChhHHHHHHHHHHHc
Q 012365          292 ILHCVRFKQLSSATDLLKQLKDK  314 (465)
Q Consensus       292 ~~~~~~~~~~~~a~~~~~~~~~~  314 (465)
                      ...+...|+.+.|..+|+.+.+.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            66666777788888877777663

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.36  E-value=0.7  Score=41.31  Aligned_cols=84  Identities=13%  Similarity=0.190  Sum_probs=63.5

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcC
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFK  299 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (465)
                      .+..|.-+...|+...|.++-.+.   ++ ||..-|...+.+++..++|++..++.+.    .-+|-+|-..+.+|...|
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~F---kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s----kKsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEF---KV-PDKRFWWLKIKALAENKDWDELEKFAKS----KKSPIGYEPFVEACLKYG  251 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHc---CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC----CCCCCChHHHHHHHHHCC
Confidence            455577777788888777775554   33 7888888999999999999888776543    234677888888888888


Q ss_pred             ChhHHHHHHHHH
Q 012365          300 QLSSATDLLKQL  311 (465)
Q Consensus       300 ~~~~a~~~~~~~  311 (465)
                      +..+|..+..++
T Consensus       252 ~~~eA~~yI~k~  263 (319)
T PF04840_consen  252 NKKEASKYIPKI  263 (319)
T ss_pred             CHHHHHHHHHhC
Confidence            888888887763

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

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.33  E-value=0.82  Score=41.79  Aligned_cols=372  Identities=14%  Similarity=0.124  Sum_probs=199.1

Q ss_pred             cccCHHHHHHHHHHHHhC--CCCC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC----CCCHHHH
Q 012365           23 DLLKVHVALDVVEQMVQG--ELVP------------STETINSILHACEESYEFNLVRRIYPMICHHNL----KPNSETF   84 (465)
Q Consensus        23 ~~g~~~~A~~~~~~m~~~--~~~p------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~   84 (465)
                      +.+++..|++.+....+.  +..|            |-..=+..+.++...|++.++..+++++...=+    .-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            578899999999887664  3332            222223556778899999999999998876433    3789999


Q ss_pred             HHHHHHHhccCCH---------------HHHHHHHHHHHHc------CCCCCHHHHHHHHHHHHhc--CCHHHHHHHHHH
Q 012365           85 RSMISLNVKIKDF---------------DSAYSLLDDLKEM------NLMPTASMYNAIMAGYFRK--KDVQGALMVLKE  141 (465)
Q Consensus        85 ~~li~~~~~~g~~---------------~~a~~~~~~m~~~------~~~~~~~~~~~li~~~~~~--g~~~~a~~~~~~  141 (465)
                      +.++-.+++.--.               +.+.-..++|...      .+.|-......++....-.  .+..--.++++.
T Consensus       171 d~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~  250 (549)
T PF07079_consen  171 DRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILEN  250 (549)
T ss_pred             HHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHH
Confidence            9977777654211               1111122222211      1233333333333332221  122222333333


Q ss_pred             HHHCCCCCCHHHH-HHHHHhh-CChhHHHHHHHHHHHcCCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCC
Q 012365          142 MEQANVKPDSQTF-SYLIHNC-SNEEDIIKYYEQLKSAGGQI----TKYVFMALINAYTTCGEFEKARQVVLDAEIPVKS  215 (465)
Q Consensus       142 m~~~~~~p~~~~~-~~ll~~~-~~~~~~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  215 (465)
                      -...-+.|+.... ..+...+ ....++..+-+.+....+.+    =..++..++....+.++...|.+.+.-+..-.+.
T Consensus       251 We~~yv~p~~~LVi~~L~~~f~~~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~  330 (549)
T PF07079_consen  251 WENFYVHPNYDLVIEPLKQQFMSDPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDPR  330 (549)
T ss_pred             HHhhccCCchhHHHHHHHHHHhcChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCc
Confidence            3334455654322 2222222 23333333333333222111    1346777888888999988888877653222221


Q ss_pred             hHHH------HHHHHHHHHc----CCChhHHHHHHHHHHHcCCCCCHHHH-HHHH---HHHHccCc-HHHHHHHHHHHcC
Q 012365          216 RSEV------KSALVSALAS----HGRTSDAIIVYEEIKEAGCNLEPRAV-IALI---EHLNSEGE-LNRLIQLLEEVHD  280 (465)
Q Consensus       216 ~~~~------~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~-~~ll---~~~~~~g~-~~~a~~~~~~~~~  280 (465)
                      ....      -..+-+..+.    .-+..+-+.+|.+....+  .|..-. ..|+   .-+.+.|. -++|+++++.+.+
T Consensus       331 ~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~D--iDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~  408 (549)
T PF07079_consen  331 ISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYD--IDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQ  408 (549)
T ss_pred             chhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhc--ccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            1110      1222233331    122334455666666655  343322 2232   33455555 8899999998876


Q ss_pred             CC-CCccchhhH---hh-Hh---hhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhc-CCCCchhhhHHhHHHH
Q 012365          281 PD-YWMDGCCRL---IL-HC---VRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIAT-TDPPDVQIGLDLLQFI  351 (465)
Q Consensus       281 ~~-~~~~~~~~~---~~-~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~A~~~~~~m  351 (465)
                      .. .+...-+.+   +. .|   .....+.+-.++-+-+.+.+.++....+.-+...+....+ -.+|++.++.-.-...
T Consensus       409 ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL  488 (549)
T PF07079_consen  409 FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWL  488 (549)
T ss_pred             hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            33 222211111   11 22   1334444555555555554444444433333322221100 0158888887665555


Q ss_pred             HhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          352 KDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       352 ~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      .   .+.|++.+|..+.-+.....++++|..++.+     +||+..++++-+.
T Consensus       489 ~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~-----LP~n~~~~dskvq  533 (549)
T PF07079_consen  489 T---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQK-----LPPNERMRDSKVQ  533 (549)
T ss_pred             H---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHh-----CCCchhhHHHHHH
Confidence            5   7899999999998888999999999988765     6888888876554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.30  E-value=0.81  Score=41.44  Aligned_cols=80  Identities=16%  Similarity=0.199  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCC----hHHHHHHHHHHHHc---CCChhHHHHHHHHHHHcCCCCCHHHH
Q 012365          183 KYVFMALINAYTTCGEFEKARQVVLDAEIPVKS----RSEVKSALVSALAS---HGRTSDAIIVYEEIKEAGCNLEPRAV  255 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~p~~~~~  255 (465)
                      ..+...++-.|....+++...++.+.+...+..    ...+--...-++.+   .|+.++|++++..+....-.+++.++
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            334445566788899999999999886555322    11122345566677   89999999999997666667888888


Q ss_pred             HHHHHHH
Q 012365          256 IALIEHL  262 (465)
Q Consensus       256 ~~ll~~~  262 (465)
                      ..+...|
T Consensus       221 gL~GRIy  227 (374)
T PF13281_consen  221 GLLGRIY  227 (374)
T ss_pred             HHHHHHH
Confidence            7776655

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.16  E-value=0.95  Score=40.84  Aligned_cols=49  Identities=10%  Similarity=0.100  Sum_probs=27.4

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 012365           55 ACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLL  104 (465)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  104 (465)
                      ++.+..++..|+..+....+.. +-+..-|..-...+...|++++|.-=.
T Consensus        58 ~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~da  106 (486)
T KOG0550|consen   58 AFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDA  106 (486)
T ss_pred             hHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccch
Confidence            3445566667777777766665 233444554455555556665555443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.04  E-value=0.32  Score=43.67  Aligned_cols=92  Identities=17%  Similarity=0.059  Sum_probs=46.5

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHH----HHcCCC-CCHHHHHHHHHHHHccCcHHHHHHHHHHHc-------CCCCCccc
Q 012365          220 KSALVSALASHGRTSDAIIVYEEI----KEAGCN-LEPRAVIALIEHLNSEGELNRLIQLLEEVH-------DPDYWMDG  287 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m----~~~~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~  287 (465)
                      |..|-..|.-.|+++.|+..-+.=    ++-|-+ .....+..+-.++.-.|+++.|.+.++...       .+.+....
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            555555566667777776543321    122211 112345556666666677776666665432       12222333


Q ss_pred             hhhHhhHhhhcCChhHHHHHHHHH
Q 012365          288 CCRLILHCVRFKQLSSATDLLKQL  311 (465)
Q Consensus       288 ~~~~~~~~~~~~~~~~a~~~~~~~  311 (465)
                      ..++...|--...++.|+.++.+-
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rH  301 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRH  301 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHH
Confidence            444555554555566666655543

>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=95.95  E-value=0.028  Score=38.22  Aligned_cols=60  Identities=15%  Similarity=0.236  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHh-----cCCCCC--hHHHHHHHHHHHHcCCChhHHHHHHHHH
Q 012365          184 YVFMALINAYTTCGEFEKARQVVLDA-----EIPVKS--RSEVKSALVSALASHGRTSDAIIVYEEI  243 (465)
Q Consensus       184 ~~~~~l~~~~~~~g~~~~a~~~~~~~-----~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m  243 (465)
                      .+++.+...|...|++++|+..|++.     ..++..  ...+++.+...|...|++++|++.+++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555566666666666666666541     111111  1223555556666666666666665554

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.94  E-value=0.49  Score=43.59  Aligned_cols=96  Identities=13%  Similarity=0.125  Sum_probs=66.7

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 012365           78 KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTA----SMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQT  153 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  153 (465)
                      +.+...++.+..+|...|++++|...|++..+.+  |+.    .+|..+..+|.+.|+.++|++.+++..+.+ .|   .
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~  145 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---K  145 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---h
Confidence            3457788888889999999999999999877753  553    358889999999999999999999988752 11   2


Q ss_pred             HHHHHH-----hhCChhHHHHHHHHHHHcCC
Q 012365          154 FSYLIH-----NCSNEEDIIKYYEQLKSAGG  179 (465)
Q Consensus       154 ~~~ll~-----~~~~~~~~~~~~~~~~~~~~  179 (465)
                      |..+..     .+....+..++++...+.|.
T Consensus       146 f~~i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        146 FSTILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             HHHHHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence            222211     23334455556666666553

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.85  E-value=0.11  Score=43.97  Aligned_cols=89  Identities=8%  Similarity=0.186  Sum_probs=70.6

Q ss_pred             CCHHHHHHHHHHHHh-----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc----------------CCHHHHHH
Q 012365           44 PSTETINSILHACEE-----SYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI----------------KDFDSAYS  102 (465)
Q Consensus        44 p~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------------g~~~~a~~  102 (465)
                      -|..+|-..+..+..     .+.++-....+..|.+.|+..|..+|+.||..+=+-                .+-+-+.+
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            366677777766643     356677777788888999999999999999887543                23345889


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012365          103 LLDDLKEMNLMPTASMYNAIMAGYFRKKDV  132 (465)
Q Consensus       103 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  132 (465)
                      ++++|...|+.||..+-..|++++.+.+..
T Consensus       145 vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  145 VLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            999999999999999999999999877754

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=95.78  E-value=1.3  Score=43.93  Aligned_cols=63  Identities=16%  Similarity=0.150  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-------HHHHHHHHHHHhhCC
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYE-------FNLVRRIYPMICHHN   76 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-------~~~a~~~~~~~~~~~   76 (465)
                      ..|- +|-.|.+.|++++|.++....... .......|...+..+....+       -++...-|.+..+..
T Consensus       113 p~Wa-~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~  182 (613)
T PF04097_consen  113 PIWA-LIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNS  182 (613)
T ss_dssp             EHHH-HHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-
T ss_pred             ccHH-HHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCC
Confidence            3453 777889999999999999655443 34445567777777765422       234555566555543

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=95.71  E-value=0.66  Score=36.33  Aligned_cols=87  Identities=8%  Similarity=0.003  Sum_probs=71.1

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 012365           56 CEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGA  135 (465)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a  135 (465)
                      +-..|++++|..+|.-+.-.+ +-+..-+..|..++-..+++++|...|......+ .-|+..+-....++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHH
Confidence            457899999999999988876 4567777888888888899999999998766554 35666677788889999999999


Q ss_pred             HHHHHHHHH
Q 012365          136 LMVLKEMEQ  144 (465)
Q Consensus       136 ~~~~~~m~~  144 (465)
                      ...|....+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            999988876

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.71  E-value=0.7  Score=35.67  Aligned_cols=85  Identities=9%  Similarity=-0.013  Sum_probs=42.4

Q ss_pred             HHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc
Q 012365           15 KKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI   94 (465)
Q Consensus        15 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~   94 (465)
                      ..++..+.+.+.+......++.+...+. .+...++.++..+++.. ..+..+.+..      ..+......+++.|-+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3455555555666666666666655543 45556666666665542 2333333321      11222233355555555


Q ss_pred             CCHHHHHHHHHHH
Q 012365           95 KDFDSAYSLLDDL  107 (465)
Q Consensus        95 g~~~~a~~~~~~m  107 (465)
                      +.++++.-++.++
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            5555555555444

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.67  E-value=1.5  Score=39.30  Aligned_cols=290  Identities=13%  Similarity=0.086  Sum_probs=170.8

Q ss_pred             HHHHHHHHHhc--ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HhcCCHHHHHHHHHHHhhCCCCCCHHH--HHH
Q 012365           13 SYKKLITYSCD--LLKVHVALDVVEQMVQGELVPSTETINSILHAC--EESYEFNLVRRIYPMICHHNLKPNSET--FRS   86 (465)
Q Consensus        13 ~y~~li~~~~~--~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~   86 (465)
                      -|.+|-.++.-  .|+-..|.++-.+-... +..|......|+.+-  .-.|+++.|.+-|+.|...   |....  ...
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRg  159 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRG  159 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHH
Confidence            35555555544  57777887777665432 334666666666653  3469999999999999863   22221  222


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHH--HHHHHHHhh--
Q 012365           87 MISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN-VKPDSQ--TFSYLIHNC--  161 (465)
Q Consensus        87 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~--~~~~ll~~~--  161 (465)
                      |.-.--+.|+.+.|.+.-++.-..- +.=...+...+...+..|+|+.|+++++.-++.. +.++..  .-..++.+-  
T Consensus       160 LyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~  238 (531)
T COG3898         160 LYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAM  238 (531)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHH
Confidence            3333356788888888877765442 3345778999999999999999999999877543 445542  233444431  


Q ss_pred             --CChhHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHH
Q 012365          162 --SNEEDIIKYYEQLKSAGGQITKYVF-MALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAI  237 (465)
Q Consensus       162 --~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~  237 (465)
                        .+.+.....-.......+.|+..-- .....++.+.|++.++-.+++.+ ...+.|..  +  .+-.+.+.|+  .++
T Consensus       239 s~ldadp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a--~lY~~ar~gd--ta~  312 (531)
T COG3898         239 SLLDADPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--A--LLYVRARSGD--TAL  312 (531)
T ss_pred             HHhcCChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--H--HHHHHhcCCC--cHH
Confidence              1122111111122223445554322 23357889999999999999873 34444432  2  2333445554  444


Q ss_pred             HHHHHHHHc-CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhH-hhhcCChhHHHHHHHHHHH
Q 012365          238 IVYEEIKEA-GCNLE-PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILH-CVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       238 ~~~~~m~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~  313 (465)
                      +-++....- ..+|+ ..+...+.++-...|++..|..--+...+....-..|..+... -...|+-.++...+.+..+
T Consensus       313 dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         313 DRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             HHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            433333221 23344 4556677788888888888777666665544433333333332 2345777777777666655

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.57  E-value=2.5  Score=41.04  Aligned_cols=202  Identities=12%  Similarity=0.187  Sum_probs=109.4

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc-CCCC--------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 012365           78 KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM-NLMP--------TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK  148 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  148 (465)
                      .|-+..|..+.......-.++.|+..|-+.... |++.        +...-.+=+.+|  -|++++|.++|-+|-+.++ 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            477788888877777777777777777655432 2111        111111222222  4788888888887765432 


Q ss_pred             CCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHH
Q 012365          149 PDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQIT----KYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALV  224 (465)
Q Consensus       149 p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  224 (465)
                              .+....+.|+...+++.++.-|...|    ...++.+.+.+.....|++|.+.+..-  .  .    ....+
T Consensus       766 --------Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~--~--~----~e~~~  829 (1189)
T KOG2041|consen  766 --------AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYC--G--D----TENQI  829 (1189)
T ss_pred             --------hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--c--c----hHhHH
Confidence                    23344566777777776665443333    246677777777777788887777521  1  1    12245


Q ss_pred             HHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHH
Q 012365          225 SALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSA  304 (465)
Q Consensus       225 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  304 (465)
                      .++.+..++++...+...+.+     +....-.+.+.+.+.|.-++|.+.+-.-...       -..+..|...+++.+|
T Consensus       830 ecly~le~f~~LE~la~~Lpe-----~s~llp~~a~mf~svGMC~qAV~a~Lr~s~p-------kaAv~tCv~LnQW~~a  897 (1189)
T KOG2041|consen  830 ECLYRLELFGELEVLARTLPE-----DSELLPVMADMFTSVGMCDQAVEAYLRRSLP-------KAAVHTCVELNQWGEA  897 (1189)
T ss_pred             HHHHHHHhhhhHHHHHHhcCc-----ccchHHHHHHHHHhhchHHHHHHHHHhccCc-------HHHHHHHHHHHHHHHH
Confidence            555555555555544444322     3333445555566666655555544322110       1223344455555555


Q ss_pred             HHHHHH
Q 012365          305 TDLLKQ  310 (465)
Q Consensus       305 ~~~~~~  310 (465)
                      .++-++
T Consensus       898 velaq~  903 (1189)
T KOG2041|consen  898 VELAQR  903 (1189)
T ss_pred             HHHHHh
Confidence            555443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.56  E-value=0.55  Score=42.78  Aligned_cols=144  Identities=8%  Similarity=0.067  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGE-LVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      .+|...|.+..+..-++.|..+|-++.+.| +.++...+++.+.-++ .|+...|..+|+.-...- +-++.--+-.+..
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f-~d~~~y~~kyl~f  475 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF-PDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            455566666666666777777777777766 5566667777666553 457777777777655442 2223333445566


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPT--ASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN  160 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  160 (465)
                      +.+-++-+.|..+|+.-..+ +..+  ...|..+|.--..-|+...+..+=+.|.+.  .|...+...+...
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sr  544 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSR  544 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHH
Confidence            66677777777777743321 1112  446777777777777777776666666542  3444444444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.54  E-value=0.58  Score=43.12  Aligned_cols=64  Identities=11%  Similarity=-0.059  Sum_probs=44.5

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPST----ETINSILHACEESYEFNLVRRIYPMICHH   75 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   75 (465)
                      +...|+.+-.+|.+.|++++|+..|++..+..  |+.    .+|..+..+|...|+.++|.+.++...+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45667777777777777777777777776643  332    34666777777777777777777777664

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.52  E-value=0.98  Score=44.55  Aligned_cols=143  Identities=12%  Similarity=0.182  Sum_probs=89.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHH
Q 012365          190 INAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELN  269 (465)
Q Consensus       190 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~  269 (465)
                      .+-+.+.|++++|...+-+. .+.-.+    ..+|.-|....+...-..+++.+.+.|+. +...-..|+.+|.+.++.+
T Consensus       375 gd~Ly~Kgdf~~A~~qYI~t-I~~le~----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~  448 (933)
T KOG2114|consen  375 GDYLYGKGDFDEATDQYIET-IGFLEP----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVE  448 (933)
T ss_pred             HHHHHhcCCHHHHHHHHHHH-cccCCh----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchH
Confidence            45567889999999888751 222222    22566677777777888888999999875 5556668999999999999


Q ss_pred             HHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHH
Q 012365          270 RLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQ  349 (465)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~  349 (465)
                      +..++.+... .|.+.-..-..+..+.+.+-.++|..+-.+...    .......++.    .     .+++++|++.+.
T Consensus       449 kL~efI~~~~-~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~----he~vl~ille----~-----~~ny~eAl~yi~  514 (933)
T KOG2114|consen  449 KLTEFISKCD-KGEWFFDVETALEILRKSNYLDEAELLATKFKK----HEWVLDILLE----D-----LHNYEEALRYIS  514 (933)
T ss_pred             HHHHHHhcCC-CcceeeeHHHHHHHHHHhChHHHHHHHHHHhcc----CHHHHHHHHH----H-----hcCHHHHHHHHh
Confidence            9888887766 454432233344444455555555544333221    1222222222    2     377888877777


Q ss_pred             HHH
Q 012365          350 FIK  352 (465)
Q Consensus       350 ~m~  352 (465)
                      .+.
T Consensus       515 slp  517 (933)
T KOG2114|consen  515 SLP  517 (933)
T ss_pred             cCC
Confidence            655

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.52  E-value=0.7  Score=34.45  Aligned_cols=68  Identities=18%  Similarity=0.193  Sum_probs=51.4

Q ss_pred             CcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCC
Q 012365          359 PSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDP  427 (465)
Q Consensus       359 p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  427 (465)
                      .+...++..+.....+|+-++-.+++.++.+. -.+++....-+..+|.+.|+..++.+++.+.-++|.
T Consensus        84 ~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   84 KLSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             ---HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             chHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            45566788889999999999999999999874 488999999999999999999999999998887775

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.50  E-value=1.8  Score=39.11  Aligned_cols=89  Identities=12%  Similarity=0.010  Sum_probs=61.1

Q ss_pred             HHHHcCCChhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCC
Q 012365          225 SALASHGRTSDAIIVYEEIKEA---GCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQ  300 (465)
Q Consensus       225 ~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  300 (465)
                      .-..++|.+..|.+.+.+.+..   ++.|+...|........+.|+.++|+.-.+.....+.. +.++..-..++.-.+.
T Consensus       257 N~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  257 NDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEK  336 (486)
T ss_pred             hhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHH
Confidence            3456788888899888887754   35556666777777778888888888877776654322 2334444455566777


Q ss_pred             hhHHHHHHHHHHH
Q 012365          301 LSSATDLLKQLKD  313 (465)
Q Consensus       301 ~~~a~~~~~~~~~  313 (465)
                      +++|.+-|+...+
T Consensus       337 ~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHHHHHHHHHh
Confidence            8888888777666

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.46  E-value=0.022  Score=33.58  Aligned_cols=27  Identities=11%  Similarity=-0.101  Sum_probs=13.2

Q ss_pred             HHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          364 LDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       364 ~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      +..+..+|...|++++|.++|+++.+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            334444455555555555555555544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.44  E-value=0.55  Score=44.72  Aligned_cols=119  Identities=13%  Similarity=0.165  Sum_probs=76.1

Q ss_pred             cCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhh-cCCC-CcHHHHHHHHHHhHhhh
Q 012365          298 FKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDE-LGLP-PSRKCLDFLLGACVNAR  375 (465)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~-~~~~-p~~~~~~~ll~~~~~~g  375 (465)
                      ....+.|.+++..+... -|+..-|...-..+...     .|++++|++.|++.... ...+ .....+--+...+.-.+
T Consensus       246 ~~~~~~a~~lL~~~~~~-yP~s~lfl~~~gR~~~~-----~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~  319 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR-YPNSALFLFFEGRLERL-----KGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQH  319 (468)
T ss_pred             CCCHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHH-----hcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHc
Confidence            45667777888777763 24444444433333333     58888888888865511 1111 12334455677788889


Q ss_pred             hhhHHHHHHHHHHHcCCCCChhHHHHHHH-HHHhcCCh-------hhHHHHHhccC
Q 012365          376 DLKRAHLIWKEYENAGLPYNVLSYLWMYK-AFLASGNR-------KSASKLLSKMP  423 (465)
Q Consensus       376 ~~~~A~~~~~~m~~~g~~p~~~~~~~l~~-~~~~~g~~-------~~A~~~~~~m~  423 (465)
                      ++++|.+.|..+.+.. ..+..+|.-+.. ++...|+.       ++|.++++++.
T Consensus       320 ~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  320 DWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             hHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            9999999999998753 444555554444 45567877       88888888765

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=95.42  E-value=0.54  Score=36.79  Aligned_cols=91  Identities=8%  Similarity=0.027  Sum_probs=72.0

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      .-..+-..|++++|..+|..+.-.++. +..-+..|..++-..+++++|...|......+ .-|+..+-....++...|+
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~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCC
Confidence            344455789999999999999876544 55556666667777899999999999887665 3455556667788999999


Q ss_pred             HHHHHHHHHHHHH
Q 012365           97 FDSAYSLLDDLKE  109 (465)
Q Consensus        97 ~~~a~~~~~~m~~  109 (465)
                      .+.|...|+....
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998887

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.41  E-value=1.9  Score=39.01  Aligned_cols=86  Identities=12%  Similarity=0.068  Sum_probs=58.2

Q ss_pred             CchhhhHHhHHHHHh---hcCC-CCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHH----cC-CCCChhHHHHHHHHHHhc
Q 012365          339 PDVQIGLDLLQFIKD---ELGL-PPSRKCLDFLLGACVNARDLKRAHLIWKEYEN----AG-LPYNVLSYLWMYKAFLAS  409 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~---~~~~-~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~----~g-~~p~~~~~~~l~~~~~~~  409 (465)
                      |+++.|.+.|+....   +.|- .-...+..+|...|.-..++.+|..++.+=..    .+ .--...++-+|..+|...
T Consensus       249 g~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~al  328 (639)
T KOG1130|consen  249 GNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNAL  328 (639)
T ss_pred             cccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh
Confidence            777777777765441   1121 12344566788888888899999888765432    11 123456788899999999


Q ss_pred             CChhhHHHHHhccCC
Q 012365          410 GNRKSASKLLSKMPK  424 (465)
Q Consensus       410 g~~~~A~~~~~~m~~  424 (465)
                      |..++|..+.+.-++
T Consensus       329 g~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  329 GEHRKALYFAELHLR  343 (639)
T ss_pred             hhHHHHHHHHHHHHH
Confidence            999999988876553

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.29  E-value=0.8  Score=41.24  Aligned_cols=122  Identities=7%  Similarity=-0.022  Sum_probs=65.2

Q ss_pred             HHhcccCHHHHHHHHHHHHhC-----CCCC---------CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365           20 YSCDLLKVHVALDVVEQMVQG-----ELVP---------STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus        20 ~~~~~g~~~~A~~~~~~m~~~-----~~~p---------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      .|.+.|++..|...|++....     +..+         -...+..+..++.+.+++..|.+.-+..+..+ ++|+...-
T Consensus       217 ~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALy  295 (397)
T KOG0543|consen  217 VLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALY  295 (397)
T ss_pred             HHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHH
Confidence            566778888888887775431     1111         11234455555666666666666666666655 45555555


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH-HHHHHHHHHH
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQ-GALMVLKEME  143 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~m~  143 (465)
                      .-..++...|+++.|+..|+++.+.. |-|...-+-++....+..... ...++|..|.
T Consensus       296 RrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  296 RRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLKQKIREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            55666666666666666666666542 223333333333333333222 2244555554

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.24  E-value=2  Score=37.84  Aligned_cols=222  Identities=9%  Similarity=0.019  Sum_probs=117.6

Q ss_pred             HhcCCHHHHHHHHHHhcC---CCCChHH------HHHHHHHHHHcCC-ChhHHHHHHHHHHHc--------CCCCCH---
Q 012365          194 TTCGEFEKARQVVLDAEI---PVKSRSE------VKSALVSALASHG-RTSDAIIVYEEIKEA--------GCNLEP---  252 (465)
Q Consensus       194 ~~~g~~~~a~~~~~~~~~---~~~~~~~------~~~~l~~~~~~~g-~~~~a~~~~~~m~~~--------~~~p~~---  252 (465)
                      .+.|+.+.|...+.+...   ...|...      .|+.=... ...+ +++.|..++++..+.        ...|+.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l-~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSL-LSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHH-HHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            466777888777766221   1111111      13333333 3444 777777666654332        223343   


Q ss_pred             --HHHHHHHHHHHccCcHH---HHHHHHHHHcCCC-CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHH
Q 012365          253 --RAVIALIEHLNSEGELN---RLIQLLEEVHDPD-YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHF  326 (465)
Q Consensus       253 --~~~~~ll~~~~~~g~~~---~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (465)
                        .++..++.++...+..+   +|.++++.+.... -.+..+..-+..+.+.++.+++.+.+.+|.....-...++...+
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l  162 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHH
Confidence              24556677777766554   4555666664433 33555555666666678888888888888875433444444444


Q ss_pred             HHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHH-HHH-HHHH---HhHhh------hhhhHHHHHHHHHHH-cCCCC
Q 012365          327 SEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRK-CLD-FLLG---ACVNA------RDLKRAHLIWKEYEN-AGLPY  394 (465)
Q Consensus       327 ~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~-~~~-~ll~---~~~~~------g~~~~A~~~~~~m~~-~g~~p  394 (465)
                      ..+.....    .....|...+..+. ...+.|... ... .++.   .....      +.++....+++.+.+ .+.+.
T Consensus       163 ~~i~~l~~----~~~~~a~~~ld~~l-~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~l  237 (278)
T PF08631_consen  163 HHIKQLAE----KSPELAAFCLDYLL-LNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQL  237 (278)
T ss_pred             HHHHHHHh----hCcHHHHHHHHHHH-HHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCC
Confidence            43322211    33455666666666 555555443 111 1111   11221      124555555664443 23455


Q ss_pred             ChhHHHHHHH-------HHHhcCChhhHHHHHhc
Q 012365          395 NVLSYLWMYK-------AFLASGNRKSASKLLSK  421 (465)
Q Consensus       395 ~~~~~~~l~~-------~~~~~g~~~~A~~~~~~  421 (465)
                      +..+-.++..       .+.+.+++++|.++|+-
T Consensus       238 s~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  238 SAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            5554444433       35567899999998873

It is also involved in sporulation [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.19  E-value=2.3  Score=38.29  Aligned_cols=67  Identities=16%  Similarity=0.151  Sum_probs=48.9

Q ss_pred             CCCCc-HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-cCChhhHHHHHhccCC
Q 012365          356 GLPPS-RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLA-SGNRKSASKLLSKMPK  424 (465)
Q Consensus       356 ~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~m~~  424 (465)
                      ..+|| ..+.-.+..+....|++..|+.--+...+  ..|....|..|.+.-.- .||-.++..++-+..+
T Consensus       323 slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         323 SLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             hcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            45564 44555666777788888888877776666  47888888888876544 4899999998888764

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.03  E-value=1.3  Score=34.79  Aligned_cols=138  Identities=11%  Similarity=0.060  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHH--HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHH-HHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINS--ILHACEESYEFNLVRRIYPMICHHNLKPNSE-TFRSM   87 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~--ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l   87 (465)
                      ...|..-+. +.+.+..++|+.-|..+.+.|...-+ .+..  ........|+...|...|+++-...-.|-+. -...|
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~Yp-vLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYP-VLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcch-HHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            344544444 35678899999999999998776221 2211  2223567899999999999987754333332 11111


Q ss_pred             --HHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 012365           88 --ISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD  150 (465)
Q Consensus        88 --i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  150 (465)
                        .-.+...|.++.+..-.+-+...+-+.....-..|.-+-.+.|++.+|.+.|..+......|.
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~apr  201 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPR  201 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcH
Confidence              123567789999998888887766555666677888888899999999999999886544443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.77  E-value=0.092  Score=30.91  Aligned_cols=39  Identities=23%  Similarity=0.284  Sum_probs=33.0

Q ss_pred             hHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHH
Q 012365          397 LSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQA  435 (465)
Q Consensus       397 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~  435 (465)
                      .++..+...|.+.|++++|.++++++++.+|........
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~   40 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRA   40 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHH
Confidence            467889999999999999999999999999976555443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.75  E-value=0.51  Score=40.76  Aligned_cols=77  Identities=12%  Similarity=0.211  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ-----ANVKPDSQTFSYL  157 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~~~l  157 (465)
                      ++..++..+...|+++.+...++++.... +-+...|..+|.+|.+.|+...|+..|+.+..     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            45667778888899999999999999876 67999999999999999999999999998864     5677776665544


Q ss_pred             HHh
Q 012365          158 IHN  160 (465)
Q Consensus       158 l~~  160 (465)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.71  E-value=2.9  Score=37.03  Aligned_cols=130  Identities=21%  Similarity=0.323  Sum_probs=71.1

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh--cC----CHHHHHHHHHHHHHCC---CCCCHHHHHHHHHhhCCh---
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR--KK----DVQGALMVLKEMEQAN---VKPDSQTFSYLIHNCSNE---  164 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~--~g----~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~---  164 (465)
                      +++...+++.|.+.|+..+..+|-+.......  ..    ....|.++|+.|++..   -.++...+..++..-...   
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~~~e~  157 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTSEDVEE  157 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhcccccHHH
Confidence            45566788889999888887766553333322  22    3457888889988754   235556666665542211   


Q ss_pred             --hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCC--hhHHHHHH
Q 012365          165 --EDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGR--TSDAIIVY  240 (465)
Q Consensus       165 --~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~  240 (465)
                        +.++.+++.+.+.|+.                                ..+.......++...-....  ..++.+++
T Consensus       158 l~~~~E~~Y~~L~~~~f~--------------------------------kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~  205 (297)
T PF13170_consen  158 LAERMEQCYQKLADAGFK--------------------------------KGNDLQFLSHILALSEGDDQEKVARVIELY  205 (297)
T ss_pred             HHHHHHHHHHHHHHhCCC--------------------------------CCcHHHHHHHHHHhccccchHHHHHHHHHH
Confidence              1122333333333322                                22222211222221111111  45778888


Q ss_pred             HHHHHcCCCCCHHHHHHH
Q 012365          241 EEIKEAGCNLEPRAVIAL  258 (465)
Q Consensus       241 ~~m~~~~~~p~~~~~~~l  258 (465)
                      +.+.+.|+++....|..+
T Consensus       206 ~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  206 NALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHcCCccccccccHH
Confidence            999999988887777544

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.56  E-value=1.4  Score=32.89  Aligned_cols=123  Identities=16%  Similarity=0.132  Sum_probs=75.7

Q ss_pred             hcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-----------------CCCCHHHH
Q 012365           22 CDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHN-----------------LKPNSETF   84 (465)
Q Consensus        22 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----------------~~~~~~~~   84 (465)
                      .-.|.+++..++..+...+.   +..-+|-++--....-+-+-..++++.+-+.-                 ...+....
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~v   89 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEYV   89 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HHH
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHHH
Confidence            34688889999998887642   34445555544444444444444444433210                 01244556


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 012365           85 RSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK  148 (465)
Q Consensus        85 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  148 (465)
                      +..++.+...|+-+.-.+++.++...+ .+++...-.+..+|.+.|+..++.+++.+.-+.|++
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            677788888888888888888887543 688888888999999999999999999999888863

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.55  E-value=0.63  Score=39.61  Aligned_cols=49  Identities=10%  Similarity=0.042  Sum_probs=23.8

Q ss_pred             cCcHHHHHHHHHHHcCCC----CCccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          265 EGELNRLIQLLEEVHDPD----YWMDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       265 ~g~~~~a~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      .|++..|...|....+..    ..++.++++...+...|++++|..+|..+.+
T Consensus       154 sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k  206 (262)
T COG1729         154 SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVK  206 (262)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            344555555444444322    2244455555555555555555555555544

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=94.50  E-value=4.2  Score=38.06  Aligned_cols=180  Identities=14%  Similarity=0.105  Sum_probs=103.2

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhh-HhhHhhhc
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCR-LILHCVRF  298 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~~~  298 (465)
                      ..+++..+..+-...-+..+..+|..-|  -+...|..++++|... ..+.-..+|+.+.+....-..... +...| ..
T Consensus        69 l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfnDvv~~ReLa~~y-Ek  144 (711)
T COG1747          69 LVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFNDVVIGRELADKY-EK  144 (711)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcchhHHHHHHHHHHH-HH
Confidence            4455556666555666666666666655  4555566666666555 444555555555544433222222 22223 33


Q ss_pred             CChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhh
Q 012365          299 KQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLK  378 (465)
Q Consensus       299 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~  378 (465)
                      .+...+..+|.++.....|..  .++-+.++...+..--..+.+..+.+...+....|..--...+.-+-.-|....+++
T Consensus       145 ik~sk~a~~f~Ka~yrfI~~~--q~~~i~evWeKL~~~i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN~~  222 (711)
T COG1747         145 IKKSKAAEFFGKALYRFIPRR--QNAAIKEVWEKLPELIGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENENWT  222 (711)
T ss_pred             hchhhHHHHHHHHHHHhcchh--hhhhHHHHHHHHHHhccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccCHH
Confidence            566666666666655433311  112222222222221136677777777777755666666667777777888889999


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHH
Q 012365          379 RAHLIWKEYENAGLPYNVLSYLWMYKAF  406 (465)
Q Consensus       379 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~  406 (465)
                      +|.+++..+.++. ..|.-.-..++.-+
T Consensus       223 eai~Ilk~il~~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         223 EAIRILKHILEHD-EKDVWARKEIIENL  249 (711)
T ss_pred             HHHHHHHHHhhhc-chhhhHHHHHHHHH
Confidence            9999999888874 55666666666544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.46  E-value=3.9  Score=37.57  Aligned_cols=144  Identities=10%  Similarity=0.021  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHcCCC-CCccc--hhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHH
Q 012365          253 RAVIALIEHLNSEGELNRLIQLLEEVHDPD-YWMDG--CCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEI  329 (465)
Q Consensus       253 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (465)
                      ..|...+.+..+...++.|..+|-+..+.+ ..++.  ++..+..+ ..|+..-|.++|+--....+....-.+-.+.-+
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            345667777788888899999999998877 33443  34555554 678888888888865554433333333333333


Q ss_pred             HHhhhcCCCCchhhhHHhHHHHHhhcCCCCc--HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 012365          330 FCQIATTDPPDVQIGLDLLQFIKDELGLPPS--RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFL  407 (465)
Q Consensus       330 ~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  407 (465)
                      +..      ++-+.|..+|+....  .+..+  ...|..+|.--..-|+...+..+-+.|.+.  -|-..+......-|.
T Consensus       477 i~i------nde~naraLFetsv~--r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         477 IRI------NDEENARALFETSVE--RLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHh------CcHHHHHHHHHHhHH--HHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            333      778888888886551  22222  457888888778888888888887887774  444444444444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.45  E-value=1.5  Score=32.68  Aligned_cols=91  Identities=10%  Similarity=-0.065  Sum_probs=52.8

Q ss_pred             HHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHH---HHHHHHHHhccCC
Q 012365           20 YSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSET---FRSMISLNVKIKD   96 (465)
Q Consensus        20 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~   96 (465)
                      +++..|+.+.|++.|.+....- +-....||.-..++.-.|+.++|++=+++..+..-..+...   |..-...|-..|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            4455677777777777666542 23566677777777667777777766666665322223222   2222334555566


Q ss_pred             HHHHHHHHHHHHHcC
Q 012365           97 FDSAYSLLDDLKEMN  111 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~  111 (465)
                      .+.|..=|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666655554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.39  E-value=1  Score=40.63  Aligned_cols=76  Identities=24%  Similarity=0.183  Sum_probs=60.3

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh---hHHHHHHHh
Q 012365          362 KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV---RFVIQACKQ  438 (465)
Q Consensus       362 ~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~---~~~l~~~~~  438 (465)
                      .++..+.-+|.+.+++..|++.-++.+..+ ++|+..+-.=..+|...|+++.|+..|+++++.+|.+   ..-|..|..
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~  336 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQ  336 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            356667778888899999999988888874 7888888888889999999999999999999888865   333444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.35  E-value=3.5  Score=36.51  Aligned_cols=137  Identities=13%  Similarity=0.222  Sum_probs=66.7

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc--cC----cHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHH
Q 012365          233 TSDAIIVYEEIKEAGCNLEPRAVIALIEHLNS--EG----ELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATD  306 (465)
Q Consensus       233 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~g----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  306 (465)
                      +++.+.+++.|.+.|++-+..+|.+.......  ..    ...++..+++.|++.-+...+                   
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs-------------------  138 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTS-------------------  138 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccC-------------------
Confidence            34466788888888887777666543332222  22    233556666666554433221                   


Q ss_pred             HHHHHHHcccchhHHHHHHHHHHHHhhhcCC-CCchhhhHHhHHHHHhhcCCCCcH--HHHHHHHHHhHhh--hhhhHHH
Q 012365          307 LLKQLKDKFKDDEMAMEYHFSEIFCQIATTD-PPDVQIGLDLLQFIKDELGLPPSR--KCLDFLLGACVNA--RDLKRAH  381 (465)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~A~~~~~~m~~~~~~~p~~--~~~~~ll~~~~~~--g~~~~A~  381 (465)
                                ++..++..++..     ...+ ..-.+....+|+.+. ..|+..+.  ...+.++..+...  ....++.
T Consensus       139 ----------~~D~~~a~lLA~-----~~~~~e~l~~~~E~~Y~~L~-~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~  202 (297)
T PF13170_consen  139 ----------PEDYPFAALLAM-----TSEDVEELAERMEQCYQKLA-DAGFKKGNDLQFLSHILALSEGDDQEKVARVI  202 (297)
T ss_pred             ----------ccchhHHHHHhc-----ccccHHHHHHHHHHHHHHHH-HhCCCCCcHHHHHHHHHHhccccchHHHHHHH
Confidence                      222222222211     0000 011233444555555 45555432  2333333332221  1245677


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHH
Q 012365          382 LIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       382 ~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      ++++.+.+.|+++....|..+.-
T Consensus       203 ~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  203 ELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHcCCccccccccHHHH
Confidence            77777777777777776665554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.22  E-value=0.57  Score=39.84  Aligned_cols=94  Identities=17%  Similarity=0.144  Sum_probs=52.2

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC----CCccchhhHhh
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGC--NLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD----YWMDGCCRLIL  293 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~~~  293 (465)
                      |+.-+..| ..|++..|...|....+...  .-.+..+-.|.+++...|+++.|-.+|..+.+.-    -.|++...+..
T Consensus       145 Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         145 YNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            44444433 34556666666666665531  1113334456666666666666666665554321    22455566666


Q ss_pred             HhhhcCChhHHHHHHHHHHHc
Q 012365          294 HCVRFKQLSSATDLLKQLKDK  314 (465)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~  314 (465)
                      ...+.|+.++|...|+++.+.
T Consensus       224 ~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         224 SLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHHHH
Confidence            666677777777777776663

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.20  E-value=0.062  Score=29.53  Aligned_cols=32  Identities=22%  Similarity=0.294  Sum_probs=25.4

Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCChhhHH
Q 012365          384 WKEYENAGLPYNVLSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       384 ~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  416 (465)
                      |++.++. -|.|+.+|+.+...|...|++++|+
T Consensus         2 y~kAie~-~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIEL-NPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHH-CCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            4555665 3778889999999999999999886

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.18  E-value=1.6  Score=37.66  Aligned_cols=121  Identities=11%  Similarity=0.001  Sum_probs=72.4

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHH
Q 012365           21 SCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSA  100 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  100 (465)
                      ....|++.+|..+|....+.... +...-..+..++...|+.+.|..++..+...--.........-|..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            44567777777777777665433 34455566677777777777777777765432122222223345555555555555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365          101 YSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       101 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ..+-.+.-..  +-|...-..+...+...|+.+.|++.+-.+..
T Consensus       223 ~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~  264 (304)
T COG3118         223 QDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLR  264 (304)
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555442  22566666677777777777777776666554

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.17  E-value=3.2  Score=35.89  Aligned_cols=76  Identities=13%  Similarity=0.274  Sum_probs=63.2

Q ss_pred             HhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc-CCCCChhHHHHHHHHHHhcCChhhHHHHHhc
Q 012365          346 DLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA-GLPYNVLSYLWMYKAFLASGNRKSASKLLSK  421 (465)
Q Consensus       346 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  421 (465)
                      ++.+-+....+..++..+...++..++..+++.+-.++|+.-... +..-|...|..+++.....|+..-..+++++
T Consensus       187 EvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  187 EVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            333444435667888999999999999999999999999998865 6677889999999999999998877777765

>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=94.01  E-value=2.5  Score=33.52  Aligned_cols=132  Identities=15%  Similarity=0.195  Sum_probs=71.3

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCCh-hHHHHHHHHH-HHcCC
Q 012365          102 SLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNE-EDIIKYYEQL-KSAGG  179 (465)
Q Consensus       102 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-~~~~~~~~~~-~~~~~  179 (465)
                      +.++.+.+.+++|+...|..+++.+.+.|++..    +..+...++-||.......+-..+.. ..+.++--.| ++.+ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~-   89 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG-   89 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh-
Confidence            445556667778888888888888888887543    44555567777766665555443322 2222221122 2212 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          180 QITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       180 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                          ..+..++..+...|++-+|.++.+........+   ...++.+-.+.++...-..+++-..+
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~---~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKVDSVP---ARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCC---HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                124455566667777777777776421111111   23455555555555554445444444

>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=93.99  E-value=2.6  Score=39.70  Aligned_cols=68  Identities=19%  Similarity=0.137  Sum_probs=36.6

Q ss_pred             CchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHH
Q 012365          339 PDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKL  418 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  418 (465)
                      |+++-|.+.|.+..          -|..|+-.|...|+.+.-.++.+.....|-      ++....++.-.|+.++..++
T Consensus       361 g~~~lAe~c~~k~~----------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~l  424 (443)
T PF04053_consen  361 GNIELAEECYQKAK----------DFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDL  424 (443)
T ss_dssp             TBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHH
T ss_pred             CCHHHHHHHHHhhc----------CccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHH
Confidence            66666666666555          344555556666666666666666555541      34444444455666666665


Q ss_pred             Hhcc
Q 012365          419 LSKM  422 (465)
Q Consensus       419 ~~~m  422 (465)
                      +.+.
T Consensus       425 L~~~  428 (443)
T PF04053_consen  425 LIET  428 (443)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            5543

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.96  E-value=0.99  Score=39.06  Aligned_cols=81  Identities=7%  Similarity=0.047  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH-----cCCCCCHHHHHH
Q 012365           47 ETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKE-----MNLMPTASMYNA  121 (465)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~  121 (465)
                      .++..++..+...|+.+.+...++.+.... +-+...|..+|.+|.+.|+...|...|+.+.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            467778888888888999999988888875 66888899999999999999999888887754     588888888877


Q ss_pred             HHHHHHh
Q 012365          122 IMAGYFR  128 (465)
Q Consensus       122 li~~~~~  128 (465)
                      ......+
T Consensus       233 y~~~~~~  239 (280)
T COG3629         233 YEEILRQ  239 (280)
T ss_pred             HHHHhcc
Confidence            7777433

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.88  E-value=1.6  Score=33.41  Aligned_cols=77  Identities=13%  Similarity=0.081  Sum_probs=49.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHhcCCCCChH---HHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 012365          190 INAYTTCGEFEKARQVVLDAEIPVKSRS---EVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEG  266 (465)
Q Consensus       190 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g  266 (465)
                      .....+.|++++|.+.|+.+....+...   ...-.++.+|...+++++|...+++.++....-...-|...+.+++.-.
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            3445677888888888887543322211   1255678888888888888888888887663323344555566555433

>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=93.79  E-value=5  Score=37.86  Aligned_cols=135  Identities=17%  Similarity=0.059  Sum_probs=80.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365          183 KYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHL  262 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  262 (465)
                      ....+.++..+-+.|-.+.|+++-++      +     ..-.....+.|+.+.|.++.++      ..++..|..|-...
T Consensus       295 ~~~~~~i~~fL~~~G~~e~AL~~~~D------~-----~~rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~A  357 (443)
T PF04053_consen  295 KDQGQSIARFLEKKGYPELALQFVTD------P-----DHRFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEA  357 (443)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHSS-------H-----HHHHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHhhcCC------h-----HHHhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHH
Confidence            33455555556666666666555421      0     1112233445666666554332      24788999999999


Q ss_pred             HccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchh
Q 012365          263 NSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQ  342 (465)
Q Consensus       263 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  342 (465)
                      ...|+++-|.+.+++..+       +..+...|...|+.+...++.+.....+..+......++     .      |+++
T Consensus       358 L~~g~~~lAe~c~~k~~d-------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~~n~af~~~~~-----l------gd~~  419 (443)
T PF04053_consen  358 LRQGNIELAEECYQKAKD-------FSGLLLLYSSTGDREKLSKLAKIAEERGDINIAFQAALL-----L------GDVE  419 (443)
T ss_dssp             HHTTBHHHHHHHHHHCT--------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-HHHHHHHHHH-----H------T-HH
T ss_pred             HHcCCHHHHHHHHHhhcC-------ccccHHHHHHhCCHHHHHHHHHHHHHccCHHHHHHHHHH-----c------CCHH
Confidence            999999999999998764       456666777888887777777666654333333333322     2      7888


Q ss_pred             hhHHhHHHHH
Q 012365          343 IGLDLLQFIK  352 (465)
Q Consensus       343 ~A~~~~~~m~  352 (465)
                      +..+++.+..
T Consensus       420 ~cv~lL~~~~  429 (443)
T PF04053_consen  420 ECVDLLIETG  429 (443)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHcC
Confidence            8777776543

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.70  E-value=3.7  Score=34.47  Aligned_cols=210  Identities=14%  Similarity=0.192  Sum_probs=104.9

Q ss_pred             CCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHH
Q 012365           42 LVPST----ETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTAS  117 (465)
Q Consensus        42 ~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  117 (465)
                      .+||.    ..|.....+|...+++++|...+....+. ...+...|.       ....++.|.-+.+++...  +--+.
T Consensus        23 wkad~dgaas~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~kl--sEvvd   92 (308)
T KOG1585|consen   23 WKADWDGAASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVD   92 (308)
T ss_pred             cCCCchhhHHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHH
Confidence            45554    34555566777788888888877766532 122333322       223345555555555542  12234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH--CCCCCCHH--HHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365          118 MYNAIMAGYFRKKDVQGALMVLKEMEQ--ANVKPDSQ--TFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAY  193 (465)
Q Consensus       118 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~p~~~--~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  193 (465)
                      .|+.-...|...|.++.|-..+++.-+  .++.|+..  .|..-+...-..+.....++            .+..+-+.+
T Consensus        93 l~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~e------------l~gk~sr~l  160 (308)
T KOG1585|consen   93 LYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFE------------LYGKCSRVL  160 (308)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHH------------HHHHhhhHh
Confidence            456666667777777766666655432  23555532  22222222222222222222            233344556


Q ss_pred             HhcCCHHHHHHHHHHh-----cCCCCC-hHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHc
Q 012365          194 TTCGEFEKARQVVLDA-----EIPVKS-RSEVKSALVSALASHGRTSDAIIVYEEIKEAG---CNLEPRAVIALIEHLNS  264 (465)
Q Consensus       194 ~~~g~~~~a~~~~~~~-----~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~  264 (465)
                      .+...+++|-..|.+.     ....-+ ....|...|-.+.-..++..|.+.++.-.+.+   -.-+..+...|+.+| .
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            6666776666655431     111111 11124445555566667788888877754432   122345566666665 3


Q ss_pred             cCcHHHHHHH
Q 012365          265 EGELNRLIQL  274 (465)
Q Consensus       265 ~g~~~~a~~~  274 (465)
                      .|+.+++.++
T Consensus       240 ~gD~E~~~kv  249 (308)
T KOG1585|consen  240 EGDIEEIKKV  249 (308)
T ss_pred             cCCHHHHHHH
Confidence            4555554443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=93.57  E-value=0.93  Score=36.59  Aligned_cols=60  Identities=7%  Similarity=0.129  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHH
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHHNLKPN--SETFRSMISLNVKIKDFDSAYSLLDDL  107 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m  107 (465)
                      .+..+...|.+.|+.+.|.+.|..+.+....+.  ...+-.+|......+++..+.....+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            344444555555555555555555544332222  223444455555555555555444443

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.57  E-value=0.39  Score=36.71  Aligned_cols=47  Identities=19%  Similarity=0.205  Sum_probs=23.7

Q ss_pred             CchhhhHHhHHHHHhhcCCCCcH---HHHHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          339 PDVQIGLDLLQFIKDELGLPPSR---KCLDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p~~---~~~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      ++++++..++..|.   -+.|+.   .++...+  +...|++++|.++|+++.+.
T Consensus        24 ~d~~D~e~lLdALr---vLrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        24 ADPYDAQAMLDALR---VLRPNLKELDMFDGWL--LIARGNYDEAARILRELLSS   73 (153)
T ss_pred             CCHHHHHHHHHHHH---HhCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhcc
Confidence            55555555555555   333332   2332222  34556666666666665553

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK11906 transcriptional regulator; Provisional

Probab=93.50  E-value=3.7  Score=38.17  Aligned_cols=99  Identities=16%  Similarity=0.222  Sum_probs=74.6

Q ss_pred             CCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHH
Q 012365          338 PPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  416 (465)
                      .....+|.++-+...   .+.| |+.....+..+....|+++.|...|++....+ |....+|......+.-.|+.++|.
T Consensus       317 ~~~~~~a~~~A~rAv---eld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~  392 (458)
T PRK11906        317 ELAAQKALELLDYVS---DITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEAR  392 (458)
T ss_pred             hHHHHHHHHHHHHHH---hcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHH
Confidence            355666777777777   4444 66666667777777888999999999999873 555567777777788899999999


Q ss_pred             HHHhccCCCCCCh--hHHHHHHHhhc
Q 012365          417 KLLSKMPKDDPHV--RFVIQACKQTY  440 (465)
Q Consensus       417 ~~~~~m~~~~~~~--~~~l~~~~~~~  440 (465)
                      +.+++.++.+|.-  -+++.-|...|
T Consensus       393 ~~i~~alrLsP~~~~~~~~~~~~~~~  418 (458)
T PRK11906        393 ICIDKSLQLEPRRRKAVVIKECVDMY  418 (458)
T ss_pred             HHHHHHhccCchhhHHHHHHHHHHHH
Confidence            9999999988842  55666666443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.31  E-value=0.13  Score=28.72  Aligned_cols=26  Identities=8%  Similarity=0.091  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          398 SYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       398 ~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      +|..|...|.+.|++++|.+++++.+
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            47788899999999999999998844

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.24  E-value=2.7  Score=31.42  Aligned_cols=91  Identities=12%  Similarity=-0.018  Sum_probs=66.6

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHH---HHHHHHhcCC
Q 012365           55 ACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNA---IMAGYFRKKD  131 (465)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~---li~~~~~~g~  131 (465)
                      +++..|+++.|++.|.+....- +.....||.-..++--.|+.++|.+=+++..+..-..+.....+   -...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            4677899999999999887754 56788899999999989999999888887765432333332222   2345667788


Q ss_pred             HHHHHHHHHHHHHCC
Q 012365          132 VQGALMVLKEMEQAN  146 (465)
Q Consensus       132 ~~~a~~~~~~m~~~~  146 (465)
                      .+.|..-|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            888888888777665

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=93.02  E-value=4.6  Score=33.56  Aligned_cols=174  Identities=15%  Similarity=0.128  Sum_probs=96.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhcC--CCCC-hHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365          186 FMALINAYTTCGEFEKARQVVLDAEI--PVKS-RSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHL  262 (465)
Q Consensus       186 ~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  262 (465)
                      .-.....+...|++++|.+.|+.+..  +..+ .....-.++.++.+.|+++.|...++++.+.-..-....+...+.+.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~   87 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            33445567789999999999998432  2222 22235678889999999999999999988875222222233333333


Q ss_pred             Hcc-------------CcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHH
Q 012365          263 NSE-------------GELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEI  329 (465)
Q Consensus       263 ~~~-------------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (465)
                      +..             +...+|...|+.+.             .-|-......+|...+..+...    .......+..+
T Consensus        88 ~~~~~~~~~~~~~~D~~~~~~A~~~~~~li-------------~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~  150 (203)
T PF13525_consen   88 SYYKQIPGILRSDRDQTSTRKAIEEFEELI-------------KRYPNSEYAEEAKKRLAELRNR----LAEHELYIARF  150 (203)
T ss_dssp             HHHHHHHHHH-TT---HHHHHHHHHHHHHH-------------HH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHH
T ss_pred             HHHHhCccchhcccChHHHHHHHHHHHHHH-------------HHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHH
Confidence            221             22234455555444             3333555666666666655542    11111112222


Q ss_pred             HHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHH
Q 012365          330 FCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAH  381 (465)
Q Consensus       330 ~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~  381 (465)
                      +..     .|.+..|..-++.+.+...-.| .......++.++.+.|..+.|.
T Consensus       151 Y~~-----~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  151 YYK-----RGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHC-----TT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHH-----cccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            222     4888889988888883333222 2235566778888888877554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.92  E-value=4.8  Score=37.67  Aligned_cols=59  Identities=17%  Similarity=0.155  Sum_probs=44.6

Q ss_pred             HHHHHHhHhhhhhhHHHHHHHHHHHcCCCC--ChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          365 DFLLGACVNARDLKRAHLIWKEYENAGLPY--NVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       365 ~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      ..+..++.+.|+.++|.+.+++|.+. .|+  +......|+.+|...+.+.++..++.+--+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke-~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKE-FPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhh-CCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            44666677888888888888888764 233  344777888888888888888888888654

The molecular function of this protein is uncertain.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.90  E-value=5.3  Score=36.50  Aligned_cols=200  Identities=14%  Similarity=0.047  Sum_probs=107.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC---CC-CCHHHHHHHHHHHHc
Q 012365          189 LINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG---CN-LEPRAVIALIEHLNS  264 (465)
Q Consensus       189 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~---~~-p~~~~~~~ll~~~~~  264 (465)
                      ...+..+.|+|+...+.......... ....+.++...  ..++++++...++.....-   +. .....|......+.+
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~~~-~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~   80 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNEDSP-EYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVK   80 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCCCh-hHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            35678899999997777664322112 22224433333  7888998888887766531   10 112223333333333


Q ss_pred             cCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhh
Q 012365          265 EGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIG  344 (465)
Q Consensus       265 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A  344 (465)
                      ...+.+..++.+-.......             ........+.++.=.....++...|..++.-                
T Consensus        81 lq~L~Elee~~~~~~~~~~~-------------~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~----------------  131 (352)
T PF02259_consen   81 LQQLVELEEIIELKSNLSQN-------------PQDLKSLLKRWRSRLPNMQDDFSVWEPILSL----------------  131 (352)
T ss_pred             HhHHHHHHHHHHHHHhhccc-------------HHHHHHHHHHHHHHHHHhccchHHHHHHHHH----------------
Confidence            33333333333322111000             1112222222322222123333344333321                


Q ss_pred             HHhHHHHHhh--cCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCC---ChhHHHHHHHHHHhcCChhhHHHHH
Q 012365          345 LDLLQFIKDE--LGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPY---NVLSYLWMYKAFLASGNRKSASKLL  419 (465)
Q Consensus       345 ~~~~~~m~~~--~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~l~~~~~~~g~~~~A~~~~  419 (465)
                         -..+. .  ........+|..+...+.+.|.++.|...+..+.+.+..+   ++.....-++.+...|+..+|...+
T Consensus       132 ---R~~~l-~~~~~~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L  207 (352)
T PF02259_consen  132 ---RRLVL-SLILLPEELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKL  207 (352)
T ss_pred             ---HHHHH-hcccchhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHH
Confidence               11111 0  0133455688889999999999999999999998754222   4455666677888999999999999


Q ss_pred             hccCC
Q 012365          420 SKMPK  424 (465)
Q Consensus       420 ~~m~~  424 (465)
                      ++..+
T Consensus       208 ~~~~~  212 (352)
T PF02259_consen  208 RELLK  212 (352)
T ss_pred             HHHHH
Confidence            87766

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.75  E-value=0.091  Score=28.73  Aligned_cols=29  Identities=17%  Similarity=0.275  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHhccCCCC
Q 012365          398 SYLWMYKAFLASGNRKSASKLLSKMPKDD  426 (465)
Q Consensus       398 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  426 (465)
                      +|..+...|...|++++|...+++.++.+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            34444444555555555555554444433

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.74  E-value=3.3  Score=35.84  Aligned_cols=116  Identities=9%  Similarity=0.129  Sum_probs=72.9

Q ss_pred             CHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHh-c-CCHHHHHHHHHHHhh-CCCCCCHHHHHHHHHHHhccCCHHHHH
Q 012365           26 KVHVALDVVEQMVQ-GELVPSTETINSILHACEE-S-YEFNLVRRIYPMICH-HNLKPNSETFRSMISLNVKIKDFDSAY  101 (465)
Q Consensus        26 ~~~~A~~~~~~m~~-~~~~p~~~~~~~ll~~~~~-~-~~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~a~  101 (465)
                      -+.+|+.+|+...- ..+--|..+...+++.... . .....-.++.+-+.. .+-.++..+...+|..+++.+++..-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            34556666653211 2344567777777777665 2 223333444444443 234677777778888888888888888


Q ss_pred             HHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          102 SLLDDLKEM-NLMPTASMYNAIMAGYFRKKDVQGALMVLKE  141 (465)
Q Consensus       102 ~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  141 (465)
                      ++++..... +...|...|..+|+.-.+.|+..-..++.++
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            888776544 4455777788888888888887665555543

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.73  E-value=4.1  Score=32.28  Aligned_cols=103  Identities=16%  Similarity=0.236  Sum_probs=62.8

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc
Q 012365           31 LDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        31 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      ++.++.+.+.+++|+...+..++..+.+.|.+....+++    +.++-+|.......+-.+..  ....+.++=-+|..+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll----q~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL----QYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH----hhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            455556667788888888888888888888866554443    55555554443333322222  223344443333321


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365          111 NLMPTASMYNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus       111 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                          =...+..++..+...|++-+|+++.+...
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~  116 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYH  116 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence                01146677788888888888888887753

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.56  E-value=15  Score=38.38  Aligned_cols=84  Identities=13%  Similarity=0.137  Sum_probs=39.2

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccc-hhhHhhHhhhc
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDG-CCRLILHCVRF  298 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~  298 (465)
                      |.+....+.....+++|.-.|...-+.         .-.+.+|..+|+|.+|+.+..++....-..-. -..++.-+...
T Consensus       942 ~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  942 YEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHc
Confidence            444455555555566555555443221         13355566666666666666655432111111 12233334445


Q ss_pred             CChhHHHHHHHHHH
Q 012365          299 KQLSSATDLLKQLK  312 (465)
Q Consensus       299 ~~~~~a~~~~~~~~  312 (465)
                      ++.-+|-++..+..
T Consensus      1013 ~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYL 1026 (1265)
T ss_pred             ccchhHHHHHHHHh
Confidence            55555555544443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.43  E-value=5.9  Score=33.33  Aligned_cols=50  Identities=18%  Similarity=0.232  Sum_probs=25.6

Q ss_pred             HhHhhhhhhHHHHHHHHHHHcCC---CCChhHHHHHHHHHHhcCChhhHHHHHh
Q 012365          370 ACVNARDLKRAHLIWKEYENAGL---PYNVLSYLWMYKAFLASGNRKSASKLLS  420 (465)
Q Consensus       370 ~~~~~g~~~~A~~~~~~m~~~g~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~  420 (465)
                      .+.-..|+..|...+++--+.+-   +-+..+...|+.+| ..|+.+++.+++.
T Consensus       199 v~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  199 VYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            34444566666666655555432   22334555555554 3456565555543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.33  E-value=4.1  Score=31.33  Aligned_cols=86  Identities=13%  Similarity=0.064  Sum_probs=60.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR  128 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  128 (465)
                      ...++..+...+.......+++.+...+ ..+....+.++..|++... ++....++.      ..+.......++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            3457777777788888999999888877 4678888999999887643 333344432      1233445557777777


Q ss_pred             cCCHHHHHHHHHHH
Q 012365          129 KKDVQGALMVLKEM  142 (465)
Q Consensus       129 ~g~~~~a~~~~~~m  142 (465)
                      .+.++++..++.++
T Consensus        82 ~~l~~~~~~l~~k~   95 (140)
T smart00299       82 AKLYEEAVELYKKD   95 (140)
T ss_pred             cCcHHHHHHHHHhh
Confidence            77777777777665

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.24  E-value=1.1  Score=38.77  Aligned_cols=103  Identities=17%  Similarity=0.176  Sum_probs=59.9

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC---CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCH
Q 012365           40 GELVPSTETINSILHACEESYEFNLVRRIYPMICHHN---LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTA  116 (465)
Q Consensus        40 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  116 (465)
                      .|.+.+..+...++..-....+++.+...+-.+....   ..|+... .++++.+. .-+++++..++..=++.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlll-ky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHH-ccChHHHHHHHhCcchhccccch
Confidence            4555555555555555555566666666665554321   1122111 12222222 23556777777777777777777


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365          117 SMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       117 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .+++.+|+.+.+.+++.+|.++.-.|..
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            7777777777777777777777666654

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=92.23  E-value=7.2  Score=33.86  Aligned_cols=70  Identities=17%  Similarity=0.200  Sum_probs=34.8

Q ss_pred             hHhhhhhhHHHHHHHHHHHc-------------CCCCChhH--HHHHHHHHHhcCChhhHHHHHh---ccCCCCCChhHH
Q 012365          371 CVNARDLKRAHLIWKEYENA-------------GLPYNVLS--YLWMYKAFLASGNRKSASKLLS---KMPKDDPHVRFV  432 (465)
Q Consensus       371 ~~~~g~~~~A~~~~~~m~~~-------------g~~p~~~~--~~~l~~~~~~~g~~~~A~~~~~---~m~~~~~~~~~~  432 (465)
                      |.-.|+...|...++...+.             +.+++...  +..++-.-+..++.+.-..+.+   ..+++++.|...
T Consensus       151 yL~l~n~~~A~~~~~~f~~~~~~~~p~~~~~~~~~~~~~PllnF~~lLl~t~e~~~~~~F~~L~~~Y~~~L~rd~~~~~~  230 (260)
T PF04190_consen  151 YLCLGNLRDANELFDTFTSKLIESHPKLENSDIEYPPSYPLLNFLQLLLLTCERDNLPLFKKLCEKYKPSLKRDPSFKEY  230 (260)
T ss_dssp             HHHTTBHHHHHHHHHHHHHHHHHH---EEEEEEEEESS-HHHHHHHHHHHHHHHT-HHHHHHHHHHTHH---HHHHTHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhccCcchhccccCCCCCCchHHHHHHHHHHHhcCcHHHHHHHHHHhCccccccHHHHHH
Confidence            44557777777777766644             23344332  2233333344454433322222   234566777777


Q ss_pred             HHHHHhhc
Q 012365          433 IQACKQTY  440 (465)
Q Consensus       433 l~~~~~~~  440 (465)
                      |.-++..|
T Consensus       231 L~~IG~~y  238 (260)
T PF04190_consen  231 LDKIGQLY  238 (260)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777764

; PDB: 3LKU_E 2WPV_G.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.12  E-value=5.3  Score=35.69  Aligned_cols=57  Identities=14%  Similarity=-0.010  Sum_probs=38.4

Q ss_pred             HHHHhHhhhhhhHHHHHHHHHHH----cCCCCC-hhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          367 LLGACVNARDLKRAHLIWKEYEN----AGLPYN-VLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       367 ll~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      +.-++...|....|.+.-++..+    .|-.+. ......+.+.|-..|+.+.|+.-+++..
T Consensus       212 maValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  212 MAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            44456677888777777777654    343322 2356677788888888888888887644

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.10  E-value=0.094  Score=40.77  Aligned_cols=84  Identities=17%  Similarity=0.249  Sum_probs=58.3

Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChh
Q 012365          223 LVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLS  302 (465)
Q Consensus       223 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  302 (465)
                      ++..+.+.+.+.....+++.+...+...++...+.++..|++.++.++..++++....  .+   ...++..|.+.+.++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~--yd---~~~~~~~c~~~~l~~   87 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN--YD---LDKALRLCEKHGLYE   87 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS--S----CTHHHHHHHTTTSHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc--cC---HHHHHHHHHhcchHH
Confidence            5667777888888888888888777666788888899999998887777777772222  11   134555566677777


Q ss_pred             HHHHHHHHH
Q 012365          303 SATDLLKQL  311 (465)
Q Consensus       303 ~a~~~~~~~  311 (465)
                      ++.-++.++
T Consensus        88 ~a~~Ly~~~   96 (143)
T PF00637_consen   88 EAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHHHc
Confidence            777776654

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.77  E-value=0.4  Score=26.64  Aligned_cols=24  Identities=17%  Similarity=0.008  Sum_probs=13.6

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHH
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQM   37 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m   37 (465)
                      |+.|-..|.+.|++++|+++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455556666666666666666653

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=91.76  E-value=3.3  Score=33.73  Aligned_cols=77  Identities=12%  Similarity=0.052  Sum_probs=51.8

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHhcCCHHH
Q 012365           58 ESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM---NLMPTASMYNAIMAGYFRKKDVQG  134 (465)
Q Consensus        58 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~~~~li~~~~~~g~~~~  134 (465)
                      +.|+ +.|.+.|-.+...+.--++...-.|...|. ..+.+++..++.+..+.   +-.+|+..+..|...+.+.|+.+.
T Consensus       119 r~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~  196 (203)
T PF11207_consen  119 RFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQ  196 (203)
T ss_pred             ccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhh
Confidence            3444 556666767766665556666666666555 56778888887766533   225678888888888888888877


Q ss_pred             HH
Q 012365          135 AL  136 (465)
Q Consensus       135 a~  136 (465)
                      |-
T Consensus       197 AY  198 (203)
T PF11207_consen  197 AY  198 (203)
T ss_pred             hh
Confidence            63

>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=91.69  E-value=8.8  Score=33.77  Aligned_cols=166  Identities=15%  Similarity=0.115  Sum_probs=81.7

Q ss_pred             HHHHHHHHHcCCChh---HHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccc-hhhHhhH
Q 012365          220 KSALVSALASHGRTS---DAIIVYEEIKEAGCNLE-PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDG-CCRLILH  294 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~---~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~~  294 (465)
                      ...++.+|...+..+   +|..+++.+....  |+ +..+..-++.+.+.++.+.+.+.+..|...-..++. +..++..
T Consensus        87 L~~La~~~l~~~~~~~~~ka~~~l~~l~~e~--~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~  164 (278)
T PF08631_consen   87 LRLLANAYLEWDTYESVEKALNALRLLESEY--GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHH  164 (278)
T ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHH
Confidence            556677777766654   3455555554443  33 445555566666677788888888877765433332 2222222


Q ss_pred             h--hhcCChhHHHHHHHHHHH-cccchhH-HHH-HHHHHHHHhhhcC----CCCchhhhHHhHHHHHhhcCCCCcHHH--
Q 012365          295 C--VRFKQLSSATDLLKQLKD-KFKDDEM-AME-YHFSEIFCQIATT----DPPDVQIGLDLLQFIKDELGLPPSRKC--  363 (465)
Q Consensus       295 ~--~~~~~~~~a~~~~~~~~~-~~~~~~~-~~~-~~l~~~~~~~~~~----~~~~~~~A~~~~~~m~~~~~~~p~~~~--  363 (465)
                      +  ........+...++.+.. +..+... ... .++...+.. ...    ....++...+++..+....+.+.+..+  
T Consensus       165 i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~-~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~  243 (278)
T PF08631_consen  165 IKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLT-TQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAAS  243 (278)
T ss_pred             HHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHH-cCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            2  122334455555555444 3222221 111 222222221 111    112255555555544412233333333  


Q ss_pred             -HHHHHH----HhHhhhhhhHHHHHHHHHH
Q 012365          364 -LDFLLG----ACVNARDLKRAHLIWKEYE  388 (465)
Q Consensus       364 -~~~ll~----~~~~~g~~~~A~~~~~~m~  388 (465)
                       ..++++    .+.+.++++.|.+.|+-..
T Consensus       244 a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  244 AIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence             233433    3457889999999887544

It is also involved in sporulation [].

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.64  E-value=13  Score=35.60  Aligned_cols=118  Identities=10%  Similarity=0.058  Sum_probs=74.3

Q ss_pred             cCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHccCcHHHHH
Q 012365          196 CGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG---CNLEPRAVIALIEHLNSEGELNRLI  272 (465)
Q Consensus       196 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~g~~~~a~  272 (465)
                      ..+.+.|.++++.+....+......-.-.+.+...|++++|++.|+......   .+.....+.-+.-.+.-..++++|.
T Consensus       246 ~~~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            4467788888887655555444322223345666788888888888655321   1223344556667777888888888


Q ss_pred             HHHHHHcCCCCCccchhhHhhH--hhhcCCh-------hHHHHHHHHHHH
Q 012365          273 QLLEEVHDPDYWMDGCCRLILH--CVRFKQL-------SSATDLLKQLKD  313 (465)
Q Consensus       273 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-------~~a~~~~~~~~~  313 (465)
                      ..|..+.+.+.+..++...+.+  +...++.       ++|.++|.++..
T Consensus       326 ~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  326 EYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            8888888776664444333332  3456666       777888877665

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.45  E-value=6  Score=31.35  Aligned_cols=54  Identities=13%  Similarity=0.090  Sum_probs=28.1

Q ss_pred             HhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCC
Q 012365          372 VNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKD  425 (465)
Q Consensus       372 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  425 (465)
                      ...|.++......+-+...+-+.....-..|.-+-.+.|++.+|.++|+.+...
T Consensus       143 vD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         143 VDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             hccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            344555555544444444333444444555555555666666666666655543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.28  E-value=8.4  Score=32.75  Aligned_cols=73  Identities=11%  Similarity=0.011  Sum_probs=45.3

Q ss_pred             HHHHhcCCHHHHHHHHHHhcCCCCChH---HHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012365          191 NAYTTCGEFEKARQVVLDAEIPVKSRS---EVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLN  263 (465)
Q Consensus       191 ~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  263 (465)
                      ..-.+.|++++|.+.|+.+....+...   .+.-.++.++-+.+++++|+..+++....-..-...-|...|.+++
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            345577888888888887543322211   1245566777788888888888888777643333344555555554

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.19  E-value=0.17  Score=27.52  Aligned_cols=25  Identities=12%  Similarity=0.037  Sum_probs=11.3

Q ss_pred             HHHHHHhHhhhhhhHHHHHHHHHHH
Q 012365          365 DFLLGACVNARDLKRAHLIWKEYEN  389 (465)
Q Consensus       365 ~~ll~~~~~~g~~~~A~~~~~~m~~  389 (465)
                      ..+...+...|++++|++.|++..+
T Consensus         5 ~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    5 YYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3344444444555555554444444

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 ....

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=90.96  E-value=1.5  Score=30.94  Aligned_cols=56  Identities=20%  Similarity=0.220  Sum_probs=38.8

Q ss_pred             hHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          347 LLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       347 ~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      -++.+. ...+-|++....+.+++|.+.+++..|.++|+-+..+ ..+....|..+++
T Consensus        32 glN~l~-~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   32 GLNNLF-GYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHT-TSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHh-ccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            334444 5678899999999999999999999999999998865 3344447777765

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 ....

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.89  E-value=18  Score=35.84  Aligned_cols=295  Identities=12%  Similarity=0.075  Sum_probs=160.5

Q ss_pred             ccCCCCCHHHHHH-----HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhC
Q 012365            4 KLEITPSSASYKK-----LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY---EFNLVRRIYPMICHH   75 (465)
Q Consensus         4 ~~~~~p~~~~y~~-----li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~   75 (465)
                      +.|++-+..-|..     +|+-+...+.+..|+++-..+...-.. ....|.....-+.+..   +-+.+..+-+++...
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~  503 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK  503 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhccc
Confidence            4566666666654     577788889999999998887543222 1456666666665542   222233333333222


Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----
Q 012365           76 NLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLM----PTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN-----  146 (465)
Q Consensus        76 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----  146 (465)
                       . -....|..+.+-...+|+++.|..+++.=...+..    .+..-+..-+.-..+.|+.+-...++-+|...-     
T Consensus       504 -~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l  581 (829)
T KOG2280|consen  504 -L-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSL  581 (829)
T ss_pred             -C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHH
Confidence             2 33456777777777889999999887643322210    122234556667778888888888877765421     


Q ss_pred             ------CCCCHHHHHHHHHhh---------CChhHHHHHHHHHHH--------cCCCCCHHHHHHHHHHHHhcCCHH---
Q 012365          147 ------VKPDSQTFSYLIHNC---------SNEEDIIKYYEQLKS--------AGGQITKYVFMALINAYTTCGEFE---  200 (465)
Q Consensus       147 ------~~p~~~~~~~ll~~~---------~~~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~g~~~---  200 (465)
                            .+.....|.-+++--         ...+....+-....+        .+..|+.   ....+.+.+.....   
T Consensus       582 ~~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~l---k~~a~~~a~sk~~s~e~  658 (829)
T KOG2280|consen  582 FMTLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPAL---KTAANAFAKSKEKSFEA  658 (829)
T ss_pred             HHHHHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhH---HHHHHHHhhhhhhhhHH
Confidence                  111112222222210         011111111110111        1222222   12223333322211   


Q ss_pred             -------HHHHHHHHhc--CCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHH
Q 012365          201 -------KARQVVLDAE--IPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRL  271 (465)
Q Consensus       201 -------~a~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a  271 (465)
                             +-.++.+.++  ....-...+.+-.+.-+...|+..+|.++-.+.+    .||...|..=+.+++..+++++-
T Consensus       659 ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeL  734 (829)
T KOG2280|consen  659 KALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEEL  734 (829)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHH
Confidence                   1111122111  1111222234556666777788888877666553    37888888888888888888877


Q ss_pred             HHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHH
Q 012365          272 IQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLK  312 (465)
Q Consensus       272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  312 (465)
                      +++-+....    |-+|.-.+.+|.+.|+.++|.+++.+..
T Consensus       735 ekfAkskks----PIGy~PFVe~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  735 EKFAKSKKS----PIGYLPFVEACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             HHHHhccCC----CCCchhHHHHHHhcccHHHHhhhhhccC
Confidence            766555543    6677777888888888888888776553

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=90.89  E-value=10  Score=33.01  Aligned_cols=121  Identities=13%  Similarity=0.109  Sum_probs=61.1

Q ss_pred             HHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHH
Q 012365          191 NAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELN  269 (465)
Q Consensus       191 ~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~  269 (465)
                      ......|++.+|..+|+. +...+.... .--.++.+|...|+++.|..++..+...--.........-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~~~~-~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPENSE-AKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcccch-HHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            345667777777777766 223333322 345677777888888888888777655432222222222233334444443


Q ss_pred             HHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHH
Q 012365          270 RLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLK  312 (465)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  312 (465)
                      +...+-.......-+++.-..+...+...|+.++|.+.+-.+.
T Consensus       221 ~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         221 EIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             CHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3333434433333233333344444445555555555444333

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.86  E-value=2  Score=30.07  Aligned_cols=56  Identities=20%  Similarity=0.229  Sum_probs=40.9

Q ss_pred             hHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          347 LLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       347 ~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      -++.+. ...+-|++....+.+++|.+.+|+..|.++|+-...+ ...+...|..+++
T Consensus        29 ~mN~l~-~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          29 GLNNLF-GYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHh-ccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            333444 5567899999999999999999999999999988744 2334556666654

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.74  E-value=4.3  Score=28.47  Aligned_cols=48  Identities=25%  Similarity=0.351  Sum_probs=27.9

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 012365           26 KVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMIC   73 (465)
Q Consensus        26 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   73 (465)
                      |.-++.+-++.+......|++....+.+++|.+.+|+..|.++++-++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            334455555555555556666666666666666666666666666554

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.69  E-value=5.4  Score=35.19  Aligned_cols=155  Identities=6%  Similarity=-0.101  Sum_probs=91.4

Q ss_pred             HHccCcHHHHHHHHHHHcCC-CCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCc
Q 012365          262 LNSEGELNRLIQLLEEVHDP-DYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPD  340 (465)
Q Consensus       262 ~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  340 (465)
                      ....|+..+|-..++++.+. +.+.-+....-.+|.-.|+.+.....++++.....++.. .++.+.+.+.- +-.+.|-
T Consensus       113 ~~~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp-~~sYv~GmyaF-gL~E~g~  190 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLP-CYSYVHGMYAF-GLEECGI  190 (491)
T ss_pred             hhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCc-HHHHHHHHHHh-hHHHhcc
Confidence            34566777777777776553 223334444455667788888888888888764333321 22222222211 1122488


Q ss_pred             hhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCC----hhHHHHHHHHHHhcCChhhH
Q 012365          341 VQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYN----VLSYLWMYKAFLASGNRKSA  415 (465)
Q Consensus       341 ~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~l~~~~~~~g~~~~A  415 (465)
                      +++|.+.-++..   .+.| |.-.-.++.+.+.-.|+..++.++..+-... .+..    ...|-...-.+...+.++.|
T Consensus       191 y~dAEk~A~ral---qiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~-Wr~s~mlasHNyWH~Al~~iE~aeye~a  266 (491)
T KOG2610|consen  191 YDDAEKQADRAL---QINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDD-WRQSWMLASHNYWHTALFHIEGAEYEKA  266 (491)
T ss_pred             chhHHHHHHhhc---cCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccc-hhhhhHHHhhhhHHHHHhhhcccchhHH
Confidence            888888877766   5555 4444556666677778888888776554432 2211    12344444556677888999


Q ss_pred             HHHHhcc
Q 012365          416 SKLLSKM  422 (465)
Q Consensus       416 ~~~~~~m  422 (465)
                      +++|++=
T Consensus       267 leIyD~e  273 (491)
T KOG2610|consen  267 LEIYDRE  273 (491)
T ss_pred             HHHHHHH
Confidence            9998764

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=90.53  E-value=15  Score=34.51  Aligned_cols=157  Identities=11%  Similarity=0.157  Sum_probs=89.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHhhC
Q 012365           87 MISLNVKIKDFDSAYSLLDDLKEMNLMPTAS-MYNAIMAGYFRKKDVQGALMVLKEMEQAN---VKPDSQTFSYLIHNCS  162 (465)
Q Consensus        87 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~  162 (465)
                      +|.-..+..+...-.+.-.+..+.  .||-. .|..|  +--......++.++|++..+.|   +..+..     ....+
T Consensus       174 IMq~AWRERnp~aRIkaA~eALei--~pdCAdAYILL--AEEeA~Ti~Eae~l~rqAvkAgE~~lg~s~~-----~~~~g  244 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALEI--NPDCADAYILL--AEEEASTIVEAEELLRQAVKAGEASLGKSQF-----LQHHG  244 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHh--hhhhhHHHhhc--ccccccCHHHHHHHHHHHHHHHHHhhchhhh-----hhccc
Confidence            344444555555544444444432  24332 22222  2223455788888888876543   111100     00010


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhc--CCCCChHHHHHHHHHHHHcCCChhHHHHHH
Q 012365          163 NEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAE--IPVKSRSEVKSALVSALASHGRTSDAIIVY  240 (465)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  240 (465)
                            ..++.+......+-..+-..+..++.+.|+.++|.+.|+++-  .+..+...+...|+.++...+.+.++..++
T Consensus       245 ------~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL  318 (539)
T PF04184_consen  245 ------HFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALL  318 (539)
T ss_pred             ------chhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHH
Confidence                  122233333334444555567788889999999999999853  233334445788999999999999999999


Q ss_pred             HHHHHcCCCCC--HHHHHHHH
Q 012365          241 EEIKEAGCNLE--PRAVIALI  259 (465)
Q Consensus       241 ~~m~~~~~~p~--~~~~~~ll  259 (465)
                      .+..+... |.  ..+|+..+
T Consensus       319 ~kYdDi~l-pkSAti~YTaAL  338 (539)
T PF04184_consen  319 AKYDDISL-PKSATICYTAAL  338 (539)
T ss_pred             HHhccccC-CchHHHHHHHHH
Confidence            99755432 33  34465544

The molecular function of this protein is uncertain.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.91  E-value=1.3  Score=31.29  Aligned_cols=57  Identities=11%  Similarity=0.085  Sum_probs=34.2

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHH
Q 012365          169 KYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVS  225 (465)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  225 (465)
                      +-+..+....+.|++.+..+.+.+|.+.+++..|.++|+....+..+....|..+++
T Consensus        31 rglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   31 RGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             HHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            344455556778888888888888888888888888887643333333223554443

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 ....

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.86  E-value=23  Score=35.37  Aligned_cols=25  Identities=12%  Similarity=0.283  Sum_probs=18.2

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          221 SALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       221 ~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                      ..|+..|...+++.+|+..+-..++
T Consensus       509 e~La~LYl~d~~Y~~Al~~ylklk~  533 (846)
T KOG2066|consen  509 EVLAHLYLYDNKYEKALPIYLKLQD  533 (846)
T ss_pred             HHHHHHHHHccChHHHHHHHHhccC
Confidence            4477778888888888877766544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=89.48  E-value=8  Score=29.66  Aligned_cols=53  Identities=11%  Similarity=0.194  Sum_probs=25.1

Q ss_pred             hccCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           92 VKIKDFDSAYSLLDDLKEMN--LMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .+.|++++|.+.|+.+..+-  -+-....--.++.+|.+.+++++|...+++..+
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            34455555555555554431  011223333445555555555555555555554

>PRK11906 transcriptional regulator; Provisional

Probab=89.27  E-value=19  Score=33.70  Aligned_cols=131  Identities=11%  Similarity=0.116  Sum_probs=86.4

Q ss_pred             HHH--HHHHHHHhcc-----cCHHHHHHHHHHHHh-CCCCCC-HHHHHHHHHHHHh---------cCCHHHHHHHHHHHh
Q 012365           12 ASY--KKLITYSCDL-----LKVHVALDVVEQMVQ-GELVPS-TETINSILHACEE---------SYEFNLVRRIYPMIC   73 (465)
Q Consensus        12 ~~y--~~li~~~~~~-----g~~~~A~~~~~~m~~-~~~~p~-~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~   73 (465)
                      ..|  ...+.+....     -+.+.|+.+|.+... +...|+ ...|..+..++..         ..+..+|.++-+...
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            445  5566665542     246778888888872 223444 3344433333211         234556777777777


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           74 HHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        74 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      +.+ +-|+.....+..+..-.++++.|..+|++....+ |....+|....-...-+|+.++|.+.+++..+
T Consensus       332 eld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr  400 (458)
T PRK11906        332 DIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQ  400 (458)
T ss_pred             hcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            776 5678887777777788888999999999888765 34456666666667778999999988888554

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=89.26  E-value=0.73  Score=23.32  Aligned_cols=24  Identities=33%  Similarity=0.534  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHhc
Q 012365          398 SYLWMYKAFLASGNRKSASKLLSK  421 (465)
Q Consensus       398 ~~~~l~~~~~~~g~~~~A~~~~~~  421 (465)
                      ....+..++...|++++|.+++++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHhC
Confidence            344566777777777777777653

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.12  E-value=11  Score=30.71  Aligned_cols=105  Identities=10%  Similarity=0.068  Sum_probs=67.4

Q ss_pred             hhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHH-----HHHHhHhhhhhhHHHHHHHHHHHcCC
Q 012365          318 DEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDF-----LLGACVNARDLKRAHLIWKEYENAGL  392 (465)
Q Consensus       318 ~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~-----ll~~~~~~g~~~~A~~~~~~m~~~g~  392 (465)
                      +..+.+..+..+...-...+.+++++|...++...   + .|....+..     |.+.....|.+|.|+..++.....++
T Consensus        82 n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l---~-~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w  157 (207)
T COG2976          82 NGKTIYAVLAALELAKAEVEANNLDKAEAQLKQAL---A-QTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW  157 (207)
T ss_pred             ccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH---c-cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH
Confidence            33444444444444445555688888888887766   2 232233333     44556778899999988887776542


Q ss_pred             CCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          393 PYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       393 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                        .......-.+++...|+.++|+.-|++.+..+.+
T Consensus       158 --~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         158 --AAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             --HHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence              2223334456788999999999999988877643

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.35  E-value=1.2  Score=24.04  Aligned_cols=29  Identities=14%  Similarity=0.006  Sum_probs=25.0

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          362 KCLDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       362 ~~~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      .+|..+..++...|++++|...|++..+.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            46788889999999999999999999885

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 ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.29  E-value=4.7  Score=35.22  Aligned_cols=89  Identities=21%  Similarity=0.223  Sum_probs=40.8

Q ss_pred             CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 012365           75 HNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMN---LMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS  151 (465)
Q Consensus        75 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  151 (465)
                      .|.+.+..+...++..-....+++.++..+-+++..-   ..|+... .+.++.+ -.-++++++.++..=.+.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irll-lky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHH-HccChHHHHHHHhCcchhccccch
Confidence            3434444444555554444555555555555554320   1111111 1112211 222455555555555555666666


Q ss_pred             HHHHHHHHhhCChh
Q 012365          152 QTFSYLIHNCSNEE  165 (465)
Q Consensus       152 ~~~~~ll~~~~~~~  165 (465)
                      ++++.+|+.+.+.+
T Consensus       136 f~~c~l~D~flk~~  149 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKE  149 (418)
T ss_pred             hhHHHHHHHHHhcc
Confidence            66666666554443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=88.24  E-value=0.67  Score=26.50  Aligned_cols=29  Identities=21%  Similarity=0.202  Sum_probs=22.8

Q ss_pred             hhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          396 VLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       396 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      ..+++.|...|...|++++|..++++...
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35788888899999999999998887653

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=88.09  E-value=1  Score=24.64  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=13.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHH
Q 012365          113 MPTASMYNAIMAGYFRKKDVQGAL  136 (465)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~a~  136 (465)
                      |-+...|+.+...|...|++++|.
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            345555666666666666665553

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=87.98  E-value=14  Score=30.59  Aligned_cols=62  Identities=18%  Similarity=0.155  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365           81 SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                      +..||-|.-.+...|+++.|.+.|+...+.+-.-+-...|--| ++---|++.-|.+=|-..-
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~fY  160 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLAFY  160 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHHHH
Confidence            5667777777777777777777777776553111111111111 2223466666665554443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=87.75  E-value=12  Score=30.31  Aligned_cols=63  Identities=13%  Similarity=0.113  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           82 ETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT--ASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        82 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ..+..+...|++.|+.+.|.+.|.++.+....+.  ...+-.+|+.....+++..+...+.+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3555666667777777777777776665433332  33455666666666677666666665543

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.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=87.04  E-value=16  Score=30.31  Aligned_cols=199  Identities=19%  Similarity=0.134  Sum_probs=100.5

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc-chhhHhh-Hhh
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEA-GCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD-GCCRLIL-HCV  296 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~-~~~  296 (465)
                      +......+...+.+..+...+...... ........+......+...+....+...+........... ....... .+.
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (291)
T COG0457          62 LLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALY  141 (291)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHH
Confidence            344444444455555555444444431 1112233333444444444445555555554444332221 1111122 344


Q ss_pred             hcCChhHHHHHHHHHHHcccc---hhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc--HHHHHHHHHHh
Q 012365          297 RFKQLSSATDLLKQLKDKFKD---DEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS--RKCLDFLLGAC  371 (465)
Q Consensus       297 ~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~--~~~~~~ll~~~  371 (465)
                      ..++++.+...+.+... ..+   ..............     ..++.+.+...+....   ...|+  ...+..+...+
T Consensus       142 ~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~-----~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~~~~~~  212 (291)
T COG0457         142 ELGDYEEALELYEKALE-LDPELNELAEALLALGALLE-----ALGRYEEALELLEKAL---KLNPDDDAEALLNLGLLY  212 (291)
T ss_pred             HcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHH-----HhcCHHHHHHHHHHHH---hhCcccchHHHHHhhHHH
Confidence            55666666666665533 222   11111111111011     1267777777777776   33333  55666677777


Q ss_pred             HhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          372 VNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       372 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      ...++++.|...+....... +.....+..+...+...|..+++...+++.....+.
T Consensus       213 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         213 LKLGKYEEALEYYEKALELD-PDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HHcccHHHHHHHHHHHHhhC-cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            77778888888888887752 222445555555555666788888887777765553

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.56  E-value=1.7  Score=24.67  Aligned_cols=27  Identities=15%  Similarity=0.176  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMV   38 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~   38 (465)
                      .+++.|...|...|++++|+.++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            455555556666666666666665553

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=86.55  E-value=32  Score=33.20  Aligned_cols=388  Identities=11%  Similarity=0.060  Sum_probs=204.7

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTET-INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      -..|+.+|.---...+++.+..++..++..  -|..+- |.....-=.+.|..+.+.++|++.+. +++.+...|...+.
T Consensus        45 f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~  121 (577)
T KOG1258|consen   45 FDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLA  121 (577)
T ss_pred             ccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHH
Confidence            345677777666666778888888888754  344433 33333334567888888899988775 45667777776665


Q ss_pred             HHh-ccCCHHHHHHHHHHHHHc-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH---HHh---
Q 012365           90 LNV-KIKDFDSAYSLLDDLKEM-NL-MPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYL---IHN---  160 (465)
Q Consensus        90 ~~~-~~g~~~~a~~~~~~m~~~-~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l---l~~---  160 (465)
                      .+. ..|+.+...+.|+...+. |. -.+...|...|.--...+++.....+|+...+....-=...|...   +..   
T Consensus       122 f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~  201 (577)
T KOG1258|consen  122 FLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEE  201 (577)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCCh
Confidence            544 347777888888776543 21 134567888888888888888888888888764211111111111   111   


Q ss_pred             --hCChhHHHHHH--------------------HHHHHcCCCCCH--HHHHHHH-------HHHHhcCCHHHHHHHHHHh
Q 012365          161 --CSNEEDIIKYY--------------------EQLKSAGGQITK--YVFMALI-------NAYTTCGEFEKARQVVLDA  209 (465)
Q Consensus       161 --~~~~~~~~~~~--------------------~~~~~~~~~~~~--~~~~~l~-------~~~~~~g~~~~a~~~~~~~  209 (465)
                        ....+.+.++-                    ..+...+-+.+.  ...+.+-       .++-..-...+....|+..
T Consensus       202 ~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~~  281 (577)
T KOG1258|consen  202 KILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEEKRWGFEEG  281 (577)
T ss_pred             hhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHHHHHhhhhh
Confidence              01111111111                    111111100000  0111111       1111122222222223321


Q ss_pred             ------cCCC--CChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCC
Q 012365          210 ------EIPV--KSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDP  281 (465)
Q Consensus       210 ------~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  281 (465)
                            ...+  .....+|+.-+.--...|+++.+.-+|+...-.--.-+.. |--.+.-....|+.+-|..++....+-
T Consensus       282 IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~ef-Wiky~~~m~~~~~~~~~~~~~~~~~~i  360 (577)
T KOG1258|consen  282 IKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEF-WIKYARWMESSGDVSLANNVLARACKI  360 (577)
T ss_pred             ccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHH-HHHHHHHHHHcCchhHHHHHHHhhhhh
Confidence                  1111  1122247777777788888888888888765422111222 222333333347777777666554432


Q ss_pred             CCCccchhhHhh--HhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhH---HhHHHHHhhcC
Q 012365          282 DYWMDGCCRLIL--HCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGL---DLLQFIKDELG  356 (465)
Q Consensus       282 ~~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~---~~~~~m~~~~~  356 (465)
                      -..-.....+..  .+-..|+++.|..+++.+.... |+.+.....-.....+     .|+.+.+.   +++.... ...
T Consensus       361 ~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~-pg~v~~~l~~~~~e~r-----~~~~~~~~~~~~l~s~~~-~~~  433 (577)
T KOG1258|consen  361 HVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEY-PGLVEVVLRKINWERR-----KGNLEDANYKNELYSSIY-EGK  433 (577)
T ss_pred             cCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhC-CchhhhHHHHHhHHHH-----hcchhhhhHHHHHHHHhc-ccc
Confidence            222111222221  2335678999999999988865 4433322221222222     36666666   4444444 222


Q ss_pred             CCCcHH--HHHHHHH-HhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC
Q 012365          357 LPPSRK--CLDFLLG-ACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASG  410 (465)
Q Consensus       357 ~~p~~~--~~~~ll~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  410 (465)
                      ..+...  .+.-..+ .+.-.++.+.|..++.++.+. ++++...|..+++.....+
T Consensus       434 ~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  434 ENNGILEKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             cCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            222211  1112222 133457889999999999987 7888888988888765554

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=85.85  E-value=11  Score=28.98  Aligned_cols=82  Identities=20%  Similarity=0.192  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-----CCCHHHHHHHHHHHhccCC-HHHHHHHHHHHHHcCCCCCHHHHHH
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHHNL-----KPNSETFRSMISLNVKIKD-FDSAYSLLDDLKEMNLMPTASMYNA  121 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~  121 (465)
                      ..+.++.-....+++.-...+++.+.....     ..+...|.+++.+.++..- --.+..+|+-|++.+.+++..-|..
T Consensus        41 fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~  120 (145)
T PF13762_consen   41 FINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSC  120 (145)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            444555555555555555555555432110     2344566666666655544 3345566666666666666666777


Q ss_pred             HHHHHHhc
Q 012365          122 IMAGYFRK  129 (465)
Q Consensus       122 li~~~~~~  129 (465)
                      +|.++.+-
T Consensus       121 li~~~l~g  128 (145)
T PF13762_consen  121 LIKAALRG  128 (145)
T ss_pred             HHHHHHcC
Confidence            77665544

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=85.83  E-value=2.5  Score=22.67  Aligned_cols=32  Identities=22%  Similarity=0.386  Sum_probs=26.1

Q ss_pred             hHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          397 LSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       397 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      ..|..+...|...|++++|.+.+++.++.+|.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            46778889999999999999999998776653

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 ....

>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=85.24  E-value=16  Score=28.65  Aligned_cols=69  Identities=9%  Similarity=0.000  Sum_probs=35.9

Q ss_pred             hcccCHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc
Q 012365           22 CDLLKVHVALDVVEQMVQGELVPSTETINS-ILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI   94 (465)
Q Consensus        22 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~   94 (465)
                      .+.++.+++..++..+.-.  .|....... -...+...|++.+|..+|+.+....  |.......|+..|...
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~   90 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYA   90 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHH
Confidence            3456777777777776553  233222211 1223446677777777777765543  3333444444444443

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=85.17  E-value=0.52  Score=25.54  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=11.4

Q ss_pred             HHHHHHHHHhcCChhhHHHHHhcc
Q 012365          399 YLWMYKAFLASGNRKSASKLLSKM  422 (465)
Q Consensus       399 ~~~l~~~~~~~g~~~~A~~~~~~m  422 (465)
                      |..+...|...|++++|.+.|++.
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a   27 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKA   27 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344444444455555555544443

...

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=85.06  E-value=23  Score=30.22  Aligned_cols=53  Identities=8%  Similarity=0.126  Sum_probs=30.0

Q ss_pred             hcCCHHHHHHHHHHHhhCCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc
Q 012365           58 ESYEFNLVRRIYPMICHHNL--KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        58 ~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      +.|++++|.+.|+.+.....  +-...+.-.++-++-+.++++.|...+++....
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            55667777777766664321  112334444555566666677776666665543

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=85.00  E-value=16  Score=31.57  Aligned_cols=124  Identities=11%  Similarity=0.007  Sum_probs=82.9

Q ss_pred             HHHHHHhcccCHHHHHHHHHHHHhCC-----CCCCH--------HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHH
Q 012365           16 KLITYSCDLLKVHVALDVVEQMVQGE-----LVPST--------ETINSILHACEESYEFNLVRRIYPMICHHNLKPNSE   82 (465)
Q Consensus        16 ~li~~~~~~g~~~~A~~~~~~m~~~~-----~~p~~--------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   82 (465)
                      .-.+-+.-..|+..|++..++-.+.=     ...+.        .....-|.+++..+++.++....-+--+..-+..+.
T Consensus        40 ~Aad~LvV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEklPpk  119 (309)
T PF07163_consen   40 EAADLLVVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPK  119 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHH
Confidence            33344555688899988888765421     11111        122334788899999999877665554433344566


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-----cCCHHHHHHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR-----KKDVQGALMVL  139 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-----~g~~~~a~~~~  139 (465)
                      +...-|-.|.+.+.+..+.++-......--..+...|.++...|..     .|.+++|.++.
T Consensus       120 IleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  120 ILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            7777777899999999999988877654222344558877776655     69999998877

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>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=84.97  E-value=17  Score=28.57  Aligned_cols=18  Identities=39%  Similarity=0.608  Sum_probs=9.1

Q ss_pred             hccCCHHHHHHHHHHHHH
Q 012365           92 VKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~  109 (465)
                      .+.|++.+|.++|+++..
T Consensus        55 i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   55 IVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HHhCCHHHHHHHHHHHhc
Confidence            444555555555555443

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=84.52  E-value=0.33  Score=37.66  Aligned_cols=84  Identities=11%  Similarity=0.155  Sum_probs=50.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 012365           52 ILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKD  131 (465)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  131 (465)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++..       +..-...++..+.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            45555566667777777777776554556777777777777777666666666511       11233445666666666


Q ss_pred             HHHHHHHHHHH
Q 012365          132 VQGALMVLKEM  142 (465)
Q Consensus       132 ~~~a~~~~~~m  142 (465)
                      +++|.-++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            66666666554

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=83.93  E-value=10  Score=30.84  Aligned_cols=100  Identities=13%  Similarity=-0.022  Sum_probs=72.0

Q ss_pred             CCchhhhHHhHHHHHhhcCCCCc---HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhh
Q 012365          338 PPDVQIGLDLLQFIKDELGLPPS---RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKS  414 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~~p~---~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  414 (465)
                      +|++++|..-|....+...-.|.   ...|..-..++.+.+.++.|..-..+.++.+ |........-..+|.+..++++
T Consensus       108 ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~ek~ee  186 (271)
T KOG4234|consen  108 NGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKMEKYEE  186 (271)
T ss_pred             cccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhhhhHHH
Confidence            48888888888877711111111   2344444556778899999998888888864 4444555555678999999999


Q ss_pred             HHHHHhccCCCCCChhHHHHHHHh
Q 012365          415 ASKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       415 A~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                      |+.=|+++++.+|...-+-.+|..
T Consensus       187 aleDyKki~E~dPs~~ear~~i~r  210 (271)
T KOG4234|consen  187 ALEDYKKILESDPSRREAREAIAR  210 (271)
T ss_pred             HHHHHHHHHHhCcchHHHHHHHHh
Confidence            999999999999987766666655

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=83.62  E-value=4  Score=27.38  Aligned_cols=46  Identities=9%  Similarity=0.120  Sum_probs=24.2

Q ss_pred             hhhhhhHHHHHHHHHHHcCCC-CCh-hHHHHHHHHHHhcCChhhHHHH
Q 012365          373 NARDLKRAHLIWKEYENAGLP-YNV-LSYLWMYKAFLASGNRKSASKL  418 (465)
Q Consensus       373 ~~g~~~~A~~~~~~m~~~g~~-p~~-~~~~~l~~~~~~~g~~~~A~~~  418 (465)
                      ...+..+|+..|+...+.-.. |+. .++..|+.+|+..|++.+++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556666666666554211 111 1555566666666666665543

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=83.60  E-value=24  Score=29.24  Aligned_cols=54  Identities=20%  Similarity=0.188  Sum_probs=24.3

Q ss_pred             HHhcCCHHHHHHHHHHhcCCCCC-hHHHHHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          193 YTTCGEFEKARQVVLDAEIPVKS-RSEVKSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       193 ~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                      +...++.+.+...+......... ....+..+...+...++++.+...+......
T Consensus       177 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  231 (291)
T COG0457         177 LEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL  231 (291)
T ss_pred             HHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh
Confidence            34445555555555442221111 1222444455555555555555555555443

>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=83.16  E-value=21  Score=29.23  Aligned_cols=78  Identities=15%  Similarity=0.164  Sum_probs=52.4

Q ss_pred             HHhcCCHHHHHHHHHHhcCCC-CChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHccCcH
Q 012365          193 YTTCGEFEKARQVVLDAEIPV-KSRSEVKSALVSALASHGRTSDAIIVYEEIKEA---GCNLEPRAVIALIEHLNSEGEL  268 (465)
Q Consensus       193 ~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~g~~  268 (465)
                      +.+.|+-+ |.+.|-.++..+ -.+...... +..|....+.++++.++....+.   +-.+|+..+.+|...+.+.|++
T Consensus       117 Wsr~~d~~-A~~~fL~~E~~~~l~t~elq~a-LAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGDQE-ALRRFLQLEGTPELETAELQYA-LATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCcHH-HHHHHHHHcCCCCCCCHHHHHH-HHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            45556644 555555444333 334433344 44455577899999998887654   3468899999999999999999


Q ss_pred             HHHH
Q 012365          269 NRLI  272 (465)
Q Consensus       269 ~~a~  272 (465)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8875

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=82.78  E-value=11  Score=31.22  Aligned_cols=75  Identities=8%  Similarity=0.054  Sum_probs=40.6

Q ss_pred             HHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCCCCHHHHHHHHHH
Q 012365           15 KKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHH--NLKPNSETFRSMISL   90 (465)
Q Consensus        15 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~   90 (465)
                      +..++.+.+.+++.+|+...+.-.+..+ .|...-+.+++.++-.|++++|..-++...+.  ...+...+|..+|.+
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkakP-tda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAKP-TDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCC-ccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            4445556666666666666666555432 24445555666666666666666555444332  122334555555553

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=82.54  E-value=4.4  Score=32.91  Aligned_cols=72  Identities=17%  Similarity=0.129  Sum_probs=55.6

Q ss_pred             HHhHhhhhhhHHHHHHHHHHHcCCCCChh-----HHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHhhcc
Q 012365          369 GACVNARDLKRAHLIWKEYENAGLPYNVL-----SYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTYT  441 (465)
Q Consensus       369 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-----~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~~~~  441 (465)
                      .-+.+.|++++|..-|...++. +|+...     .|..-..++.+.+.|+.|+.-..+.++.+|+|.-.|.--..+|.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYE  179 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHH
Confidence            3456889999999999999987 565544     45555568899999999999999999999998666554334443

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=82.48  E-value=0.71  Score=24.67  Aligned_cols=24  Identities=13%  Similarity=0.066  Sum_probs=13.7

Q ss_pred             HHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          367 LLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       367 ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      +..++.+.|+.++|.+.|+++.+.
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHH
Confidence            344455566666666666666543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=82.04  E-value=13  Score=30.90  Aligned_cols=53  Identities=8%  Similarity=0.023  Sum_probs=25.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 012365           53 LHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDD  106 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  106 (465)
                      ++.+.+.+.+.+++.....-++.. +.|...-..++..+|-.|++++|..-++-
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l   60 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNL   60 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHH
Confidence            344444455555555554444433 33444444555555555555555544443

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=81.72  E-value=7.2  Score=29.43  Aligned_cols=72  Identities=13%  Similarity=0.155  Sum_probs=34.3

Q ss_pred             CcHHHHHHHHHHhHhh---hhhhHHHHHHHHHHHcCCCCChh-HHHHHHHHHHhcCChhhHHHHHhccCCCCCChh
Q 012365          359 PSRKCLDFLLGACVNA---RDLKRAHLIWKEYENAGLPYNVL-SYLWMYKAFLASGNRKSASKLLSKMPKDDPHVR  430 (465)
Q Consensus       359 p~~~~~~~ll~~~~~~---g~~~~A~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  430 (465)
                      ++..+--.+.+++.+.   .++.+...+++++.+...|.... ...-|.-++.|.|+++++.++++.+++..|.|.
T Consensus        30 ~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~  105 (149)
T KOG3364|consen   30 VSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNR  105 (149)
T ss_pred             chHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcH
Confidence            3333333444444443   23444555666665422122222 222333455566666666666666666555553

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=80.94  E-value=44  Score=30.44  Aligned_cols=64  Identities=16%  Similarity=0.119  Sum_probs=38.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCC---CC-hHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          182 TKYVFMALINAYTTCGEFEKARQVVLDAEIPV---KS-RSEVKSALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       182 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                      ...++..+...+.+.|.++.|...+.......   .. ...+...-+..+-..|+..+|+..+++...
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34566667777777788877777776633211   00 111233445566667777777777777666

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>smart00028 TPR Tetratricopeptide repeats

Probab=80.07  E-value=2.2  Score=21.90  Aligned_cols=26  Identities=19%  Similarity=0.204  Sum_probs=12.2

Q ss_pred             HHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          399 YLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       399 ~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      |..+...|...|++++|...+++..+
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            33444444445555555555444433

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.

---

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	465
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-19
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-13

>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 = 89.5 bits (221), Expect = 5e-19
 Identities = 83/523 (15%), Positives = 172/523 (32%), Gaps = 143/523 (27%)

Query: 2   HAKLEITPSSASYKKLITYSCDLLKVHVA-LDV--VEQMVQGELVPSTETINSILHACEE 58
           H   E       YK +++         V   D   V+ M +  L  S E I+ I+     
Sbjct: 6   HMDFETGEHQYQYKDILS---VFEDAFVDNFDCKDVQDMPKSIL--SKEEIDHII---MS 57

Query: 59  SYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASM 118
               +   R++  +     K               ++ F      ++++  +N       
Sbjct: 58  KDAVSGTLRLFWTLL---SKQEE-----------MVQKF------VEEVLRIN------- 90

Query: 119 YNAIMAGYFRKKDVQGALMVLKEMEQAN-VKPDSQTFSYLIHNCSNEEDIIKYYEQLKSA 177
           Y  +M+   + +  Q ++M    +EQ + +  D+Q F+   +N S  +  +K  + L   
Sbjct: 91  YKFLMSPI-KTEQRQPSMMTRMYIEQRDRLYNDNQVFAK--YNVSRLQPYLKLRQALLEL 147

Query: 178 GGQITKYVF---MALINAYTTCGEFEK---ARQVVLDAEIPVKSRSEVKSALVSALASHG 231
             +  K V    +         G   K   A  V L  +  V+ + + K   ++    + 
Sbjct: 148 --RPAKNVLIDGVL------GSG---KTWVALDVCLSYK--VQCKMDFKIFWLNL--KNC 192

Query: 232 RTSDAII-----VYEEIKEAGCNLEPRAVIALIEHLNS-EGELNRLIQL---------LE 276
            + + ++     +  +I     +        +   ++S + EL RL++          L 
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSR-SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251

Query: 277 EVHDPDYW--MDGCCRLILHCVRFKQLSSATD-------LLKQLKDKFKDDEMAMEYHFS 327
            V +   W   +  C+ IL   RFKQ++            L         DE+       
Sbjct: 252 NVQNAKAWNAFNLSCK-ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK------ 304

Query: 328 EIFCQIATTDPPD-----VQIGLDLLQFIKDELGLPPSR---------KCLDFLLGACVN 373
            +  +     P D     +      L  I + +    +            L  ++ + +N
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 374 ARDLKRAHLIWKEY--------ENAGLPYNVLSYLWMYKA------FLASGNRKSASKLL 419
              L+ A    ++          +A +P  +LS +W           +   ++ S   L+
Sbjct: 365 V--LEPAEY--RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS---LV 417

Query: 420 SKMPKDDPHVRFVIQACKQTYTIPSLQKERGFEKDRDTLLLHK 462
            K PK+             T +IPS+  E   + + +   LH+
Sbjct: 418 EKQPKE------------STISIPSIYLELKVKLENEY-ALHR 447

>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 = 44.8 bits (105), Expect = 5e-05
 Identities = 50/380 (13%), Positives = 109/380 (28%), Gaps = 120/380 (31%)

Query: 63  NLVRRIYPMIC-----HHNLKPNSETFRSMISLNVKIKDFDSAYSLLDD------LKEMN 111
            L+ +I P          N+K    + ++ +   +K K +++   +L +          N
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263

Query: 112 -----LMPT--ASMYNAIMAGYFRKKDVQGALMVLKEMEQ-------ANVKPDS------ 151
                L+ T    + + + A       +    M L   E         + +P        
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323

Query: 152 ----QTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALIN--------AYTTCGEF 199
               +  S +  +  +       ++ +     ++T  +  +L           +     F
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCD--KLTTIIESSLNVLEPAEYRKMFDRLSVF 381

Query: 200 EKARQVVLDAEIPVK---------SRSEVKSALV-----SALASHGRTSDAII--VYEEI 243
                    A IP            +S+V   +      S +    + S   I  +Y E+
Sbjct: 382 PP------SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL 435

Query: 244 KEAGCNLEPRAVI--ALIE----------------------------HLNSEGELNRLIQ 273
           K     LE    +  ++++                            HL    E    + 
Sbjct: 436 K---VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHL-KNIEHPERMT 491

Query: 274 LLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQ 332
           L   V   D+ +++   ++      +    S  + L+QLK  +K                
Sbjct: 492 LFRMVF-LDFRFLEQ--KIRHDSTAWNASGSILNTLQQLK-FYKP--------------Y 533

Query: 333 IATTDPPDVQIGLDLLQFIK 352
           I   DP   ++   +L F+ 
Sbjct: 534 ICDNDPKYERLVNAILDFLP 553

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 69.8 bits (169), Expect = 8e-13
 Identities = 28/163 (17%), Positives = 56/163 (34%), Gaps = 7/163 (4%)

Query: 23  DLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSE 82
            LL   +A  + +   Q    P  E +  +L         ++ +          L    +
Sbjct: 69  RLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQ 128

Query: 83  TFRSMISLNVKIKDFDSAYSLLDDLKEM---NLMPTASMYNAIMAGYFRKKDVQGALMVL 139
              +     +       A+ LL           + T  MYNA+M G+ R+   +  + VL
Sbjct: 129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVL 188

Query: 140 KEMEQANVKPDSQTFSYLI----HNCSNEEDIIKYYEQLKSAG 178
             ++ A + PD  +++  +        +   I +  EQ+   G
Sbjct: 189 FMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEG 231

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	465
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.81
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.8
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.79
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.76
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.72
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.72
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.72
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.71
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.69
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.69
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.67
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.61
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.6
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.58
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.58
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.57
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.56
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.55
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.54
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.54
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.5
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.49
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.49
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.48
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.48
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.48
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.47
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.46
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.46
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.46
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.45
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.42
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.41
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.41
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.39
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.38
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.37
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.36
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.36
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.36
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.33
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.3
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.29
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.29
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.27
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.24
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.23
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.22
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.19
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.18
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.17
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.17
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.16
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.14
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.14
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.14
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.11
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.09
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.09
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.07
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.0
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.96
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.94
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.92
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.88
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.88
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.87
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.87
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.84
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.82
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.79
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.74
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.74
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.73
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.73
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.72
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.72
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.72
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.71
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.71
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.71
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.69
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.69
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.67
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.67
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.67
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.67
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.63
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.62
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.62
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.61
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.59
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.58
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.57
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.56
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.56
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.55
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.54
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.53
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.49
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.49
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.48
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.47
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.47
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.46
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.46
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.45
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.41
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.41
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.4
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.38
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.38
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.34
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.33
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.33
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.33
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.33
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.33
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.33
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.33
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.32
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.32
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.32
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.31
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.31
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.31
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.28
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.27
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.27
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.26
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.26
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.25
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.23
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.21
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.19
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.19
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.17
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.17
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.16
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.15
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.14
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.13
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.12
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.11
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.11
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.1
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.05
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.03
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.02
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.02
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.0
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.0
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.99
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.99
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.92
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.85
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.84
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.83
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.81
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.81
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.78
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.75
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.7
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.7
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.64
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.64
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.61
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.58
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.57
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.57
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.56
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.53
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.49
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.48
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.47
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.44
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.36
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.31
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.16
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.15
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.03
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.01
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.0
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.95
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.85
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.8
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.58
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.44
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.4
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.39
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.36
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.84
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.81
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.52
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.48
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.47
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.46
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.06
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.9
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.77
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.72
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.69
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.23
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.22
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.91
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.71
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.32
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.06
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	92.86
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.79
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.25
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.01
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.4
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	91.36
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	90.46
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	90.28
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	89.8
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.72
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	89.11
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	88.71
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	86.58
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	86.55
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	85.73
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	84.97
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	84.55
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	83.95
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	83.63
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	83.26

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.2e-35  Score=291.55  Aligned_cols=414  Identities=12%  Similarity=0.022  Sum_probs=332.5

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      +++..|+.++..|.+.|++++|+.+|++|..  ..|+..++..++.+|...|++++|..+|+.+...  +++..+++.++
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~  157 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAA  157 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHH
Confidence            5788999999999999999999999999985  4678899999999999999999999999988654  68899999999


Q ss_pred             HHHhccCCHHHHHHHHHHHH-Hc--------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HH
Q 012365           89 SLNVKIKDFDSAYSLLDDLK-EM--------------NLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD-SQ  152 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~-~~--------------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~  152 (465)
                      .+|.+.|++++|.++|+++. ..              +.+++..+|+.++.+|.+.|++++|.++|++|.+.+  |+ ..
T Consensus       158 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~  235 (597)
T 2xpi_A          158 FCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD--AKCYE  235 (597)
T ss_dssp             HHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHH
T ss_pred             HHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--chhhH
Confidence            99999999999999999532 21              223458899999999999999999999999998753  32 22


Q ss_pred             HHHHH--------------------------------------HHhhCChhHHHH---HHHHHHHcCCCCCHHHHHHHHH
Q 012365          153 TFSYL--------------------------------------IHNCSNEEDIIK---YYEQLKSAGGQITKYVFMALIN  191 (465)
Q Consensus       153 ~~~~l--------------------------------------l~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~l~~  191 (465)
                      .+..+                                      +..+.+.|+..+   +++.+.+.  +++..+++.++.
T Consensus       236 ~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~  313 (597)
T 2xpi_A          236 AFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKAD  313 (597)
T ss_dssp             HHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHH
T ss_pred             HHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHH
Confidence            22222                                      333445555443   34433333  467888888888


Q ss_pred             HHHhcCCHHHHHHHHHHhc-CC---------------------------------CCChHHHHHHHHHHHHcCCChhHHH
Q 012365          192 AYTTCGEFEKARQVVLDAE-IP---------------------------------VKSRSEVKSALVSALASHGRTSDAI  237 (465)
Q Consensus       192 ~~~~~g~~~~a~~~~~~~~-~~---------------------------------~~~~~~~~~~l~~~~~~~g~~~~a~  237 (465)
                      +|.+.|++++|.++|+++. ..                                 .+....+|+.++..|.+.|++++|.
T Consensus       314 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  393 (597)
T 2xpi_A          314 TLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEAR  393 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHH
Confidence            8888888888888887632 11                                 1122335788888899999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHccc
Q 012365          238 IVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFK  316 (465)
Q Consensus       238 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  316 (465)
                      ++|+++.+... .+..++..++.+|.+.|++++|.++|+++.+.+. .+..+..++..|.+.|++++|.++|+++.+..+
T Consensus       394 ~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  472 (597)
T 2xpi_A          394 RYFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ  472 (597)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99998887652 3577888999999999999999999998876543 455677888889999999999999999988665


Q ss_pred             chhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhc----CCCCc--HHHHHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          317 DDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDEL----GLPPS--RKCLDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       317 ~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~----~~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      .+...++.+...+...      |++++|+++|+++. ..    +..|+  ..+|..++.+|.+.|++++|.++|+++.+.
T Consensus       473 ~~~~~~~~l~~~~~~~------g~~~~A~~~~~~~~-~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  545 (597)
T 2xpi_A          473 YDPLLLNELGVVAFNK------SDMQTAINHFQNAL-LLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLL  545 (597)
T ss_dssp             CCHHHHHHHHHHHHHT------TCHHHHHHHHHHHH-HHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHh------CCHHHHHHHHHHHH-HhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            6666666666555443      99999999999998 54    67888  789999999999999999999999999987


Q ss_pred             CCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHhh
Q 012365          391 GLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQT  439 (465)
Q Consensus       391 g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~~  439 (465)
                      + |.+..+|..++.+|.+.|++++|.++++++.+.+|.........+..
T Consensus       546 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~  593 (597)
T 2xpi_A          546 S-TNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRA  593 (597)
T ss_dssp             S-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHT
T ss_pred             C-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence            4 77899999999999999999999999999999888765554444443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.2e-31  Score=263.12  Aligned_cols=388  Identities=11%  Similarity=-0.008  Sum_probs=251.8

Q ss_pred             cccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 012365           23 DLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYS  102 (465)
Q Consensus        23 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  102 (465)
                      +.|.+..+...+..+    ..++...|+.++..+.+.|++++|..+|+++.+.  .|+..++..++.+|.+.|++++|..
T Consensus        65 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           65 TDGSFLKERNAQNTD----SLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccCccCCCCCccccc----hHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHH
Confidence            344455555555443    2357889999999999999999999999999864  5788999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HC--------------CCCCCHHHHHHHHHhhCC---h
Q 012365          103 LLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME-QA--------------NVKPDSQTFSYLIHNCSN---E  164 (465)
Q Consensus       103 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~--------------~~~p~~~~~~~ll~~~~~---~  164 (465)
                      +|+++...  +++..+++.++.+|.+.|++++|.++|+++. ..              +..++..+++.+..++.+   .
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            99998654  6899999999999999999999999999532 11              223457888888888654   4


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHH--------------------------------------HHHHHHHhcCCHHHHHHHH
Q 012365          165 EDIIKYYEQLKSAGGQITKYVFM--------------------------------------ALINAYTTCGEFEKARQVV  206 (465)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~--------------------------------------~l~~~~~~~g~~~~a~~~~  206 (465)
                      +++.+.++.+.+.+.. +...+.                                      .++..|.+.|++++|.++|
T Consensus       217 ~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  295 (597)
T 2xpi_A          217 DRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL  295 (597)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHH
Confidence            5566788888776532 333322                                      2355677889999999999


Q ss_pred             HHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCC---------------------------------CCHH
Q 012365          207 LDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCN---------------------------------LEPR  253 (465)
Q Consensus       207 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~---------------------------------p~~~  253 (465)
                      +++...+ +...+|+.++..|.+.|++++|.++|+++.+.+..                                 .+..
T Consensus       296 ~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  374 (597)
T 2xpi_A          296 SSINGLE-KSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAV  374 (597)
T ss_dssp             HTSTTGG-GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHH
T ss_pred             HHhhcCC-chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHH
Confidence            9744332 44456999999999999999999999999876521                                 1344


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHh
Q 012365          254 AVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQ  332 (465)
Q Consensus       254 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (465)
                      ++..+...|.+.|++++|.++|+++.+... .+..+..++..+.+.|++++|+++|+++.+..+.+...++.+...+...
T Consensus       375 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  454 (597)
T 2xpi_A          375 TWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQL  454 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHc
Confidence            445555555555555555555555543221 2334455555555555566666555555554333444444443333332


Q ss_pred             hhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CCCCC--hhHHHHHHHHH
Q 012365          333 IATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA----GLPYN--VLSYLWMYKAF  406 (465)
Q Consensus       333 ~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~~p~--~~~~~~l~~~~  406 (465)
                            |++++|+++|+++. ... ..+..+|+.++.+|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|
T Consensus       455 ------g~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~  526 (597)
T 2xpi_A          455 ------GNILLANEYLQSSY-ALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAY  526 (597)
T ss_dssp             ------TCHHHHHHHHHHHH-HHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHH
T ss_pred             ------CCHHHHHHHHHHHH-HhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHH
Confidence                  56666666666655 221 224555666666666666666666666666544    44454  45666666666


Q ss_pred             HhcCChhhHHHHHhccCCCCCC
Q 012365          407 LASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       407 ~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      .+.|++++|.++++++.+.+|.
T Consensus       527 ~~~g~~~~A~~~~~~~~~~~p~  548 (597)
T 2xpi_A          527 RKLKMYDAAIDALNQGLLLSTN  548 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSSC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCC
Confidence            6666666666666666555443

>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=100.00  E-value=1.2e-31  Score=252.63  Aligned_cols=192  Identities=20%  Similarity=0.277  Sum_probs=174.9

Q ss_pred             cCCCCCH-HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---------HHHHHHHHHHHhh
Q 012365            5 LEITPSS-ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYE---------FNLVRRIYPMICH   74 (465)
Q Consensus         5 ~~~~p~~-~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---------~~~a~~~~~~~~~   74 (465)
                      .++.+++ ..++.+|++|++.|++++|+++|++|.+.|++||..||+.||.+|++.+.         +++|.++|++|.+
T Consensus        19 k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~   98 (501)
T 4g26_A           19 KAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIV   98 (501)
T ss_dssp             -----CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHH
T ss_pred             hcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHH
Confidence            4555544 46899999999999999999999999999999999999999999987654         7889999999999


Q ss_pred             CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 012365           75 HNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTF  154 (465)
Q Consensus        75 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  154 (465)
                      .|+.||..||++||.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||
T Consensus        99 ~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty  178 (501)
T 4g26_A           99 DKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPEL  178 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             hCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhCChh---HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 012365          155 SYLIHNCSNEE---DIIKYYEQLKSAGGQITKYVFMALINAYTTC  196 (465)
Q Consensus       155 ~~ll~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  196 (465)
                      +++|.+|++.|   ++.++++.|.+.|..|+..||+.++..+...
T Consensus       179 ~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          179 AALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999987655   4667899999999999999999999988764

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=5.5e-30  Score=241.34  Aligned_cols=206  Identities=12%  Similarity=0.177  Sum_probs=156.3

Q ss_pred             HHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC---------H
Q 012365           28 HVALDVVEQMVQGELVPSTE-TINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD---------F   97 (465)
Q Consensus        28 ~~A~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---------~   97 (465)
                      ..+..+.+.+.+.+..+.+. .++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            34556667777777665543 5788899999999999999999999999999999999999999887654         6


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHc
Q 012365           98 DSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSA  177 (465)
Q Consensus        98 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~  177 (465)
                      +.|.++|++|...|+.||..||++||.+|++.|++++|.++|++|.+.|+.||..                         
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~-------------------------  141 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLR-------------------------  141 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHH-------------------------
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccc-------------------------
Confidence            7889999999999999999999999999999999999999999988877655544                         


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHH
Q 012365          178 GGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVI  256 (465)
Q Consensus       178 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  256 (465)
                             +|+++|.+|++.|++++|.++|++| .....|+..||++||.+|++.|++++|.+++++|.+.|..|+..||+
T Consensus       142 -------tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~  214 (501)
T 4g26_A          142 -------SYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFD  214 (501)
T ss_dssp             -------HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHH
T ss_pred             -------eehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHH
Confidence                   5556666677777777777777774 33455566678888888888888999999999999999999999999


Q ss_pred             HHHHHHHcc
Q 012365          257 ALIEHLNSE  265 (465)
Q Consensus       257 ~ll~~~~~~  265 (465)
                      .++..|+..
T Consensus       215 ~l~~~F~s~  223 (501)
T 4g26_A          215 MIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHSH
T ss_pred             HHHHHHhcC
Confidence            988888764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=4.3e-27  Score=217.90  Aligned_cols=376  Identities=13%  Similarity=0.030  Sum_probs=253.6

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      +...+.+.|++++|++.++.+.+.. +.+...+..+...+...|++++|...++...+.. +.+..+|..+..++.+.|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            3456778999999999999998764 3356677777788889999999999999988865 6788999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHH
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKS  176 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~  176 (465)
                      +++|...|+++.... |.+..+|..+..++.+.|++++|.+.|+++.+.  .|+.                         
T Consensus        83 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~-------------------------  134 (388)
T 1w3b_A           83 LQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDL-------------------------  134 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTC-------------------------
T ss_pred             HHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCc-------------------------
Confidence            999999999998764 456678999999999999999999999998764  3432                         


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHH
Q 012365          177 AGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVI  256 (465)
Q Consensus       177 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  256 (465)
                            ...+..+...+...|++++|.+.|+++....+....+|..+...+...|++++|...|+++.+.+. .+...+.
T Consensus       135 ------~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~  207 (388)
T 1w3b_A          135 ------YCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYI  207 (388)
T ss_dssp             ------THHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHH
T ss_pred             ------HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHH
Confidence                  223333444455555555555555542221222222355555555555556666655555555441 1244455


Q ss_pred             HHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhc
Q 012365          257 ALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIAT  335 (465)
Q Consensus       257 ~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (465)
                      .+...+...|++++|...+++.....+ .+..+..+...+...|++++|++.|+++....+.+...+..+...+...   
T Consensus       208 ~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~---  284 (388)
T 1w3b_A          208 NLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEK---  284 (388)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHc---
Confidence            555555555555555555555543322 1233444555555666666666666665553333333333333333222   


Q ss_pred             CCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhH
Q 012365          336 TDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSA  415 (465)
Q Consensus       336 ~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  415 (465)
                         |++++|+..|+++. .. .+++..++..+...+...|++++|...++++.+. .|.+..++..+..+|.+.|++++|
T Consensus       285 ---g~~~~A~~~~~~al-~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A  358 (388)
T 1w3b_A          285 ---GSVAEAEDCYNTAL-RL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEA  358 (388)
T ss_dssp             ---SCHHHHHHHHHHHH-HH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             ---CCHHHHHHHHHHHH-hh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHH
Confidence               67777777777766 32 2346677888888888888888888888888875 366677888888888888888888


Q ss_pred             HHHHhccCCCCCChhHHHHHHHh
Q 012365          416 SKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       416 ~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                      .+.++++.+.+|.....+...+.
T Consensus       359 ~~~~~~a~~~~p~~~~a~~~lg~  381 (388)
T 1w3b_A          359 LMHYKEAIRISPTFADAYSNMGN  381 (388)
T ss_dssp             HHHHHHHHTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHhhCCCCHHHHHhHHH
Confidence            88888888887766555544444

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=1.9e-24  Score=200.15  Aligned_cols=357  Identities=11%  Similarity=0.007  Sum_probs=291.1

Q ss_pred             CCC-HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHH
Q 012365            8 TPS-SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRS   86 (465)
Q Consensus         8 ~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   86 (465)
                      .|+ ...+..+...+.+.|++++|...++...+.. +.+..+|..+..++...|++++|.+.|+++.+.. +.+..+|..
T Consensus        29 ~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~  106 (388)
T 1w3b_A           29 EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYIN  106 (388)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHH
Confidence            454 5566677778888999999999999988754 4588899999999999999999999999998865 456788999


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhH
Q 012365           87 MISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED  166 (465)
Q Consensus        87 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  166 (465)
                      +..++.+.|++++|...|+++.+.+ +.+...+..+...+...|++++|.+.|+++.+.  .|                 
T Consensus       107 l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p-----------------  166 (388)
T 1w3b_A          107 LAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIET--QP-----------------  166 (388)
T ss_dssp             HHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH--CT-----------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CC-----------------
Confidence            9999999999999999999998875 445667888889999999999999999998753  12                 


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          167 IIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                                    .+..++..+...+...|++++|...|++.....+.....|..+...+...|++++|...+.+....
T Consensus       167 --------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  232 (388)
T 1w3b_A          167 --------------NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL  232 (388)
T ss_dssp             --------------TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH
T ss_pred             --------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence                          245677778888899999999999998743223333345888899999999999999999998886


Q ss_pred             CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHH
Q 012365          247 GCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYH  325 (465)
Q Consensus       247 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  325 (465)
                      .. .+..++..+..++.+.|++++|...++++.+..+ .++.+..+...+.+.|++++|...|+++.+..+.+...+..+
T Consensus       233 ~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l  311 (388)
T 1w3b_A          233 SP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNL  311 (388)
T ss_dssp             CT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             Cc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHH
Confidence            52 2477888899999999999999999999876554 355777888888899999999999999988655555555544


Q ss_pred             HHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          326 FSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       326 l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      ...+..      .|++++|...++++.   ...| +..++..+..++.+.|++++|...|+++.+. .|.+...|..+..
T Consensus       312 ~~~~~~------~g~~~~A~~~~~~al---~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~-~p~~~~a~~~lg~  381 (388)
T 1w3b_A          312 ANIKRE------QGNIEEAVRLYRKAL---EVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI-SPTFADAYSNMGN  381 (388)
T ss_dssp             HHHHHT------TTCHHHHHHHHHHHT---TSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT-CTTCHHHHHHHHH
T ss_pred             HHHHHH------cCCHHHHHHHHHHHH---hcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCHHHHHhHHH
Confidence            433322      499999999999998   3445 5778999999999999999999999999986 3667778888888


Q ss_pred             HHHhcCC
Q 012365          405 AFLASGN  411 (465)
Q Consensus       405 ~~~~~g~  411 (465)
                      .+...|+
T Consensus       382 ~~~~~~~  388 (388)
T 1w3b_A          382 TLKEMQD  388 (388)
T ss_dssp             HHHHTCC
T ss_pred             HHHHccC
Confidence            8777664

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=2.2e-23  Score=200.39  Aligned_cols=414  Identities=9%  Similarity=-0.029  Sum_probs=312.5

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      ...|......+.+.|++++|+..|+++.+..  |+..++..+..++...|++++|.+.++.+.+.+ +.+..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            4567778888999999999999999999865  689999999999999999999999999999876 5678899999999


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-------------------CCC--
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN-------------------VKP--  149 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-------------------~~p--  149 (465)
                      +.+.|++++|...|+++...+ +++......++..+........+.+.+..+...+                   ..|  
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            999999999999999998876 4555555555555554433333333332211110                   111  


Q ss_pred             ----------------------C-HHHHHHHHH-hh-----CChhHHHHHHHHHHH-----cCC--------CCCHHHHH
Q 012365          150 ----------------------D-SQTFSYLIH-NC-----SNEEDIIKYYEQLKS-----AGG--------QITKYVFM  187 (465)
Q Consensus       150 ----------------------~-~~~~~~ll~-~~-----~~~~~~~~~~~~~~~-----~~~--------~~~~~~~~  187 (465)
                                            + ...+..... .+     ++...+...++.+.+     ..-        +.+..++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                                  1 111111111 11     223445556666665     211        22356777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 012365          188 ALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEG  266 (465)
Q Consensus       188 ~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g  266 (465)
                      .+...+...|++++|...|++. ...+.  ..++..+...+...|++++|...++++..... .+...+..+...+...|
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhC
Confidence            8889999999999999999883 33333  55689999999999999999999999988653 35678888999999999


Q ss_pred             cHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhH
Q 012365          267 ELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGL  345 (465)
Q Consensus       267 ~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~  345 (465)
                      ++++|...++...+... .+..+..+...+...|++++|...++++....+.+...+..+...++.      .|++++|.
T Consensus       319 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~------~~~~~~A~  392 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTD------KNDFDKAL  392 (514)
T ss_dssp             CTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHH------TTCHHHHH
T ss_pred             CHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHH------CCCHHHHH
Confidence            99999999999876543 355667788888899999999999999988544444444444443333      39999999


Q ss_pred             HhHHHHHhhcCCCCc----HHHHHHHHHHhHh---hhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHH
Q 012365          346 DLLQFIKDELGLPPS----RKCLDFLLGACVN---ARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKL  418 (465)
Q Consensus       346 ~~~~~m~~~~~~~p~----~~~~~~ll~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  418 (465)
                      ..++++.....-.|+    ...+..+...+..   .|++++|...++++.+.. +.+..++..+...|.+.|++++|...
T Consensus       393 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~  471 (514)
T 2gw1_A          393 KQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITL  471 (514)
T ss_dssp             HHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHH
Confidence            999998832222232    3478889999999   999999999999999873 66788999999999999999999999


Q ss_pred             HhccCCCCCChhHHHHHHHh
Q 012365          419 LSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       419 ~~~m~~~~~~~~~~l~~~~~  438 (465)
                      ++++.+.+|.....+.....
T Consensus       472 ~~~a~~~~~~~~~~~~~~~~  491 (514)
T 2gw1_A          472 FEESADLARTMEEKLQAITF  491 (514)
T ss_dssp             HHHHHHHCSSHHHHHHHHHH
T ss_pred             HHHHHHhccccHHHHHHHHH
Confidence            99999999987666655443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=4.8e-22  Score=187.71  Aligned_cols=359  Identities=10%  Similarity=-0.022  Sum_probs=221.8

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...|..+...+.+.|++++|+.+|+.+.+.. +.+..++..+..++...|++++|...++.+.+.+ +.+..++..+..
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            45677788888888888888888888887653 3367788888888888888888888888888765 456778888888


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHH------------HHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTA---SMYNAIMA------------GYFRKKDVQGALMVLKEMEQANVKPDSQTF  154 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~li~------------~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  154 (465)
                      +|.+.|++++|...|+++...+ +.+.   ..+..+..            .+...|++++|...|+++.+..        
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--------  173 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC--------  173 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--------
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------
Confidence            8888888888888888887654 2333   55555533            3677777777777777776531        


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChh
Q 012365          155 SYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTS  234 (465)
Q Consensus       155 ~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  234 (465)
                                               +.+..++..+..+|.+.|++++|.+.|++.....+....+|..+...|...|+++
T Consensus       174 -------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  228 (450)
T 2y4t_A          174 -------------------------VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHE  228 (450)
T ss_dssp             -------------------------TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHH
T ss_pred             -------------------------CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence                                     2244555666666666666666666666532212222234666666666667777


Q ss_pred             HHHHHHHHHHHcCCCCC-HHHHHHH------------HHHHHccCcHHHHHHHHHHHcCCCCC-----ccchhhHhhHhh
Q 012365          235 DAIIVYEEIKEAGCNLE-PRAVIAL------------IEHLNSEGELNRLIQLLEEVHDPDYW-----MDGCCRLILHCV  296 (465)
Q Consensus       235 ~a~~~~~~m~~~~~~p~-~~~~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~~~~~~  296 (465)
                      +|+..|+++....  |+ ...+..+            ...+.+.|++++|...++.+.+..+.     ...+..+...+.
T Consensus       229 ~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~  306 (450)
T 2y4t_A          229 LSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFS  306 (450)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHH
Confidence            7777766666543  33 2223222            55666667777777777666543322     113445555666


Q ss_pred             hcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc-HHHHHHHHHH-----
Q 012365          297 RFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS-RKCLDFLLGA-----  370 (465)
Q Consensus       297 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~-~~~~~~ll~~-----  370 (465)
                      +.|++++|+..++++....+.+...+..+...+..      .|++++|...++++.   ...|+ ...+..+..+     
T Consensus       307 ~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~------~~~~~~A~~~~~~al---~~~p~~~~~~~~l~~~~~~~~  377 (450)
T 2y4t_A          307 KDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLI------EEMYDEAIQDYETAQ---EHNENDQQIREGLEKAQRLLK  377 (450)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH------TTCHHHHHHHHHHHH---TTSSSCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH------hcCHHHHHHHHHHHH---HhCcchHHHHHHHHHHHHHhh
Confidence            67777777777776665433333444433333322      277777777777776   34553 3344444322     


Q ss_pred             -------hHhhh-----hhhHHHHHHHHHHHcCCCCC----h-------hHHHHHHHHHHhcCChhhHH
Q 012365          371 -------CVNAR-----DLKRAHLIWKEYENAGLPYN----V-------LSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       371 -------~~~~g-----~~~~A~~~~~~m~~~g~~p~----~-------~~~~~l~~~~~~~g~~~~A~  416 (465)
                             |...|     +.+++.+.++++... ..||    .       ..+..+..+|...|+.+++.
T Consensus       378 ~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~-~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r~  445 (450)
T 2y4t_A          378 QSQKRDYYKILGVKRNAKKQEIIKAYRKLALQ-WHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMRK  445 (450)
T ss_dssp             HHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHH-SCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC-
T ss_pred             cccchhHHHHhCCCccCCHHHHHHHHHHHHHH-hCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence                   22333     456667777763321 1222    1       25666777777777766544

>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=99.91  E-value=5.8e-21  Score=184.58  Aligned_cols=408  Identities=10%  Similarity=-0.004  Sum_probs=300.4

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      ...|..+...+.+.|++++|++.|+++.+... .+...+..+..++...|++++|.+.++.+.+.+ +.+..++..+..+
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            46678888899999999999999999988653 478899999999999999999999999999876 5678999999999


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCCCCHHHHHHHHHh----
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA------NVKPDSQTFSYLIHN----  160 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~~p~~~~~~~ll~~----  160 (465)
                      +...|++++|...|+.+..   .|+  ..+..+..+...+...+|...++++...      ...|+.......+..    
T Consensus       103 ~~~~g~~~~A~~~~~~~~~---~~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLSL---NGD--FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHHHHhc---CCC--CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            9999999999999974432   233  2233344556666678888888887542      233444433322211    


Q ss_pred             --------------------------hC-----------ChhHHHHHHHHHHHcCCCCC-------HHHHHHHHHHHHhc
Q 012365          161 --------------------------CS-----------NEEDIIKYYEQLKSAGGQIT-------KYVFMALINAYTTC  196 (465)
Q Consensus       161 --------------------------~~-----------~~~~~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~  196 (465)
                                                +.           +..++..+++.+.+.... +       ..++..+...+...
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~  256 (537)
T 3fp2_A          178 LEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLK  256 (537)
T ss_dssp             HHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhc
Confidence                                      11           223344455555554322 2       23566677888999


Q ss_pred             CCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHH
Q 012365          197 GEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLL  275 (465)
Q Consensus       197 g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  275 (465)
                      |++++|.+.|++. ...+.  ...|..+...+...|++++|...+.++.+... .+..++..+...+...|++++|...+
T Consensus       257 ~~~~~A~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~  333 (537)
T 3fp2_A          257 NNLLDAQVLLQESINLHPT--PNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKNAKEDF  333 (537)
T ss_dssp             TCHHHHHHHHHHHHHHCCC--HHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcCCC--chHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            9999999999883 33333  44588899999999999999999999998763 35788899999999999999999999


Q ss_pred             HHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhh
Q 012365          276 EEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDE  354 (465)
Q Consensus       276 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~  354 (465)
                      +++.+..+ .+..+..+...+...|++++|...|+++....+.+...+..+...+..      .|++++|...|+++...
T Consensus       334 ~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~------~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          334 QKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTD------RGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH------TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH------hCCHHHHHHHHHHHHHc
Confidence            99876543 355677888888999999999999999988654444444444333333      49999999999998722


Q ss_pred             cCCCC----cHHHHHHHHHHhHhh----------hhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHh
Q 012365          355 LGLPP----SRKCLDFLLGACVNA----------RDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS  420 (465)
Q Consensus       355 ~~~~p----~~~~~~~ll~~~~~~----------g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  420 (465)
                      ..-.+    ....+......+...          |++++|...|+++.+. .|.+..++..+...|.+.|++++|.+.++
T Consensus       408 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  486 (537)
T 3fp2_A          408 EEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL-DPRSEQAKIGLAQLKLQMEKIDEAIELFE  486 (537)
T ss_dssp             HHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            11111    122244455667777          9999999999999987 37778899999999999999999999999


Q ss_pred             ccCCCCCChhHHHHHH
Q 012365          421 KMPKDDPHVRFVIQAC  436 (465)
Q Consensus       421 ~m~~~~~~~~~~l~~~  436 (465)
                      +..+.+|.....+...
T Consensus       487 ~al~~~~~~~~~~~~~  502 (537)
T 3fp2_A          487 DSAILARTMDEKLQAT  502 (537)
T ss_dssp             HHHHHC--CHHHHHHH
T ss_pred             HHHHhCCCcHHHHHHH
Confidence            9999888765554443

>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=99.91  E-value=1.5e-21  Score=184.34  Aligned_cols=341  Identities=10%  Similarity=0.006  Sum_probs=218.8

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 012365           29 VALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLK  108 (465)
Q Consensus        29 ~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  108 (465)
                      .+...+....... +.+...+..+...+.+.|++++|..+|+.+.+.. +.+..++..+..++...|++++|...|+++.
T Consensus        10 ~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   87 (450)
T 2y4t_A           10 GVDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVI   87 (450)
T ss_dssp             --------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3444444444432 3356677777777888888888888888877654 4567778888888888888888888888877


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCH---HH
Q 012365          109 EMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITK---YV  185 (465)
Q Consensus       109 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~---~~  185 (465)
                      +.+ +.+...|..+...|.+.|++++|.+.|+++.+.  .|+                               +.   ..
T Consensus        88 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~-------------------------------~~~~~~~  133 (450)
T 2y4t_A           88 QLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPS-------------------------------ENEEKEA  133 (450)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CCC-------------------------------HHHHHHH
T ss_pred             hcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC-------------------------------ChhhHHH
Confidence            765 456777778888888888888888888777653  121                               22   45


Q ss_pred             HHHHHHH------------HHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHH
Q 012365          186 FMALINA------------YTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPR  253 (465)
Q Consensus       186 ~~~l~~~------------~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  253 (465)
                      +..+...            +...|++++|...|+++....+....++..+...|...|++++|.+.|+++.+... .+..
T Consensus       134 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~  212 (450)
T 2y4t_A          134 QSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKN-DNTE  212 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHH
Confidence            5555333            66667777777776653222222233466666677777777777777776665531 2456


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhh
Q 012365          254 AVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQI  333 (465)
Q Consensus       254 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  333 (465)
                      ++..+...+...|++++|...++++.+..+..                ..+...+..+..     ..........++.  
T Consensus       213 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~----------------~~~~~~~~~~~~-----~~~~~~~~~~~~~--  269 (450)
T 2y4t_A          213 AFYKISTLYYQLGDHELSLSEVRECLKLDQDH----------------KRCFAHYKQVKK-----LNKLIESAEELIR--  269 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC----------------HHHHHHHHHHHH-----HHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCh----------------HHHHHHHHHHHH-----HHHHHHHHHHHHH--
Confidence            66666666666666666666666654322111                001111100000     0000011222222  


Q ss_pred             hcCCCCchhhhHHhHHHHHhhcCCCCc-----HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 012365          334 ATTDPPDVQIGLDLLQFIKDELGLPPS-----RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLA  408 (465)
Q Consensus       334 ~~~~~~~~~~A~~~~~~m~~~~~~~p~-----~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  408 (465)
                          .|++++|+..|+++. .  ..|+     ...|..+..++.+.|++++|...++++.+. .|.+..+|..+..+|..
T Consensus       270 ----~g~~~~A~~~~~~~l-~--~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~-~p~~~~~~~~l~~~~~~  341 (450)
T 2y4t_A          270 ----DGRYTDATSKYESVM-K--TEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM-EPDNVNALKDRAEAYLI  341 (450)
T ss_dssp             ----HTCHHHHHHHHHHHH-H--HCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHH
T ss_pred             ----cCCHHHHHHHHHHHH-h--cCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHH
Confidence                399999999999998 3  3454     457888899999999999999999999987 36688999999999999


Q ss_pred             cCChhhHHHHHhccCCCCCChhHHHHHHH
Q 012365          409 SGNRKSASKLLSKMPKDDPHVRFVIQACK  437 (465)
Q Consensus       409 ~g~~~~A~~~~~~m~~~~~~~~~~l~~~~  437 (465)
                      .|++++|...++++.+.+|.........+
T Consensus       342 ~~~~~~A~~~~~~al~~~p~~~~~~~~l~  370 (450)
T 2y4t_A          342 EEMYDEAIQDYETAQEHNENDQQIREGLE  370 (450)
T ss_dssp             TTCHHHHHHHHHHHHTTSSSCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            99999999999999998887544443333

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.90  E-value=2.7e-21  Score=185.78  Aligned_cols=379  Identities=8%  Similarity=-0.031  Sum_probs=284.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG  125 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  125 (465)
                      ...+......+...|++++|...|+++.+..  |+..+|..+..++.+.|++++|...|+++.+.+ +.+..+|..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            3466677788999999999999999999875  799999999999999999999999999998876 5677899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHH---HH-------------------------------
Q 012365          126 YFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK---YY-------------------------------  171 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~---~~-------------------------------  171 (465)
                      +.+.|++++|...|+++...+ +++.......+..+........   .+                               
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            999999999999999998865 2333333333332221111111   11                               


Q ss_pred             ----HHHHHcCCC--------C-CHHHHHHHHHHHHh---cCCHHHHHHHHHHhcC--------CC------CChHHHHH
Q 012365          172 ----EQLKSAGGQ--------I-TKYVFMALINAYTT---CGEFEKARQVVLDAEI--------PV------KSRSEVKS  221 (465)
Q Consensus       172 ----~~~~~~~~~--------~-~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~--------~~------~~~~~~~~  221 (465)
                          ..+......        | +...+......+..   .|++++|...|++...        .+      +....++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                011110000        1 13444444444444   8999999999987322        22      12233578


Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCC
Q 012365          222 ALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQ  300 (465)
Q Consensus       222 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  300 (465)
                      .+...+...|++++|...++++.+..  |+...+..+...+...|++++|...++.+.+... .+..+..+...+...|+
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCC
Confidence            88999999999999999999999887  4478888999999999999999999999887654 35567778888899999


Q ss_pred             hhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHH
Q 012365          301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRA  380 (465)
Q Consensus       301 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A  380 (465)
                      +++|...|++.....+.+...+..+...+      ...|++++|+..++++. ... +.+...+..+...+...|++++|
T Consensus       320 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~------~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~la~~~~~~~~~~~A  391 (514)
T 2gw1_A          320 YDQAGKDFDKAKELDPENIFPYIQLACLA------YRENKFDDCETLFSEAK-RKF-PEAPEVPNFFAEILTDKNDFDKA  391 (514)
T ss_dssp             TTHHHHHHHHHHHTCSSCSHHHHHHHHHT------TTTTCHHHHHHHHHHHH-HHS-TTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhChhhHHHHHHHHHHH------HHcCCHHHHHHHHHHHH-HHc-ccCHHHHHHHHHHHHHCCCHHHH
Confidence            99999999999885444444443333322      23599999999999998 321 22456788899999999999999


Q ss_pred             HHHHHHHHHcCCCCC------hhHHHHHHHHHHh---cCChhhHHHHHhccCCCCCChhHHHHHHHhh
Q 012365          381 HLIWKEYENAGLPYN------VLSYLWMYKAFLA---SGNRKSASKLLSKMPKDDPHVRFVIQACKQT  439 (465)
Q Consensus       381 ~~~~~~m~~~g~~p~------~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~~  439 (465)
                      ...++++.+.. +.+      ..++..+...|..   .|++++|...++++.+.+|.........+..
T Consensus       392 ~~~~~~a~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~  458 (514)
T 2gw1_A          392 LKQYDLAIELE-NKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQM  458 (514)
T ss_dssp             HHHHHHHHHHH-HTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhh-hccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            99999998752 222      3389999999999   9999999999999998777654444333333

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=6.7e-19  Score=160.69  Aligned_cols=335  Identities=9%  Similarity=0.001  Sum_probs=168.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR  128 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  128 (465)
                      +..+...+...|++++|...|+.+.+.. +.+..++..+...+...|++++|...|++..+.. +.+...|..+...+..
T Consensus         6 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   83 (359)
T 3ieg_A            6 HLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLK   83 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHH
Confidence            3334444444444444444444444432 2234444444444444444444444444444332 2234444444444444


Q ss_pred             cCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 012365          129 KKDVQGALMVLKEMEQANVKP---DSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQV  205 (465)
Q Consensus       129 ~g~~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  205 (465)
                      .|++++|...|++..+.  .|   +.......+...   ..                ...+..+...+...|++++|.+.
T Consensus        84 ~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~---~~----------------~~~~~~~a~~~~~~~~~~~A~~~  142 (359)
T 3ieg_A           84 QGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKA---DE----------------MQRLRSQALDAFDGADYTAAITF  142 (359)
T ss_dssp             HTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHH---HH----------------HHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHH---HH----------------HHHHHHHHHHHHHccCHHHHHHH
Confidence            55555555555444432  23   111111111000   00                01122334455566666666666


Q ss_pred             HHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCc
Q 012365          206 VLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWM  285 (465)
Q Consensus       206 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  285 (465)
                      +++.....+.....+..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|...++...+..+. 
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-  220 (359)
T 3ieg_A          143 LDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-  220 (359)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-
T ss_pred             HHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-
Confidence            655222122222335566666666666666666666666543 124555566666666666666666666665432211 


Q ss_pred             cchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc-H---
Q 012365          286 DGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS-R---  361 (465)
Q Consensus       286 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~-~---  361 (465)
                                     ...+...+..+..     ..........++.      .|++++|...++++. ..  .|+ .   
T Consensus       221 ---------------~~~~~~~~~~~~~-----~~~~~~~a~~~~~------~~~~~~A~~~~~~~~-~~--~~~~~~~~  271 (359)
T 3ieg_A          221 ---------------HKRCFAHYKQVKK-----LNKLIESAEELIR------DGRYTDATSKYESVM-KT--EPSVAEYT  271 (359)
T ss_dssp             ---------------CHHHHHHHHHHHH-----HHHHHHHHHHHHH------TTCHHHHHHHHHHHH-HH--CCSSHHHH
T ss_pred             ---------------chHHHHHHHHHHH-----HHHHHHHHHHHHH------cCCHHHHHHHHHHHH-hc--CCCchHHH
Confidence                           1111111111110     0000000001111      266666666666665 22  222 2   


Q ss_pred             -HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHh
Q 012365          362 -KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       362 -~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                       ..+..+..++...|++++|...+++..+. .|.+..++..+...|.+.|++++|.+.++++.+.+|...........
T Consensus       272 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~  348 (359)
T 3ieg_A          272 VRSKERICHCFSKDEKPVEAIRICSEVLQM-EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEK  348 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHH
Confidence             23445667788888888888888888876 36677888888888888899999999988888888865544444333

>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=99.85  E-value=2.8e-18  Score=165.73  Aligned_cols=378  Identities=10%  Similarity=0.026  Sum_probs=271.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG  125 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  125 (465)
                      ...+..+...+.+.|++++|.+.|+.+.+.. +.++.++..+..+|.+.|++++|...|++..+.+ +.+..++..+...
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4567778888999999999999999999876 5689999999999999999999999999998876 5678899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHH--HHHHHHhhCChhHHHHHHHHHHHc------CCCCCHH-------------
Q 012365          126 YFRKKDVQGALMVLKEMEQANVKPDSQT--FSYLIHNCSNEEDIIKYYEQLKSA------GGQITKY-------------  184 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~~~~~~~~~~~~~~~~------~~~~~~~-------------  184 (465)
                      +...|++++|...|+.+..   .|+...  ...++. ......+...++.+...      ...|+..             
T Consensus       103 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~~~-~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLSL---NGDFDGASIEPMLE-RNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHL  178 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC--------------CHHH-HHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHH
T ss_pred             HHHcCCHHHHHHHHHHHhc---CCCCChHHHHHHHH-HHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHH
Confidence            9999999999999974422   232211  111111 11112233333333221      1112211             


Q ss_pred             -----------------HHHHHHHHHHh--------cCCHHHHHHHHHHh-cCCCCChH------HHHHHHHHHHHcCCC
Q 012365          185 -----------------VFMALINAYTT--------CGEFEKARQVVLDA-EIPVKSRS------EVKSALVSALASHGR  232 (465)
Q Consensus       185 -----------------~~~~l~~~~~~--------~g~~~~a~~~~~~~-~~~~~~~~------~~~~~l~~~~~~~g~  232 (465)
                                       ....+...+..        .|++++|..++++. ...+....      .++..+...+...|+
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~  258 (537)
T 3fp2_A          179 EVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNN  258 (537)
T ss_dssp             HHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhccc
Confidence                             22222222222        24789999999884 33333322      136667788889999


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHH
Q 012365          233 TSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQL  311 (465)
Q Consensus       233 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~  311 (465)
                      +++|...+.+.....  |+...+..+...+...|++++|...++.+.+..+ .+..+..+...+...|++++|...|++.
T Consensus       259 ~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  336 (537)
T 3fp2_A          259 LLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKA  336 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            999999999999876  6688888999999999999999999999876543 3556778888889999999999999999


Q ss_pred             HHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcC
Q 012365          312 KDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAG  391 (465)
Q Consensus       312 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g  391 (465)
                      ....+.+...+..+...++.      .|++++|+..++++. ... +.+...+..+...+...|++++|...++++.+..
T Consensus       337 ~~~~~~~~~~~~~la~~~~~------~g~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          337 QSLNPENVYPYIQLACLLYK------QGKFTESEAFFNETK-LKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHCTTCSHHHHHHHHHHHH------TTCHHHHHHHHHHHH-HHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHH------cCCHHHHHHHHHHHH-HhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            88554444455444444333      399999999999998 332 2345678888999999999999999999998652


Q ss_pred             -----CCCChhHHHHHHHHHHhc----------CChhhHHHHHhccCCCCCChhHHHHHHHhh
Q 012365          392 -----LPYNVLSYLWMYKAFLAS----------GNRKSASKLLSKMPKDDPHVRFVIQACKQT  439 (465)
Q Consensus       392 -----~~p~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~~~~~~~~l~~~~~~  439 (465)
                           .......+..+...|.+.          |++++|...++++.+.+|.........+..
T Consensus       409 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~  471 (537)
T 3fp2_A          409 EVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQL  471 (537)
T ss_dssp             HHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence                 111222345556778888          999999999999998888655444444443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.81  E-value=3.9e-17  Score=147.12  Aligned_cols=291  Identities=13%  Similarity=0.037  Sum_probs=179.1

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012365           79 PNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLI  158 (465)
Q Consensus        79 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  158 (465)
                      .+...+..+...+...|++++|..+|+++.... +.+...+..++..+...|++++|..+++++.+..  |         
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~---------   87 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY--P---------   87 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--T---------
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC--c---------
Confidence            344445555555666666666666666665543 3344455555566666666666666666655421  1         


Q ss_pred             HhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHH
Q 012365          159 HNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCG-EFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAI  237 (465)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  237 (465)
                                            .+...+..+...+...| ++++|.+.|++.....+.....|..+...+...|++++|.
T Consensus        88 ----------------------~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~  145 (330)
T 3hym_B           88 ----------------------SNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAM  145 (330)
T ss_dssp             ----------------------TSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHH
T ss_pred             ----------------------CCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHH
Confidence                                  12334455555566666 6666666666532222222234666666667777777777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHccc
Q 012365          238 IVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFK  316 (465)
Q Consensus       238 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  316 (465)
                      ..+++..+.... +...+..+...+...|++++|...+++..+..+. +..+..+...+...|++++|...+++......
T Consensus       146 ~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  224 (330)
T 3hym_B          146 AAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIK  224 (330)
T ss_dssp             HHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhh
Confidence            777766665421 2344555666666666666666666666554322 23344455555566666666666665544100


Q ss_pred             chhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCCh
Q 012365          317 DDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNV  396 (465)
Q Consensus       317 ~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~  396 (465)
                      .                    .++             .........++..+..++...|++++|...+++..+.. +.+.
T Consensus       225 ~--------------------~~~-------------~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~  270 (330)
T 3hym_B          225 A--------------------IGN-------------EVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNA  270 (330)
T ss_dssp             T--------------------TSC-------------SCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCS
T ss_pred             h--------------------ccc-------------cccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccch
Confidence            0                    000             01123345678888899999999999999999999873 6678


Q ss_pred             hHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHh
Q 012365          397 LSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       397 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                      .++..+...|.+.|++++|.+.++++.+.+|.........+.
T Consensus       271 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  312 (330)
T 3hym_B          271 STYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGH  312 (330)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHH
Confidence            899999999999999999999999999988876544444444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.81  E-value=5.3e-20  Score=178.59  Aligned_cols=159  Identities=11%  Similarity=0.117  Sum_probs=131.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhh---CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICH---HNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAI  122 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  122 (465)
                      ..||+++|.+|++.|++++|.++|+.|.+   .|+.||+.|||+||++||+.|++++|.++|++|.+.|+.||..|||++
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            35899999999999999999999988764   578999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHH--cCCCCC------HHHHHHHHHHH
Q 012365          123 MAGYFRKKDV-QGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKS--AGGQIT------KYVFMALINAY  193 (465)
Q Consensus       123 i~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~--~~~~~~------~~~~~~l~~~~  193 (465)
                      |.++++.|+. ++|.++|++|.+.|+.||..||+.++.++.+.    .+++.+.+  .++.|+      ..+...|.+.|
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHhCcccCCCCCCcccccchHHHHHHH
Confidence            9999999985 78999999999999999999999888654433    34444443  344443      45566677777


Q ss_pred             HhcC---------CHHHHHHHHHH
Q 012365          194 TTCG---------EFEKARQVVLD  208 (465)
Q Consensus       194 ~~~g---------~~~~a~~~~~~  208 (465)
                      .+.+         ..++-.+.|++
T Consensus       283 s~d~~~s~pk~~~~~~~L~~~~~~  306 (1134)
T 3spa_A          283 AKDGRVSYPKLHLPLKTLQCLFEK  306 (1134)
T ss_dssp             CCCSCCCCCCCSSCHHHHHHHHHH
T ss_pred             ccCCCCcCccccCCHHHHHHHHHH
Confidence            7665         24666666654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.81  E-value=3.8e-17  Score=147.22  Aligned_cols=287  Identities=10%  Similarity=0.053  Sum_probs=159.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...+..+...+...|++++|.++++.+.+.. +.+...+..++..+...|++++|..+++++.+.. +.+...|..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            34455555556666666666666666665543 3344455555566666666666666666665543 344556666666


Q ss_pred             HHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 012365          125 GYFRKK-DVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKAR  203 (465)
Q Consensus       125 ~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  203 (465)
                      .+...| ++++|.+.|++..+..  |+                               +...+..+...+...|++++|.
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~--~~-------------------------------~~~~~~~l~~~~~~~~~~~~A~  145 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE--KT-------------------------------YGPAWIAYGHSFAVESEHDQAM  145 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC--TT-------------------------------CTHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC--Cc-------------------------------cHHHHHHHHHHHHHccCHHHHH
Confidence            666666 6666666666655421  11                               2333445555566666666666


Q ss_pred             HHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          204 QVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       204 ~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      +.|++. ...+... ..+..+...|...|++++|...+++..+... .+...+..+...+...|++++|...+++..+..
T Consensus       146 ~~~~~a~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  223 (330)
T 3hym_B          146 AAYFTAAQLMKGCH-LPMLYIGLEYGLTNNSKLAERFFSQALSIAP-EDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKI  223 (330)
T ss_dssp             HHHHHHHHHTTTCS-HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccH-HHHHHHHHHHHHHhhHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcccHHHHHHHHHHHHHHh
Confidence            666552 2222222 2245566666666666666666666665542 235556666666666666666666666554321


Q ss_pred             ----------CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHH
Q 012365          283 ----------YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIK  352 (465)
Q Consensus       283 ----------~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~  352 (465)
                                ..+..+..+...+...|++++|...|++..+.                                      
T Consensus       224 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--------------------------------------  265 (330)
T 3hym_B          224 KAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVL--------------------------------------  265 (330)
T ss_dssp             TTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------------------------------------
T ss_pred             hhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh--------------------------------------
Confidence                      11223333444444444444444444444331                                      


Q ss_pred             hhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHH-hcCC
Q 012365          353 DELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFL-ASGN  411 (465)
Q Consensus       353 ~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~-~~g~  411 (465)
                         . +.+...+..+...+...|++++|...+++..+.. |.+...+..+..++. ..|+
T Consensus       266 ---~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~  320 (330)
T 3hym_B          266 ---I-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGD  320 (330)
T ss_dssp             ---S-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC
T ss_pred             ---C-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCc
Confidence               1 1234456666677777777777777777777652 556666776766663 3444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.80  E-value=1.1e-19  Score=176.48  Aligned_cols=148  Identities=9%  Similarity=0.062  Sum_probs=124.9

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQ---GELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~---~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      ..|||+||++||+.|++++|.++|++|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..|||++
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            46899999999999999999999988864   589999999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCCH-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC------HHHHHHHHHh
Q 012365           88 ISLNVKIKDF-DSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD------SQTFSYLIHN  160 (465)
Q Consensus        88 i~~~~~~g~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~------~~~~~~ll~~  160 (465)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++.+..+.    .+++.++++ ..+..|+      ..|...+.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHH
Confidence            9999999985 78999999999999999999999998765544    344444444 3445544      3444445454


Q ss_pred             hCC
Q 012365          161 CSN  163 (465)
Q Consensus       161 ~~~  163 (465)
                      +.+
T Consensus       282 ~s~  284 (1134)
T 3spa_A          282 YAK  284 (1134)
T ss_dssp             HCC
T ss_pred             Hcc
Confidence            543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.79  E-value=8.6e-15  Score=139.42  Aligned_cols=368  Identities=9%  Similarity=0.041  Sum_probs=272.7

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc----cCCHHH
Q 012365           28 HVALDVVEQMVQGELVPSTETINSILHACEE----SYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVK----IKDFDS   99 (465)
Q Consensus        28 ~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~   99 (465)
                      ..+++.+....+.|   +...+..+...+..    .+++++|...|+...+.|   ++..+..|...|..    .+++++
T Consensus        24 ~~~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~   97 (490)
T 2xm6_A           24 NVNLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQ   97 (490)
T ss_dssp             -CCHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             hHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            34466666666654   66777777777777    788999999999888765   56777788888887    888999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh-------CChhHHH
Q 012365          100 AYSLLDDLKEMNLMPTASMYNAIMAGYFR----KKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC-------SNEEDII  168 (465)
Q Consensus       100 a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-------~~~~~~~  168 (465)
                      |...|++..+.|   +...+..|...|..    .+++++|.+.|++..+.|.   ...+..+-..+       .+...+.
T Consensus        98 A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~---~~a~~~Lg~~y~~g~g~~~d~~~A~  171 (490)
T 2xm6_A           98 AVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGR---DSGQQSMGDAYFEGDGVTRDYVMAR  171 (490)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            999999888754   66777778888887    7889999999998887652   33333333222       2345566


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHc----CCChhHHHHHH
Q 012365          169 KYYEQLKSAGGQITKYVFMALINAYTT----CGEFEKARQVVLDAEIPVKSRSEVKSALVSALAS----HGRTSDAIIVY  240 (465)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~  240 (465)
                      +.++...+.|   +...+..+...|..    .++.++|.+.|++......  ...+..+...|..    .+++++|..+|
T Consensus       172 ~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~--~~a~~~lg~~y~~g~g~~~~~~~A~~~~  246 (490)
T 2xm6_A          172 EWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGD--ELGQLHLADMYYFGIGVTQDYTQSRVLF  246 (490)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCC--HHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            6677666654   67788888888887    8999999999987332222  2246777777775    78999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHc----cCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhc-----CChhHHHHHHHHH
Q 012365          241 EEIKEAGCNLEPRAVIALIEHLNS----EGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRF-----KQLSSATDLLKQL  311 (465)
Q Consensus       241 ~~m~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~a~~~~~~~  311 (465)
                      ++..+.|   ++..+..+-..+..    .++.++|...++...+.+ .++....+...|...     +++++|+..|++.
T Consensus       247 ~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~-~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a  322 (490)
T 2xm6_A          247 SQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG-NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKS  322 (490)
T ss_dssp             HHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHH
Confidence            9988875   45666667777776    899999999999988765 344555666666665     8999999999998


Q ss_pred             HHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHh----hhhhhHHHHHHHHH
Q 012365          312 KDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVN----ARDLKRAHLIWKEY  387 (465)
Q Consensus       312 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~m  387 (465)
                      .+.+.++  .+. .+..++...  ....+.++|++.|++.. +.   .++..+..+...|..    .+++++|...|++.
T Consensus       323 ~~~~~~~--a~~-~lg~~y~~~--g~~~~~~~A~~~~~~a~-~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A  393 (490)
T 2xm6_A          323 AEQGDAT--AQA-NLGAIYFRL--GSEEEHKKAVEWFRKAA-AK---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKA  393 (490)
T ss_dssp             HHTTCHH--HHH-HHHHHHHHS--CCHHHHHHHHHHHHHHH-HT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HhcCCHH--HHH-HHHHHHHhC--CCcccHHHHHHHHHHHH-HC---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            8853332  222 222222221  11248899999999998 44   356777788888877    78999999999999


Q ss_pred             HHcCCCCChhHHHHHHHHHHh----cCChhhHHHHHhccCCCCCC
Q 012365          388 ENAGLPYNVLSYLWMYKAFLA----SGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       388 ~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~  428 (465)
                      .+.|   ++..+..|...|..    .+++++|..+|++..+.++.
T Consensus       394 ~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          394 AEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             HhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence            9875   57788889999988    89999999999999987743

>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=3.1e-15  Score=143.96  Aligned_cols=405  Identities=8%  Similarity=0.011  Sum_probs=273.9

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      |...|..++. +.+.|++++|..+|+++.+.- +-+...|..++..+.+.|++++|..+|+++.+..  |+...|...+.
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~   87 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLS   87 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHH
Confidence            6789999998 478899999999999999863 4478889999999999999999999999999874  68888887775


Q ss_pred             HH-hccCCHHHHHH----HHHHHHH-cCCC-CCHHHHHHHHHHHHh---------cCCHHHHHHHHHHHHHCCCCCCHHH
Q 012365           90 LN-VKIKDFDSAYS----LLDDLKE-MNLM-PTASMYNAIMAGYFR---------KKDVQGALMVLKEMEQANVKPDSQT  153 (465)
Q Consensus        90 ~~-~~~g~~~~a~~----~~~~m~~-~~~~-~~~~~~~~li~~~~~---------~g~~~~a~~~~~~m~~~~~~p~~~~  153 (465)
                      .. ...|+.+.|.+    +|+.... .|.. ++...|...+.....         .|+++.|..+|++..+....+....
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~  167 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQL  167 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHH
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHH
Confidence            33 34577776655    7776654 3443 356788888876654         7899999999999987321111233


Q ss_pred             HHHHHH---hhC----------Ch---hHHHHHHHHHH------HcC---CCCC--------HHHHHHHHHHHHhc----
Q 012365          154 FSYLIH---NCS----------NE---EDIIKYYEQLK------SAG---GQIT--------KYVFMALINAYTTC----  196 (465)
Q Consensus       154 ~~~ll~---~~~----------~~---~~~~~~~~~~~------~~~---~~~~--------~~~~~~l~~~~~~~----  196 (465)
                      |.....   ..+          ..   ..+..+++.+.      +..   ++|+        ...|...+......    
T Consensus       168 ~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~  247 (530)
T 2ooe_A          168 WRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRT  247 (530)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccC
Confidence            332211   111          11   11222232211      111   2343        23455544333222    


Q ss_pred             CCH----HHHHHHHHHh-cCCCCChHHHHHHHHHHHHc-------CCChh-------HHHHHHHHHHHcCCCCCHHHHHH
Q 012365          197 GEF----EKARQVVLDA-EIPVKSRSEVKSALVSALAS-------HGRTS-------DAIIVYEEIKEAGCNLEPRAVIA  257 (465)
Q Consensus       197 g~~----~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~a~~~~~~m~~~~~~p~~~~~~~  257 (465)
                      ++.    ..+..+|++. ...+.. ...|..+...+.+       .|+++       +|..+|++..+.-.+-+...+..
T Consensus       248 ~~~~~~~~~a~~~y~~al~~~p~~-~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~  326 (530)
T 2ooe_A          248 EDQTLITKRVMFAYEQCLLVLGHH-PDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFA  326 (530)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHH
T ss_pred             CcchhHHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHH
Confidence            222    3666777762 223333 3357777777765       78887       88999998876322234777888


Q ss_pred             HHHHHHccCcHHHHHHHHHHHcCCCCC-c-cchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhc
Q 012365          258 LIEHLNSEGELNRLIQLLEEVHDPDYW-M-DGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIAT  335 (465)
Q Consensus       258 ll~~~~~~g~~~~a~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (465)
                      +...+.+.|++++|..+++.+.+.++. + ..+...+..+.+.|++++|..+|++..+..+.....+.......+..   
T Consensus       327 ~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~---  403 (530)
T 2ooe_A          327 YADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYC---  403 (530)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHH---
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH---
Confidence            888889999999999999998875543 2 24555666667889999999999998874222212111111000111   


Q ss_pred             CCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcC-CCCC--hhHHHHHHHHHHhcCC
Q 012365          336 TDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAG-LPYN--VLSYLWMYKAFLASGN  411 (465)
Q Consensus       336 ~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g-~~p~--~~~~~~l~~~~~~~g~  411 (465)
                        .|+.++|..+|+... +  ..| ++..|..++..+.+.|+.++|+.+|++....+ .+|+  ...|...+....+.|+
T Consensus       404 --~~~~~~A~~~~e~al-~--~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~  478 (530)
T 2ooe_A          404 --SKDKSVAFKIFELGL-K--KYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  478 (530)
T ss_dssp             --TCCHHHHHHHHHHHH-H--HHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSC
T ss_pred             --cCChhHHHHHHHHHH-H--HCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCC
Confidence              489999999999888 3  234 56788888888889999999999999998863 2232  3378888888888899


Q ss_pred             hhhHHHHHhccCCCCC
Q 012365          412 RKSASKLLSKMPKDDP  427 (465)
Q Consensus       412 ~~~A~~~~~~m~~~~~  427 (465)
                      .+.+.++.+++.+.-|
T Consensus       479 ~~~~~~~~~r~~~~~p  494 (530)
T 2ooe_A          479 LASILKVEKRRFTAFR  494 (530)
T ss_dssp             HHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHHHCc
Confidence            9999999988876554

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.77  E-value=2.5e-15  Score=142.59  Aligned_cols=366  Identities=8%  Similarity=-0.047  Sum_probs=188.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC--------CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc-----C-
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHH--------NLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM-----N-  111 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~-  111 (465)
                      ...|+.+...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++....     + 
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            345555555555566666666555554321        11223455555666666666666666555554321     0 


Q ss_pred             -CCCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHh------hCChhHHHHHHHHHHHcCCCC
Q 012365          112 -LMPTASMYNAIMAGYFRK--KDVQGALMVLKEMEQANVKPDS-QTFSYLIHN------CSNEEDIIKYYEQLKSAGGQI  181 (465)
Q Consensus       112 -~~~~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~------~~~~~~~~~~~~~~~~~~~~~  181 (465)
                       -.....++..+..++...  +++++|.+.|++..+.  .|+. ..+..+...      ..+...+.+.++...+.. +.
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             011233444443333332  3455666666655542  2322 111111111      122233333444433332 22


Q ss_pred             CHHHHHHHHHHHH----hcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC-HHHHH
Q 012365          182 TKYVFMALINAYT----TCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE-PRAVI  256 (465)
Q Consensus       182 ~~~~~~~l~~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~  256 (465)
                      +..++..+...+.    ..|++++|.+.+++.....+....++..+...|...|++++|...+.+..+..  |+ ..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI--PNNAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--CChHHHHH
Confidence            3444444433333    23456677777765222222222346677777777777777777777777654  33 44444


Q ss_pred             HHHHHHHc-------------------cCcHHHHHHHHHHHcCCC-CCccchhhHhhHhhhcCChhHHHHHHHHHHHccc
Q 012365          257 ALIEHLNS-------------------EGELNRLIQLLEEVHDPD-YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFK  316 (465)
Q Consensus       257 ~ll~~~~~-------------------~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  316 (465)
                      .+..+|..                   .+..+.|...++...+.. .....+..+...+...|++++|+..|++......
T Consensus       286 ~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~  365 (472)
T 4g1t_A          286 QIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKEL  365 (472)
T ss_dssp             HHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCC
Confidence            44333322                   233567777777765543 3456777888889999999999999999887543


Q ss_pred             chhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCCh
Q 012365          317 DDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNV  396 (465)
Q Consensus       317 ~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~  396 (465)
                      ++........  .+........|+.++|+..|++..   .+.|+....         .+....+.++++...+. -|.++
T Consensus       366 ~~~~~~~~~~--~~~~~~~~~~~~~~~Ai~~y~kal---~i~~~~~~~---------~~~~~~l~~~~~~~l~~-~p~~~  430 (472)
T 4g1t_A          366 TPVAKQLLHL--RYGNFQLYQMKCEDKAIHHFIEGV---KINQKSREK---------EKMKDKLQKIAKMRLSK-NGADS  430 (472)
T ss_dssp             CHHHHHHHHH--HHHHHHHHTSSCHHHHHHHHHHHH---HSCCCCHHH---------HHHHHHHHHHHHHHHHH-CC-CT
T ss_pred             CChHHHHHHH--HHHHHHHHHCCCHHHHHHHHHHHH---hcCcccHHH---------HHHHHHHHHHHHHHHHh-CCCCH
Confidence            3332211111  111111123589999999999988   466664332         23344556667777665 37888


Q ss_pred             hHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhH
Q 012365          397 LSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRF  431 (465)
Q Consensus       397 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  431 (465)
                      .+|..+..+|...|++++|.+.|++.++.++..+.
T Consensus       431 ~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~  465 (472)
T 4g1t_A          431 EALHVLAFLQELNEKMQQADEDSERGLESGSLIPS  465 (472)
T ss_dssp             THHHHHHHHHHHHHHCC------------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Confidence            99999999999999999999999999988775543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.76  E-value=5.8e-17  Score=148.50  Aligned_cols=292  Identities=11%  Similarity=0.008  Sum_probs=166.5

Q ss_pred             HHHhcCCHHHHHH-HHHHHhhCCC-CC--CHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 012365           55 ACEESYEFNLVRR-IYPMICHHNL-KP--NSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK  130 (465)
Q Consensus        55 ~~~~~~~~~~a~~-~~~~~~~~~~-~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  130 (465)
                      ++...|++++|.+ .++...+... .|  +...+..+...+.+.|++++|...|+++.+.. +.+..+|..+...+...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            3444566666666 6655443221 01  23445566666777777777777777766654 445666667777777777


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-
Q 012365          131 DVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-  209 (465)
Q Consensus       131 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-  209 (465)
                      ++++|.+.|+++.+..                                 +.+..++..+...+...|++++|.+.+++. 
T Consensus       113 ~~~~A~~~~~~al~~~---------------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  159 (368)
T 1fch_A          113 QELLAISALRRCLELK---------------------------------PDNQTALMALAVSFTNESLQRQACEILRDWL  159 (368)
T ss_dssp             CHHHHHHHHHHHHHHC---------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC---------------------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7777777776665421                                 124556666777777777777777777662 


Q ss_pred             cCCCCChHHHHHH---------------HHHHHHcCCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHH
Q 012365          210 EIPVKSRSEVKSA---------------LVSALASHGRTSDAIIVYEEIKEAGCNL-EPRAVIALIEHLNSEGELNRLIQ  273 (465)
Q Consensus       210 ~~~~~~~~~~~~~---------------l~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~  273 (465)
                      ...+..... +..               .+..+...|++++|...++++.+..... +..++..+...+.          
T Consensus       160 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~----------  228 (368)
T 1fch_A          160 RYTPAYAHL-VTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFN----------  228 (368)
T ss_dssp             HTSTTTGGG-CC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHH----------
T ss_pred             HhCcCcHHH-HHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHH----------
Confidence            222222221 211               1222224455555555555554443110 2344444444444          


Q ss_pred             HHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHh
Q 012365          274 LLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKD  353 (465)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~  353 (465)
                                             ..|++++|...|+++....+.+...+..+...+..      .|++++|+..|+++. 
T Consensus       229 -----------------------~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~------~g~~~~A~~~~~~al-  278 (368)
T 1fch_A          229 -----------------------LSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLAN------GNQSEEAVAAYRRAL-  278 (368)
T ss_dssp             -----------------------HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH------TTCHHHHHHHHHHHH-
T ss_pred             -----------------------HcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHH------cCCHHHHHHHHHHHH-
Confidence                                   45555555555555444322223333333222222      377777777777776 


Q ss_pred             hcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCC-----------hhHHHHHHHHHHhcCChhhHHHHHhcc
Q 012365          354 ELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYN-----------VLSYLWMYKAFLASGNRKSASKLLSKM  422 (465)
Q Consensus       354 ~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~m  422 (465)
                      ... +.+...+..+..++...|++++|...|+++.+.. |.+           ..+|..+..+|...|++++|..++++.
T Consensus       279 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          279 ELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ-RKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            321 2356788889999999999999999999998752 222           679999999999999999999998854


Q ss_pred             C
Q 012365          423 P  423 (465)
Q Consensus       423 ~  423 (465)
                      +
T Consensus       357 l  357 (368)
T 1fch_A          357 L  357 (368)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.76  E-value=2.8e-15  Score=136.51  Aligned_cols=298  Identities=11%  Similarity=0.026  Sum_probs=225.4

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      |+..+..+...+...|++++|+..|+.+.+... .+..++..+..++...|++++|...++.+.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            466788899999999999999999999988643 378899999999999999999999999999875 457889999999


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCC---CCHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLM---PTASMYNAI------------MAGYFRKKDVQGALMVLKEMEQANVKPDSQTF  154 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~---~~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  154 (465)
                      ++...|++++|...|++..+.. +   .+...+..+            ...+...|++++|.+.|+++.+.. +.+...+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  157 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELR  157 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHH
Confidence            9999999999999999998764 2   244555555            578899999999999999998642 2344455


Q ss_pred             HHHHHhh---CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHH---------
Q 012365          155 SYLIHNC---SNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKS---------  221 (465)
Q Consensus       155 ~~ll~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~---------  221 (465)
                      ..+...+   ++..++...++...+.. +.+..++..+...+...|++++|.+.|++. ...+.... .+.         
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~~~~~~~~~  235 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKR-CFAHYKQVKKLN  235 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchH-HHHHHHHHHHHH
Confidence            5444443   34455556666666554 346778888888888888998888888773 33333322 222         


Q ss_pred             ---HHHHHHHcCCChhHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhh
Q 012365          222 ---ALVSALASHGRTSDAIIVYEEIKEAGCNLEP----RAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLIL  293 (465)
Q Consensus       222 ---~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~  293 (465)
                         .+...+...|++++|...+++..+.... ++    ..+..+..++.+.|++++|...+++..+..+ .+..+..+..
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  314 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAE  314 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence               2256688888888998888888876522 22    2244566788888888888888888876433 3556677777


Q ss_pred             HhhhcCChhHHHHHHHHHHHc
Q 012365          294 HCVRFKQLSSATDLLKQLKDK  314 (465)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~  314 (465)
                      .+...|++++|...|++..+.
T Consensus       315 ~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          315 AYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHHHHhc
Confidence            788888888888888888874

>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=99.75  E-value=1.9e-16  Score=145.02  Aligned_cols=252  Identities=12%  Similarity=0.016  Sum_probs=145.3

Q ss_pred             HhcccCHHHHHH-HHHHHHhCCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           21 SCDLLKVHVALD-VVEQMVQGEL---VPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        21 ~~~~g~~~~A~~-~~~~m~~~~~---~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      +...|++++|++ .|++..+...   ..+...+..+...+...|++++|...++.+.+.. +.+..++..+..++.+.|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            334577888888 7776544321   1134567788889999999999999999999876 5678899999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHH---------------HH-
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQ-TFSYL---------------IH-  159 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~l---------------l~-  159 (465)
                      +++|...|++..+.+ +.+..++..+...+...|++++|.+.|+++.+..  |+.. .+...               +. 
T Consensus       114 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (368)
T 1fch_A          114 ELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGS  190 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHH
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHhhhhcccHHHHHHHH
Confidence            999999999998875 5688999999999999999999999999998753  3221 11100               00 


Q ss_pred             --hhCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhH
Q 012365          160 --NCSNEEDIIKYYEQLKSAGGQI-TKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSD  235 (465)
Q Consensus       160 --~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~  235 (465)
                        ..++...+...++.+.+..... +..++..+...+...|++++|...|++. ...+.. ..+|..+...+...|++++
T Consensus       191 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~-~~~~~~l~~~~~~~g~~~~  269 (368)
T 1fch_A          191 LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPND-YLLWNKLGATLANGNQSEE  269 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHTTCHHH
T ss_pred             HhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC-HHHHHHHHHHHHHcCCHHH
Confidence              1112222333333333322111 3444444444455555555555554441 111111 1234444444455555555


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHH
Q 012365          236 AIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEV  278 (465)
Q Consensus       236 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  278 (465)
                      |...|+++.+... .+...+..+..++.+.|++++|...+++.
T Consensus       270 A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  311 (368)
T 1fch_A          270 AVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHFLEA  311 (368)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            5555554444321 12344444444444445555444444444

>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=99.75  E-value=3.5e-18  Score=153.80  Aligned_cols=221  Identities=8%  Similarity=0.006  Sum_probs=57.7

Q ss_pred             cccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 012365           23 DLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYS  102 (465)
Q Consensus        23 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  102 (465)
                      +.|++++|.++++++.      ++.+|..+..++.+.|++++|.+.|.+      .+|..+|..++..+...|++++|..
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            4566777777777662      224677777777777777777777743      2456677777777777777777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCC
Q 012365          103 LLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQIT  182 (465)
Q Consensus       103 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~  182 (465)
                      +++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|                                +
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~p--------------------------------n  121 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GP--------------------------------N  121 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC---------------------------------
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CC--------------------------------c
Confidence            66555543  3455666777777777777777665553       13                                3


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365          183 KYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHL  262 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  262 (465)
                      ..+|..+.+.|...|++++|...|..+        ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|
T Consensus       122 ~~a~~~IGd~~~~~g~yeeA~~~Y~~a--------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aC  187 (449)
T 1b89_A          122 NAHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFAC  187 (449)
T ss_dssp             ---------------CTTTHHHHHHHT--------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHh--------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHH
Confidence            335555555555555555555555532        12555555555555555555555555      1455555555555


Q ss_pred             HccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          263 NSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       263 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      ...|+++.|......+.   ..++....++..|.+.|.+++|+.+++....
T Consensus       188 v~~~ef~lA~~~~l~L~---~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~  235 (449)
T 1b89_A          188 VDGKEFRLAQMCGLHIV---VHADELEELINYYQDRGYFEELITMLEAALG  235 (449)
T ss_dssp             HHTTCHHHHHHTTTTTT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             HHcCcHHHHHHHHHHHH---hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhC
Confidence            55555555533333211   2233333444555555555655555555544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.75  E-value=8.6e-17  Score=147.24  Aligned_cols=257  Identities=13%  Similarity=0.034  Sum_probs=142.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365           47 ETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGY  126 (465)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  126 (465)
                      ..+..+...+.+.|++++|.++|+.+.+.. +.+..++..+..++...|++++|...|++..+.. +.+..+|..+...|
T Consensus        66 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           66 PGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSY  143 (365)
T ss_dssp             TTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345555555666666666666666665543 3455566666666666666666666666655543 33455666666666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHH-----------HHHHHHhhCChhH---HHHHHHHHHHcCCC-CCHHHHHHHHH
Q 012365          127 FRKKDVQGALMVLKEMEQANVKPDSQT-----------FSYLIHNCSNEED---IIKYYEQLKSAGGQ-ITKYVFMALIN  191 (465)
Q Consensus       127 ~~~g~~~~a~~~~~~m~~~~~~p~~~~-----------~~~ll~~~~~~~~---~~~~~~~~~~~~~~-~~~~~~~~l~~  191 (465)
                      ...|++++|.+.|+++.+..  |+...           +..+...+.+.++   +...++.+.+.... ++..++..+..
T Consensus       144 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            66666666666666655421  21111           1111122222222   22233333333211 25666777777


Q ss_pred             HHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHH
Q 012365          192 AYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNR  270 (465)
Q Consensus       192 ~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  270 (465)
                      .+...|++++|.+.|++. ...+. ...+|..+...|...|++++|...|++..+... .+..++..+..+|.+.|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQP-GFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCCHHH
Confidence            777778888887777763 22333 233577777777778888888888877777641 236667777777777777777


Q ss_pred             HHHHHHHHcCCCCC-------------ccchhhHhhHhhhcCChhHHHHHHH
Q 012365          271 LIQLLEEVHDPDYW-------------MDGCCRLILHCVRFKQLSSATDLLK  309 (465)
Q Consensus       271 a~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~a~~~~~  309 (465)
                      |...+++..+....             ...+..+...+...|+.+.+..+..
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  351 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANL  351 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHT
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            77777766542211             2233444445555555555554443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.74  E-value=7.6e-17  Score=147.63  Aligned_cols=268  Identities=12%  Similarity=0.028  Sum_probs=176.5

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012365           80 NSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIH  159 (465)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  159 (465)
                      +...+..+...+.+.|++++|..+|+++.+.. +.+..+|..+...+...|++++|.+.|+++.+..  |          
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p----------  130 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ--P----------  130 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T----------
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--C----------
Confidence            34457778888888899999999999888765 5678888888889999999999998888876531  2          


Q ss_pred             hhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCCh---------HHHHHHHHHHHHc
Q 012365          160 NCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSR---------SEVKSALVSALAS  229 (465)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~---------~~~~~~l~~~~~~  229 (465)
                                           .+..++..+..+|...|++++|.+.|++. ...+...         ...+..+...+..
T Consensus       131 ---------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~  189 (365)
T 4eqf_A          131 ---------------------NNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVD  189 (365)
T ss_dssp             ---------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------C
T ss_pred             ---------------------CCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhh
Confidence                                 24556777777888888888888888762 1111111         1112334667777


Q ss_pred             CCChhHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHH
Q 012365          230 HGRTSDAIIVYEEIKEAGCN-LEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLL  308 (465)
Q Consensus       230 ~g~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  308 (465)
                      .|++++|...++++.+.... +++.++..+...+...|++++|...+++..+..                          
T Consensus       190 ~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------------------------  243 (365)
T 4eqf_A          190 SSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR--------------------------  243 (365)
T ss_dssp             CHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--------------------------
T ss_pred             hhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--------------------------
Confidence            77778888877777776521 146666666666666666666666666554322                          


Q ss_pred             HHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHH
Q 012365          309 KQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEY  387 (465)
Q Consensus       309 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m  387 (465)
                             +.+...+..+...+..      .|++++|+..|+++. .  ..| +..++..+..+|...|++++|...|+++
T Consensus       244 -------p~~~~~~~~l~~~~~~------~g~~~~A~~~~~~al-~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  307 (365)
T 4eqf_A          244 -------PEDYSLWNRLGATLAN------GDRSEEAVEAYTRAL-E--IQPGFIRSRYNLGISCINLGAYREAVSNFLTA  307 (365)
T ss_dssp             -------TTCHHHHHHHHHHHHH------TTCHHHHHHHHHHHH-H--HCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHH
T ss_pred             -------CCCHHHHHHHHHHHHH------cCCHHHHHHHHHHHH-h--cCCCchHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                   2222222222222222      266666666666665 2  234 4678888999999999999999999999


Q ss_pred             HHcC--C-C--------CChhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          388 ENAG--L-P--------YNVLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       388 ~~~g--~-~--------p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      .+..  . .        .+..+|..+..++...|+.+.|.+..++-+
T Consensus       308 l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~l  354 (365)
T 4eqf_A          308 LSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGDL  354 (365)
T ss_dssp             HHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTCC
T ss_pred             HHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhhH
Confidence            8652  0 1        136789999999999999999999887743

>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=99.72  E-value=5e-16  Score=139.88  Aligned_cols=363  Identities=11%  Similarity=0.061  Sum_probs=164.7

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      +++.+|..+..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|..+++...+.  .+++.+.+.++
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li  101 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELI  101 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHH
Confidence            55679999999999999999999999653      57789999999999999999999988877664  46688899999


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDII  168 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  168 (465)
                      .+|.+.|+++++.++++       .|+..+|+.+...|...|++++|...|..+         ..|..+..++.+.|+..
T Consensus       102 ~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq  165 (449)
T 1b89_A          102 FALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQ  165 (449)
T ss_dssp             -------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHH
T ss_pred             HHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHH
Confidence            99999999999998884       478889999999999999999999999986         37889999988888887


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC
Q 012365          169 KYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGC  248 (465)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  248 (465)
                      +..+...+.+   ++.+|..++.+|...|+++.|......  ....+..  ...++..|.+.|++++|+.+++...... 
T Consensus       166 ~AVea~~KA~---~~~~Wk~v~~aCv~~~ef~lA~~~~l~--L~~~ad~--l~~lv~~Yek~G~~eEai~lLe~aL~le-  237 (449)
T 1b89_A          166 AAVDGARKAN---STRTWKEVCFACVDGKEFRLAQMCGLH--IVVHADE--LEELINYYQDRGYFEELITMLEAALGLE-  237 (449)
T ss_dssp             HHHHHHHHHT---CHHHHHHHHHHHHHTTCHHHHHHTTTT--TTTCHHH--HHHHHHHHHHTTCHHHHHHHHHHHTTST-
T ss_pred             HHHHHHHHcC---CchhHHHHHHHHHHcCcHHHHHHHHHH--HHhCHhh--HHHHHHHHHHCCCHHHHHHHHHHHhCCc-
Confidence            7777777664   789999999999999999999666543  2222222  3468899999999999999999987654 


Q ss_pred             CCCHHHHHHHHHHHHcc--CcHHHHHHHHHHHcCCC------CCccchhhHhhHhhhcCChhHHHHHHHHHHHc------
Q 012365          249 NLEPRAVIALIEHLNSE--GELNRLIQLLEEVHDPD------YWMDGCCRLILHCVRFKQLSSATDLLKQLKDK------  314 (465)
Q Consensus       249 ~p~~~~~~~ll~~~~~~--g~~~~a~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~------  314 (465)
                      +-....|+-+-.++++-  +++.+.++.|..-..-+      .....|..++..|...++++.|....-+-...      
T Consensus       238 ~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~~h~~~a~~~~~  317 (449)
T 1b89_A          238 RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQ  317 (449)
T ss_dssp             TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHH
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHhCChhhhhhHH
Confidence            34456666666666554  44445555444222111      11345666777778888888887643222110      


Q ss_pred             ------ccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHH
Q 012365          315 ------FKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYE  388 (465)
Q Consensus       315 ------~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~  388 (465)
                            ...+...++..+.-++..        ...++.-+.... ...+.|     +.++..+.+.|.+..+..++..+.
T Consensus       318 f~~~~~kv~n~elyYkai~fyl~~--------~p~~l~~ll~~l-~~~ld~-----~r~v~~~~~~~~l~l~~~yl~~v~  383 (449)
T 1b89_A          318 FKDIITKVANVELYYRAIQFYLEF--------KPLLLNDLLMVL-SPRLDH-----TRAVNYFSKVKQLPLVKPYLRSVQ  383 (449)
T ss_dssp             HHHHHHHCSSTHHHHHHHHHHHHH--------CGGGHHHHHHHH-GGGCCH-----HHHHHHHHHTTCTTTTHHHHHHHH
T ss_pred             HHHHHhchhHHHHHHHHHHHHHhc--------CHHHHHHHHHHH-HhccCc-----HHHHHHHHHcCCcHHHHHHHHHHH
Confidence                  112222233333222211        111122111111 111111     233444456666666666666555


Q ss_pred             HcCCCCChhHHHHHHHHHHhcCChhhHHHHHh
Q 012365          389 NAGLPYNVLSYLWMYKAFLASGNRKSASKLLS  420 (465)
Q Consensus       389 ~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  420 (465)
                      +.   .+..+-.++-..|....|++.-+.-++
T Consensus       384 ~~---n~~~vnealn~l~ieeed~~~lr~si~  412 (449)
T 1b89_A          384 NH---NNKSVNESLNNLFITEEDYQALRTSID  412 (449)
T ss_dssp             TT---CCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             Hh---hHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            43   344455555566777777766555554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.72  E-value=1.5e-13  Score=132.12  Aligned_cols=378  Identities=9%  Similarity=0.030  Sum_probs=255.8

Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCC
Q 012365           34 VEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLM  113 (465)
Q Consensus        34 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  113 (465)
                      |++..+.. +-|...|..++.. ...|++++|..+|+.+.+.. +.+...|..++..+.+.|++++|..+|++....  .
T Consensus         2 le~al~~~-P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~   76 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--V   76 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--C
T ss_pred             hhhHhhhC-CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--C
Confidence            34444443 3378899988884 77899999999999999874 667889999999999999999999999999876  4


Q ss_pred             CCHHHHHHHHHHH-HhcCCHHHHHH----HHHHHHH-CCCCCC-HHHHHHHHHhh------------CChhHHHHHHHHH
Q 012365          114 PTASMYNAIMAGY-FRKKDVQGALM----VLKEMEQ-ANVKPD-SQTFSYLIHNC------------SNEEDIIKYYEQL  174 (465)
Q Consensus       114 ~~~~~~~~li~~~-~~~g~~~~a~~----~~~~m~~-~~~~p~-~~~~~~ll~~~------------~~~~~~~~~~~~~  174 (465)
                      |+...|...+... ...|+.++|.+    +|+.... .|..|+ ...|...+...            ++...+..+++..
T Consensus        77 p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~a  156 (530)
T 2ooe_A           77 LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRG  156 (530)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHH
Confidence            7888888877533 35677776655    7776654 355543 44554444332            2334456677777


Q ss_pred             HHcCCCCCHHHHHHHHHHH-------------HhcCCHHHHHHHHHH-------hcC-----CCCC------hHHHHHHH
Q 012365          175 KSAGGQITKYVFMALINAY-------------TTCGEFEKARQVVLD-------AEI-----PVKS------RSEVKSAL  223 (465)
Q Consensus       175 ~~~~~~~~~~~~~~l~~~~-------------~~~g~~~~a~~~~~~-------~~~-----~~~~------~~~~~~~l  223 (465)
                      .+.........|.......             .+.+++..|..+++.       ...     ++..      ....|...
T Consensus       157 l~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~  236 (530)
T 2ooe_A          157 CVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKY  236 (530)
T ss_dssp             TTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHH
T ss_pred             HhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHH
Confidence            6631111123443332211             134567777776654       111     1111      01245555


Q ss_pred             HHHHHcC----CCh----hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-------cCcHH-------HHHHHHHHHcC-
Q 012365          224 VSALASH----GRT----SDAIIVYEEIKEAGCNLEPRAVIALIEHLNS-------EGELN-------RLIQLLEEVHD-  280 (465)
Q Consensus       224 ~~~~~~~----g~~----~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-------~g~~~-------~a~~~~~~~~~-  280 (465)
                      +......    ++.    ..+..+|++..... +-++..|..+...+.+       .|+++       +|..+++...+ 
T Consensus       237 ~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~  315 (530)
T 2ooe_A          237 IQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST  315 (530)
T ss_dssp             HHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH
Confidence            5433322    232    36778899888764 2356777777777764       78887       89999999986 


Q ss_pred             CCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccch-hHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCC
Q 012365          281 PDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDD-EMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLP  358 (465)
Q Consensus       281 ~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~  358 (465)
                      ..+ .+..+...+..+.+.|++++|..+|+++....+.+ ...|.........      .|++++|..+|++.. +  ..
T Consensus       316 ~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~------~~~~~~A~~~~~~Al-~--~~  386 (530)
T 2ooe_A          316 LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARR------AEGIKSGRMIFKKAR-E--DA  386 (530)
T ss_dssp             TCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHH------HHHHHHHHHHHHHHH-T--CT
T ss_pred             hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHH------hcCHHHHHHHHHHHH-h--cc
Confidence            332 34456677777888999999999999999843322 2344444333222      389999999999998 3  33


Q ss_pred             Cc-HHHHHHHHHH-hHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCC
Q 012365          359 PS-RKCLDFLLGA-CVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDP  427 (465)
Q Consensus       359 p~-~~~~~~ll~~-~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  427 (465)
                      |+ ...|...... +...|+.++|..+|++..+. .|.++..|..++..+.+.|+.++|..+|++.+..++
T Consensus       387 ~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~-~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~  456 (530)
T 2ooe_A          387 RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  456 (530)
T ss_dssp             TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCC
T ss_pred             CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccC
Confidence            43 2333222222 33589999999999999986 366788999999999999999999999999987654

>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=99.72  E-value=1.4e-15  Score=136.78  Aligned_cols=262  Identities=9%  Similarity=-0.046  Sum_probs=158.0

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHh
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNV   92 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~   92 (465)
                      .|..+...+...|++++|+.+|+++.+... .+...+..+..++...|++++|.+.++.+.+.. +.+..++..+...+.
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  100 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT  100 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHH
Confidence            344555666666777777777776665432 255566666666666666666666666666553 345666666666666


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHH--------------HH-HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTASMYNAI--------------MA-GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYL  157 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l--------------i~-~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  157 (465)
                      ..|++++|...+++..... +.+...+..+              .. .+...|++++|.+.++++               
T Consensus       101 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~---------------  164 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAA---------------  164 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHH---------------
T ss_pred             HcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHH---------------
Confidence            6666666666666665542 1222222222              11 133333444444444333               


Q ss_pred             HHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHH
Q 012365          158 IHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAI  237 (465)
Q Consensus       158 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  237 (465)
                                       .+.. +.+..++..+...+...|++++|.+.+++.....+....+|..+...+...|++++|.
T Consensus       165 -----------------~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  226 (327)
T 3cv0_A          165 -----------------LEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEAL  226 (327)
T ss_dssp             -----------------HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             -----------------HhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHH
Confidence                             3322 2256677777788888888888888887732222223335777888888888888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-------------ccchhhHhhHhhhcCChhHH
Q 012365          238 IVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-------------MDGCCRLILHCVRFKQLSSA  304 (465)
Q Consensus       238 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~a  304 (465)
                      ..++++.+... .+...+..+...+...|++++|...+++..+....             +..+..+...+...|++++|
T Consensus       227 ~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  305 (327)
T 3cv0_A          227 DAYNRALDINP-GYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLV  305 (327)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHcCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHH
Confidence            88888877652 34667777778888888888888888776543222             23344555566666666666


Q ss_pred             HHHHHHH
Q 012365          305 TDLLKQL  311 (465)
Q Consensus       305 ~~~~~~~  311 (465)
                      ..++++.
T Consensus       306 ~~~~~~~  312 (327)
T 3cv0_A          306 ELTYAQN  312 (327)
T ss_dssp             HHHTTCC
T ss_pred             HHHHHHH
Confidence            6666543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.71  E-value=1.9e-13  Score=130.07  Aligned_cols=370  Identities=11%  Similarity=0.033  Sum_probs=280.5

Q ss_pred             CCHHHHHHHHHHHhc----ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCC
Q 012365            9 PSSASYKKLITYSCD----LLKVHVALDVVEQMVQGELVPSTETINSILHACEE----SYEFNLVRRIYPMICHHNLKPN   80 (465)
Q Consensus         9 p~~~~y~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~   80 (465)
                      -++..+..+-..|..    .+++++|+..|+...+.|   +...+..|...+..    .+++++|.+.|++..+.|   +
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            377788888888888    899999999999998875   56788888888888    899999999999999876   6


Q ss_pred             HHHHHHHHHHHhc----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHH
Q 012365           81 SETFRSMISLNVK----IKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR----KKDVQGALMVLKEMEQANVKPDSQ  152 (465)
Q Consensus        81 ~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~  152 (465)
                      +..+..|...|..    .+++++|...|++..+.|   +...+..|...|..    .++.++|.+.|++..+.|   +..
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~  184 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVW  184 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            7778888888887    789999999999998865   67788888888887    889999999999998875   344


Q ss_pred             HHHHHHHhh-------CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhcCCCCChHHHHH
Q 012365          153 TFSYLIHNC-------SNEEDIIKYYEQLKSAGGQITKYVFMALINAYTT----CGEFEKARQVVLDAEIPVKSRSEVKS  221 (465)
Q Consensus       153 ~~~~ll~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~  221 (465)
                      .+..+-..+       .+...+.+.++...+.+   +...+..+...|..    .+++++|.+.|++......+  ..+.
T Consensus       185 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~--~a~~  259 (490)
T 2xm6_A          185 SCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNS--IAQF  259 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCH--HHHH
T ss_pred             HHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCH--HHHH
Confidence            444333332       34455666777776665   56778888888876    88999999999974333322  2366


Q ss_pred             HHHHHHHc----CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-----CcHHHHHHHHHHHcCCCCCccchhhHh
Q 012365          222 ALVSALAS----HGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSE-----GELNRLIQLLEEVHDPDYWMDGCCRLI  292 (465)
Q Consensus       222 ~l~~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~  292 (465)
                      .+...|..    .+++++|+.+|++..+.|   ++..+..+-..+...     ++.++|...++...+.+. ++....+.
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~~-~~a~~~lg  335 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQGD-ATAQANLG  335 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTTC-HHHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcCC-HHHHHHHH
Confidence            67777777    899999999999998776   566777777788776     899999999999887653 34556666


Q ss_pred             hHhhhcC---ChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHH
Q 012365          293 LHCVRFK---QLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLG  369 (465)
Q Consensus       293 ~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~  369 (465)
                      ..|...|   ++++|++.|++..+.+.  ...++.+-..+..  +....+++++|++.|++.. +.+   ++..+..|..
T Consensus       336 ~~y~~~g~~~~~~~A~~~~~~a~~~~~--~~a~~~Lg~~y~~--g~g~~~~~~~A~~~~~~A~-~~~---~~~a~~~Lg~  407 (490)
T 2xm6_A          336 AIYFRLGSEEEHKKAVEWFRKAAAKGE--KAAQFNLGNALLQ--GKGVKKDEQQAAIWMRKAA-EQG---LSAAQVQLGE  407 (490)
T ss_dssp             HHHHHSCCHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHH--TSSSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHH
T ss_pred             HHHHhCCCcccHHHHHHHHHHHHHCCC--HHHHHHHHHHHHc--CCCCCCCHHHHHHHHHHHH-hCC---CHHHHHHHHH
Confidence            6665545   78999999999988532  2233332222222  1222589999999999998 544   4667777888


Q ss_pred             HhHh----hhhhhHHHHHHHHHHHcCCC-C-ChhHHHHHHHHHH
Q 012365          370 ACVN----ARDLKRAHLIWKEYENAGLP-Y-NVLSYLWMYKAFL  407 (465)
Q Consensus       370 ~~~~----~g~~~~A~~~~~~m~~~g~~-p-~~~~~~~l~~~~~  407 (465)
                      .|..    .++.++|...|++..+.+.. | +......+...+.
T Consensus       408 ~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~  451 (490)
T 2xm6_A          408 IYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTA  451 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCH
Confidence            8877    79999999999999987632 2 4445555544433

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.71  E-value=6.1e-15  Score=132.52  Aligned_cols=279  Identities=10%  Similarity=0.004  Sum_probs=184.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG  125 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  125 (465)
                      ...+..+...+...|++++|..+++.+.+.. +.+..++..+..++...|++++|...|++..+.. +.+..++..+...
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   98 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVS   98 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHH
Confidence            3456677788899999999999999998865 5578899999999999999999999999998875 5678899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHH--HHHhcCCHHHH
Q 012365          126 YFRKKDVQGALMVLKEMEQANVKPDSQ-TFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALIN--AYTTCGEFEKA  202 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~a  202 (465)
                      +...|++++|.+.++++.+..  |+.. .+..+...                   .|+......+..  .+...|++++|
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~A  157 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQA-------------------DVDIDDLNVQSEDFFFAAPNEYREC  157 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTS--TTTTTC---------------------------------------CCTTSHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHH-------------------HHHHHHHHHHHHhHHHHHcccHHHH
Confidence            999999999999999998752  3211 11111000                   011111111211  25556666667


Q ss_pred             HHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          203 RQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      .+.+++.....+....++..+...+...|++++|.+.++++.+... .+..++..+...+..                  
T Consensus       158 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~------------------  218 (327)
T 3cv0_A          158 RTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLAN------------------  218 (327)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH------------------
T ss_pred             HHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHH------------------
Confidence            6666652222222223456666666666666666666666655431 123334333333333                  


Q ss_pred             CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHH
Q 012365          283 YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRK  362 (465)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~  362 (465)
                                     .|++++|...|++..+                                         . .+.+..
T Consensus       219 ---------------~~~~~~A~~~~~~a~~-----------------------------------------~-~~~~~~  241 (327)
T 3cv0_A          219 ---------------GNRPQEALDAYNRALD-----------------------------------------I-NPGYVR  241 (327)
T ss_dssp             ---------------TTCHHHHHHHHHHHHH-----------------------------------------H-CTTCHH
T ss_pred             ---------------cCCHHHHHHHHHHHHH-----------------------------------------c-CCCCHH
Confidence                           3333333333333322                                         1 122455


Q ss_pred             HHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCC------------ChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          363 CLDFLLGACVNARDLKRAHLIWKEYENAGLPY------------NVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       363 ~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p------------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      .+..+...+...|++++|.+.++++.+.. |.            +..+|..+..+|.+.|++++|..++++.++
T Consensus       242 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          242 VMYNMAVSYSNMSQYDLAAKQLVRAIYMQ-VGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            67778888889999999999999988753 22            477899999999999999999999988765

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.69  E-value=7.3e-15  Score=129.28  Aligned_cols=236  Identities=11%  Similarity=0.086  Sum_probs=183.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH
Q 012365          185 VFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE-PRAVIALIEHLN  263 (465)
Q Consensus       185 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~  263 (465)
                      ....+..+|...|+++.|...++.   ...+...++..+...+...|+.++|++.++++...+..|+ +..+..+..++.
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~~~~---~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~  112 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDEIKP---SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYF  112 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHSCT---TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHhcc---cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHH
Confidence            344567889999999999987753   2333444678888899999999999999999988775565 455566668889


Q ss_pred             ccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhh
Q 012365          264 SEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQI  343 (465)
Q Consensus       264 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  343 (465)
                      ..|++++|.+.++.    +..++.+..++..+.+.|++++|.+.|+++.... |+.. ...+...++....  ..|++++
T Consensus       113 ~~g~~~~Al~~l~~----~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~-p~~~-~~~l~~a~~~l~~--~~~~~~e  184 (291)
T 3mkr_A          113 YDQNPDAALRTLHQ----GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD-EDAT-LTQLATAWVSLAA--GGEKLQD  184 (291)
T ss_dssp             HTTCHHHHHHHHTT----CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH-HHHHHHHHHHHHH--CTTHHHH
T ss_pred             HCCCHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCcH-HHHHHHHHHHHHh--CchHHHH
Confidence            99999999999987    4456677778888889999999999999998753 3322 1111111111111  2489999


Q ss_pred             hHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhh-HHHHHhcc
Q 012365          344 GLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKS-ASKLLSKM  422 (465)
Q Consensus       344 A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~m  422 (465)
                      |..+|+++. .. .+.+...++.+..++.+.|++++|...|++..+. -|.++.++..++..+...|+.++ +.++++++
T Consensus       185 A~~~~~~~l-~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~-~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~  261 (291)
T 3mkr_A          185 AYYIFQEMA-DK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK-DSGHPETLINLVVLSQHLGKPPEVTNRYLSQL  261 (291)
T ss_dssp             HHHHHHHHH-HH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHH-Hh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            999999999 43 4457888999999999999999999999999987 37788899999999999999976 67999999


Q ss_pred             CCCCCChhHHHH
Q 012365          423 PKDDPHVRFVIQ  434 (465)
Q Consensus       423 ~~~~~~~~~~l~  434 (465)
                      ++.+|....+.+
T Consensus       262 ~~~~P~~~~~~d  273 (291)
T 3mkr_A          262 KDAHRSHPFIKE  273 (291)
T ss_dssp             HHHCTTCHHHHH
T ss_pred             HHhCCCChHHHH
Confidence            998887665554

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.69  E-value=1.1e-14  Score=128.24  Aligned_cols=56  Identities=4%  Similarity=-0.023  Sum_probs=25.4

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      .+..+|...|+++.|...++..    -+|+..++..+...+...|+.++|++.++++...
T Consensus        39 ~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~   94 (291)
T 3mkr_A           39 FLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDAIVAELDREMSR   94 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhc
Confidence            3344444455554444433221    1334444444444455555555555555554443

>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=99.67  E-value=6.9e-13  Score=133.51  Aligned_cols=354  Identities=11%  Similarity=0.047  Sum_probs=263.1

Q ss_pred             HHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccC
Q 012365           16 KLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIK   95 (465)
Q Consensus        16 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g   95 (465)
                      .+...+...|.+++|..+|++..     -.....+.++.   ..+++++|.++.++.      -++.+|..+..++...|
T Consensus      1054 eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G 1119 (1630)
T 1xi4_A         1054 DIANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKG 1119 (1630)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCC
Confidence            34566777899999999998852     12223333333   667899999888754      35789999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHH
Q 012365           96 DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLK  175 (465)
Q Consensus        96 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~  175 (465)
                      ++++|.+.|.+.      .|...|..++.++.+.|++++|.+.|...++..  +++...+.+..+|++.++... ++...
T Consensus      1120 ~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rlee-le~fI 1190 (1630)
T 1xi4_A         1120 MVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAE-LEEFI 1190 (1630)
T ss_pred             CHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHH-HHHHH
Confidence            999999999553      478889999999999999999999999877654  333333347777777776665 33333


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHH
Q 012365          176 SAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAV  255 (465)
Q Consensus       176 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  255 (465)
                      +   .++...+..+...|...|++++|..+|...        ..|..+...|++.|++++|.+.+++.      .+..+|
T Consensus      1191 ~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aW 1253 (1630)
T 1xi4_A         1191 N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTW 1253 (1630)
T ss_pred             h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh--------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHH
Confidence            2   446677778999999999999999999853        24999999999999999999999877      367899


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhc
Q 012365          256 IALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIAT  335 (465)
Q Consensus       256 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (465)
                      ..+-.+|...|++..|......+.   ..++.+..++..|.+.|.+++|+.+++...... +.......-+..++..   
T Consensus      1254 kev~~acve~~Ef~LA~~cgl~Ii---v~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaK--- 1326 (1630)
T 1xi4_A         1254 KEVCFACVDGKEFRLAQMCGLHIV---VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK--- 1326 (1630)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHhhh---cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHh---
Confidence            999999999999999988766532   345667788899999999999999998877632 3333333333333333   


Q ss_pred             CCCCchhhhHHhHHHHHhhcCCCC------cHHHHHHHHHHhHhhhhhhHHHH-------------HHHHHHHcCCCCCh
Q 012365          336 TDPPDVQIGLDLLQFIKDELGLPP------SRKCLDFLLGACVNARDLKRAHL-------------IWKEYENAGLPYNV  396 (465)
Q Consensus       336 ~~~~~~~~A~~~~~~m~~~~~~~p------~~~~~~~ll~~~~~~g~~~~A~~-------------~~~~m~~~g~~p~~  396 (465)
                      ..+++..++++.|..-.   .+.|      +...|.-+.-.|.+.|+++.|..             .|++...  ...|+
T Consensus      1327 y~peklmEhlk~f~~ri---ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~--kv~n~ 1401 (1630)
T 1xi4_A         1327 FKPQKMREHLELFWSRV---NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIIT--KVANV 1401 (1630)
T ss_pred             CCHHHHHHHHHHHHHhc---ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhc--ccccH
Confidence            34678888888887554   4444      45678889999999999999872             2223222  25677


Q ss_pred             hHHHHHHHHHHhcC---------------ChhhHHHHHhc
Q 012365          397 LSYLWMYKAFLASG---------------NRKSASKLLSK  421 (465)
Q Consensus       397 ~~~~~l~~~~~~~g---------------~~~~A~~~~~~  421 (465)
                      ..|.-.+.-|...+               +++.+.+++++
T Consensus      1402 elyykai~Fyl~~~P~~lndLl~~l~~rlD~~R~V~l~~~ 1441 (1630)
T 1xi4_A         1402 ELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSK 1441 (1630)
T ss_pred             HHHHHHHHHHHhhChHHHHHHHHHhhhcCChHHHHHHHHH
Confidence            77777777777666               67777777664

>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=99.66  E-value=4.6e-12  Score=127.70  Aligned_cols=328  Identities=13%  Similarity=0.112  Sum_probs=244.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHN--LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAI  122 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  122 (465)
                      |+.-....+++|...|.+.++.++++++.-.+  +.-+....+.++.+..+. +..+..++.+++...    +   ...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eI 1055 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDI 1055 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHH
Confidence            34444567788889999999999999998432  113456777777777777 567777776666532    2   3347


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 012365          123 MAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKA  202 (465)
Q Consensus       123 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  202 (465)
                      ...+...|.+++|..+|++..     -.....+.++....+.+++.++.+..      -++.+|..+..++...|++++|
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEA 1124 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIEHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEA 1124 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHHHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHH
Confidence            778888999999999999952     23334466666666666555555533      2578899999999999999999


Q ss_pred             HHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          203 RQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      .+.|.+.    . +...|..++.++.+.|++++|.+++....+..  +++...+.+..+|++.+++++...+++     +
T Consensus      1125 IdsYiKA----d-D~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI~-----~ 1192 (1630)
T 1xi4_A         1125 IDSYIKA----D-DPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFIN-----G 1192 (1630)
T ss_pred             HHHHHhc----C-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHh-----C
Confidence            9999742    2 22348889999999999999999999877765  444444468899999999886555432     3


Q ss_pred             CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHH
Q 012365          283 YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRK  362 (465)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~  362 (465)
                      .....+..+...|...|++++|..+|....        .|..+...+...      |++++|.+.+++..       +..
T Consensus      1193 ~n~ad~~~iGd~le~eg~YeeA~~~Y~kA~--------ny~rLA~tLvkL------ge~q~AIEaarKA~-------n~~ 1251 (1630)
T 1xi4_A         1193 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS--------NFGRLASTLVHL------GEYQAAVDGARKAN-------STR 1251 (1630)
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHhhh--------HHHHHHHHHHHh------CCHHHHHHHHHHhC-------CHH
Confidence            344566678888999999999999998852        344444444433      88999999998775       457


Q ss_pred             HHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          363 CLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       363 ~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      +|..+-.+|...|++..|......     +..++..+..++..|.+.|.+++|+.+++..+..++..
T Consensus      1252 aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH 1313 (1630)
T 1xi4_A         1252 TWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLERAH 1313 (1630)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhH
Confidence            898888999999999998876543     34567778899999999999999999999988776543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.61  E-value=7.1e-14  Score=120.86  Aligned_cols=226  Identities=13%  Similarity=0.062  Sum_probs=180.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC--CCC----HHHH
Q 012365          183 KYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGC--NLE----PRAV  255 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~--~p~----~~~~  255 (465)
                      ...+..+...+...|++++|...|++. ...  ....+|..+...+...|++++|...+.+..+...  .|+    ...+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            456777888999999999999999873 223  3344588999999999999999999999877541  122    5778


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhc
Q 012365          256 IALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIAT  335 (465)
Q Consensus       256 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  335 (465)
                      ..+...+...|++++|...++...+....       ...+...|++++|...++.+....+.+...+..+...++.    
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~----  151 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRT-------ADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFT----  151 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCch-------hHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHH----
Confidence            88999999999999999999998764433       2345578889999999999888443333334433333333    


Q ss_pred             CCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhH
Q 012365          336 TDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSA  415 (465)
Q Consensus       336 ~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  415 (465)
                        .|++++|+..+++.. ... +.+...|..+..++...|++++|...+++..+.. |.+..+|..+...|.+.|++++|
T Consensus       152 --~~~~~~A~~~~~~a~-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  226 (258)
T 3uq3_A          152 --KSDWPNAVKAYTEMI-KRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASA  226 (258)
T ss_dssp             --TTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             --hcCHHHHHHHHHHHH-hcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHH
Confidence              399999999999998 322 2357788899999999999999999999999873 67788999999999999999999


Q ss_pred             HHHHhccCCCC
Q 012365          416 SKLLSKMPKDD  426 (465)
Q Consensus       416 ~~~~~~m~~~~  426 (465)
                      ...+++..+.+
T Consensus       227 ~~~~~~a~~~~  237 (258)
T 3uq3_A          227 LETLDAARTKD  237 (258)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999998776

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.60  E-value=1.3e-13  Score=115.81  Aligned_cols=134  Identities=13%  Similarity=0.020  Sum_probs=80.6

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      +++...+..+...+.+.|++++|+..|++..+..+. +...+..+..++...|++++|...+++..+.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            455566666666666677777777777766665332 55666666666666677777777776666654 3455666666


Q ss_pred             HHHHhcc-----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           88 ISLNVKI-----------KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        88 i~~~~~~-----------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ..++...           |++++|...|++..+.. |-+...|..+...+...|++++|+..|++..+
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  146 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALA  146 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Confidence            6666666           66666666665555443 33445555555555556666666555555543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.58  E-value=1.8e-13  Score=119.60  Aligned_cols=223  Identities=14%  Similarity=0.031  Sum_probs=148.5

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCH
Q 012365           21 SCDLLKVHVALDVVEQMVQGELV---PSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDF   97 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~---p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~   97 (465)
                      +...|++++|++.|+.+.+....   .+..++..+...+...|++++|...|+.+.+.. +.+..++..+...+...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            34568999999999999886421   245678888889999999999999999998875 55789999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHc
Q 012365           98 DSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSA  177 (465)
Q Consensus        98 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~  177 (465)
                      ++|...|++..+.. +.+...|..+...+...|++++|.+.|+++.+.  .|+......                     
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~---------------------  149 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSL---------------------  149 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH---------------------
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHH---------------------
Confidence            99999999998865 457889999999999999999999999998864  233222111                     


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCC---CHH
Q 012365          178 GGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNL---EPR  253 (465)
Q Consensus       178 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~  253 (465)
                                 .+..+...|++++|...+++ ....+.... .+ .++..+...++.++|...+.+........   +..
T Consensus       150 -----------~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  216 (275)
T 1xnf_A          150 -----------WLYLAEQKLDEKQAKEVLKQHFEKSDKEQW-GW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSE  216 (275)
T ss_dssp             -----------HHHHHHHHHCHHHHHHHHHHHHHHSCCCST-HH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             -----------HHHHHHHhcCHHHHHHHHHHHHhcCCcchH-HH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccH
Confidence                       11122333555555555543 111111111 12 24444455555555555555554332100   124


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHcCC
Q 012365          254 AVIALIEHLNSEGELNRLIQLLEEVHDP  281 (465)
Q Consensus       254 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~  281 (465)
                      .+..+...+...|++++|...+++....
T Consensus       217 ~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          217 TNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            4455555555556666666655555543

>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=99.58  E-value=1.2e-12  Score=112.81  Aligned_cols=201  Identities=12%  Similarity=0.032  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      ..|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            344445555555555555555555554432 1244455555555555555555555555555443 23445555555555


Q ss_pred             hccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHH
Q 012365           92 VKIKDFDSAYSLLDDLKEMNLMP-TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKY  170 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~  170 (465)
                      ...|++++|..+|++....+..| +...+..+...+...|++++|.+.|++..+..                        
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~------------------------  171 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN------------------------  171 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------------
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------------------------
Confidence            55555555555555554411122 33444455555555555555555555544321                        


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC
Q 012365          171 YEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  247 (465)
                               +.+...+..+...+...|++++|...+++.....+.....+..+...+...|++++|.+.++++.+..
T Consensus       172 ---------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          172 ---------RNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             ---------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             ---------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence                     11344455555666666666666666665322222223335555666666666666666666666544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=7.1e-13  Score=114.50  Aligned_cols=221  Identities=13%  Similarity=0.008  Sum_probs=116.1

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCC----HHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNL--KPN----SETFR   85 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~   85 (465)
                      ..|..+...+...|++++|+..|++..+..  .+...+..+..++...|++++|.+.++...+...  .++    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            445555566666666666666666665544  4555566666666666666666666665554320  111    34555


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChh
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEE  165 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  165 (465)
                      .+...+...|++++|...|++....  .|+.       ..+.+.|++++|.+.++++....                   
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-------------------  135 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-------------------  135 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-------------------
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-------------------
Confidence            5555555555555555555555543  2332       22333444555555555444320                   


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q 012365          166 DIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIK  244 (465)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  244 (465)
                                    +.+...+..+...+...|++++|.+.|++. ...+.. ..+|..+...|...|++++|...+++..
T Consensus       136 --------------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~al  200 (258)
T 3uq3_A          136 --------------PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPED-ARGYSNRAAALAKLMSFPEAIADCNKAI  200 (258)
T ss_dssp             --------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             --------------cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCccc-HHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence                          112334455555666666666666666652 222222 2235566666666666666666666665


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHH
Q 012365          245 EAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEV  278 (465)
Q Consensus       245 ~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  278 (465)
                      +... .+...+..+..++.+.|++++|...++..
T Consensus       201 ~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  233 (258)
T 3uq3_A          201 EKDP-NFVRAYIRKATAQIAVKEYASALETLDAA  233 (258)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhCH-HHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            5441 23445555555555555555555555444

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.57  E-value=4.8e-13  Score=112.33  Aligned_cols=199  Identities=16%  Similarity=0.145  Sum_probs=143.6

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365           43 VPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAI  122 (465)
Q Consensus        43 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  122 (465)
                      +++...+..+...+...|++++|...|+...+.. +.+...+..+..++.+.|++++|...|++..+.. |.+...|..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            4567788888888999999999999999998876 5678899999999999999999999999988775 5567888888


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365          123 MAGYFRK-----------KDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALIN  191 (465)
Q Consensus       123 i~~~~~~-----------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  191 (465)
                      ...+...           |++++|+..|++..+.  .|                               -+...+..+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P-------------------------------~~~~~~~~lg~  126 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NP-------------------------------RYAPLHLQRGL  126 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CT-------------------------------TCHHHHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--Cc-------------------------------ccHHHHHHHHH
Confidence            8888888           7888887777776653  12                               24556667777


Q ss_pred             HHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHH
Q 012365          192 AYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNR  270 (465)
Q Consensus       192 ~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  270 (465)
                      ++...|++++|+..|++ +...  .....+..+...|...|++++|+..|++..+... .+...+..+...+...|++++
T Consensus       127 ~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~  203 (217)
T 2pl2_A          127 VYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAP-KDLDLRVRYASALLLKGKAEE  203 (217)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTC------
T ss_pred             HHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHH
Confidence            88888888888888887 3333  3344577888888888888888888888887652 246677777888888888888


Q ss_pred             HHHHHHHHc
Q 012365          271 LIQLLEEVH  279 (465)
Q Consensus       271 a~~~~~~~~  279 (465)
                      |...+++..
T Consensus       204 A~~~~~~~~  212 (217)
T 2pl2_A          204 AARAAALEH  212 (217)
T ss_dssp             ---------
T ss_pred             HHHHHHHHh
Confidence            888777654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.56  E-value=2.4e-12  Score=108.57  Aligned_cols=209  Identities=9%  Similarity=-0.092  Sum_probs=151.4

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...|..+...+...|++++|++.|+...+.. +.+...+..+...+...|++++|.+.++.+.+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            45677788888888888888888888887754 2357778888888888888888888888887764 456778888888


Q ss_pred             HHhcc-CCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHH
Q 012365           90 LNVKI-KDFDSAYSLLDDLKEMNLMP-TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDI  167 (465)
Q Consensus        90 ~~~~~-g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  167 (465)
                      .+... |++++|...++++.+.+..| +...+..+...+...|++++|.+.|+++.+..  |                  
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~------------------  144 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--P------------------  144 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--T------------------
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------------
Confidence            88888 88888888888887632223 35677778888888888888888888776431  1                  


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          168 IKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                                   .+...+..+...+...|++++|.+.+++. ...+......+..+...+...|+.+.|..+++.+...
T Consensus       145 -------------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          145 -------------QFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             -------------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -------------CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence                         13455666777788888888888888763 2233123334666777777888888888888887765


Q ss_pred             CCCCCHHHH
Q 012365          247 GCNLEPRAV  255 (465)
Q Consensus       247 ~~~p~~~~~  255 (465)
                      .  |+...+
T Consensus       212 ~--p~~~~~  218 (225)
T 2vq2_A          212 F--PYSEEL  218 (225)
T ss_dssp             C--TTCHHH
T ss_pred             C--CCCHHH
Confidence            4  444433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.55  E-value=2e-13  Score=119.23  Aligned_cols=245  Identities=10%  Similarity=-0.034  Sum_probs=174.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC--HHHHHHHHH
Q 012365          184 YVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE--PRAVIALIE  260 (465)
Q Consensus       184 ~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~  260 (465)
                      ..+......+...|++++|...|++ +...+.... .+..+...|...|++++|+..+++..+....|+  ...+..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~-~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPY-IYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCST-THHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHH-HHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            3445566778888888888888887 333333332 477788888888899999888888887432222  334777888


Q ss_pred             HHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCC
Q 012365          261 HLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPP  339 (465)
Q Consensus       261 ~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  339 (465)
                      .+...|++++|...++...+..+ .+..+..+...+...|++++|+..|++..+..+.+...+..+-...+..      +
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~------~  156 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYN------K  156 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHT------T
T ss_pred             HHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHH------H
Confidence            88888889988888888766443 3456677777888888999999888888775333333333333133333      6


Q ss_pred             chhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhh---hhHHHHHHHHHHHcC-CCCC------hhHHHHHHHHHHh
Q 012365          340 DVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARD---LKRAHLIWKEYENAG-LPYN------VLSYLWMYKAFLA  408 (465)
Q Consensus       340 ~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~---~~~A~~~~~~m~~~g-~~p~------~~~~~~l~~~~~~  408 (465)
                      ++++|+..|+++. +  ..| +...+..+..++...|+   .++|...+++..+.. -.|+      ..+|..+...|..
T Consensus       157 ~~~~A~~~~~~a~-~--~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  233 (272)
T 3u4t_A          157 EYVKADSSFVKVL-E--LKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTI  233 (272)
T ss_dssp             CHHHHHHHHHHHH-H--HSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-H--hCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHH
Confidence            8999999999888 3  344 35667777778888888   888999998887641 1233      2578888899999


Q ss_pred             cCChhhHHHHHhccCCCCCChhHHHHHHHh
Q 012365          409 SGNRKSASKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       409 ~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                      .|++++|.+.++++++.+|...........
T Consensus       234 ~~~~~~A~~~~~~al~~~p~~~~a~~~l~~  263 (272)
T 3u4t_A          234 NRDKVKADAAWKNILALDPTNKKAIDGLKM  263 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHhcCccHHHHHHHhhh
Confidence            999999999999999888876655544433

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.54  E-value=4.3e-12  Score=120.22  Aligned_cols=322  Identities=11%  Similarity=-0.043  Sum_probs=161.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhC-----C-C-CCCHHHHHHHHHHHhcc--CCHHHHHHHHHHHHHcCCCCCHH
Q 012365           47 ETINSILHACEESYEFNLVRRIYPMICHH-----N-L-KPNSETFRSMISLNVKI--KDFDSAYSLLDDLKEMNLMPTAS  117 (465)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~-~-~~~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~~~~~~~~  117 (465)
                      .+|+.+..++...|++++|...+++..+.     + . .....++..+..++...  +++++|...|++..... |-+..
T Consensus        95 ~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~  173 (472)
T 4g1t_A           95 VTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPE  173 (472)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHH
Confidence            44555555555555555555555444321     0 0 11233444333333322  34555555555554432 22233


Q ss_pred             HHHHHHHH---HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh-------CChhHHHHHHHHHHHcCCCCCHHHHH
Q 012365          118 MYNAIMAG---YFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC-------SNEEDIIKYYEQLKSAGGQITKYVFM  187 (465)
Q Consensus       118 ~~~~li~~---~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (465)
                      .+..+...   +...++.++|++.+++..+.. +.+...+..+...+       .+...+.+.++...... +.+..++.
T Consensus       174 ~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~  251 (472)
T 4g1t_A          174 FTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLR  251 (472)
T ss_dssp             HHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHH
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHH
Confidence            33333322   223344455555555544321 11222222221111       11233444444444433 33566677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHc-------------------CCChhHHHHHHHHHHHcC
Q 012365          188 ALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALAS-------------------HGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       188 ~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~-------------------~g~~~~a~~~~~~m~~~~  247 (465)
                      .+...|...|++++|.+.+++. ...+... .++..+...|..                   .+.++.|...+....+..
T Consensus       252 ~lg~~~~~~~~~~~A~~~~~~al~~~p~~~-~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  330 (472)
T 4g1t_A          252 SAAKFYRRKDEPDKAIELLKKALEYIPNNA-YLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN  330 (472)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCH-HHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHhCCChH-HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC
Confidence            7778888888888888888763 3333332 235555444432                   123566777777777655


Q ss_pred             CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccch----hhHh-hHhhhcCChhHHHHHHHHHHHcccchhHHH
Q 012365          248 CNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGC----CRLI-LHCVRFKQLSSATDLLKQLKDKFKDDEMAM  322 (465)
Q Consensus       248 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  322 (465)
                      . .+..++..+...+...|++++|...|++..+....+...    ..+. ......|++++|+..|.+..+.. |.....
T Consensus       331 ~-~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~-~~~~~~  408 (472)
T 4g1t_A          331 D-NLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN-QKSREK  408 (472)
T ss_dssp             T-TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC-CCCHHH
T ss_pred             C-chhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-cccHHH
Confidence            2 234566778888999999999999999887655443321    1221 12346788999999999887732 222221


Q ss_pred             HHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcC
Q 012365          323 EYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAG  391 (465)
Q Consensus       323 ~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g  391 (465)
                      .               +....+.++++... . .-+.++.+|..+...|...|++++|.+.|++..+.|
T Consensus       409 ~---------------~~~~~l~~~~~~~l-~-~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          409 E---------------KMKDKLQKIAKMRL-S-KNGADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             H---------------HHHHHHHHHHHHHH-H-HCC-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             H---------------HHHHHHHHHHHHHH-H-hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            1               22233444555544 2 123366789999999999999999999999999864

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.54  E-value=8.9e-13  Score=112.85  Aligned_cols=202  Identities=7%  Similarity=0.035  Sum_probs=131.7

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...|..+...+...|++++|+..|+++.+... .+...+..+...+...|++++|.+.++.+.+.. +.+..++..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            455677777777888888888888888877533 367777777778888888888888888877764 456777888888


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK  169 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  169 (465)
                      .+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++++.+..  |                    
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~--------------------  156 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--E--------------------  156 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--T--------------------
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--C--------------------
Confidence            8888888888888888877654 4567777778888888888888888887776431  1                    


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  247 (465)
                                 .+...+..+...+...|++++|.+.|++.....+....++..+...|...|++++|...++++.+..
T Consensus       157 -----------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          157 -----------NDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             -----------TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             -----------ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence                       1344566667777778888888888876322222223347777778888888888888888877765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.53  E-value=3.4e-12  Score=107.65  Aligned_cols=202  Identities=8%  Similarity=0.006  Sum_probs=150.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...+..+...+...|++++|.+.++.+.+.. +.+...+..+...+...|++++|...|++..... +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            45667777888888899999999988888764 4567888888888888899999999988887764 456778888888


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 012365          125 GYFRK-KDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKAR  203 (465)
Q Consensus       125 ~~~~~-g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  203 (465)
                      .+... |++++|...++++.+.+..|                               .+...+..+..++...|++++|.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~-------------------------------~~~~~~~~l~~~~~~~~~~~~A~  133 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYP-------------------------------TPYIANLNKGICSAKQGQFGLAE  133 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCS-------------------------------CHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCc-------------------------------chHHHHHHHHHHHHHcCCHHHHH
Confidence            88888 88999888888887621111                               12455666777788888888888


Q ss_pred             HHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcC
Q 012365          204 QVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD  280 (465)
Q Consensus       204 ~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  280 (465)
                      +.|++. ...+.. ...+..+...+...|++++|...+++..+.....+...+..+...+...|+.+.+..+++.+.+
T Consensus       134 ~~~~~~~~~~~~~-~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          134 AYLKRSLAAQPQF-PPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHSTTC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCC-chHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            888773 223332 3347778888888888888888888887765313566666666777777777777777777653

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.52  E-value=3.6e-12  Score=109.76  Aligned_cols=199  Identities=10%  Similarity=0.015  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365           47 ETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGY  126 (465)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  126 (465)
                      ..+..+...+...|++++|.+.++.+.+.. +.+..++..+...+...|++++|...|++..+.. +.+...+..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            344455555555666666666666655543 3345555555566666666666666666555443 33455555555556


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 012365          127 FRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVV  206 (465)
Q Consensus       127 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  206 (465)
                      ...|++++|.+.|+++.+.+..|+                               +...+..+...+...|++++|.+.|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~-------------------------------~~~~~~~la~~~~~~g~~~~A~~~~  164 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPE-------------------------------RSRVFENLGLVSLQMKKPAQAKEYF  164 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTT-------------------------------HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcc-------------------------------cHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            666666666666555544111111                               2233444445555555666665555


Q ss_pred             HHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHc
Q 012365          207 LDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVH  279 (465)
Q Consensus       207 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  279 (465)
                      ++.....+.....+..+...+...|++++|...++++.+... .+...+..+...+...|+.++|...++.+.
T Consensus       165 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~  236 (252)
T 2ho1_A          165 EKSLRLNRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGG-QNARSLLLGIRLAKVFEDRDTAASYGLQLK  236 (252)
T ss_dssp             HHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            542111111222355555555555555555555555554331 234444445555555555555555555443

>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=99.50  E-value=3.9e-12  Score=115.72  Aligned_cols=229  Identities=10%  Similarity=0.068  Sum_probs=169.4

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYE-FNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      ...|+.+...+.+.|++++|++.|++..+.... +...|+.+..++...|+ +++|+..++++.+.. +-+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            466778888888889999999999999886533 67888888888888896 999999999998876 557888999999


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK  169 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  169 (465)
                      ++...|++++|...|++....+ +-+...|..+..++.+.|++++|+..|+++.+..  |+                   
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~--P~-------------------  232 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VR-------------------  232 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TT-------------------
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CC-------------------
Confidence            9999999999999999988776 5678889999999999999999999998887642  22                   


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHh-cCCHHHH-----HHHHHH-hcCCCCChHHHHHHHHHHHHcCC--ChhHHHHHH
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTT-CGEFEKA-----RQVVLD-AEIPVKSRSEVKSALVSALASHG--RTSDAIIVY  240 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a-----~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~  240 (465)
                                  +...|+.+..++.. .|..++|     ++.|++ +...+.... .|+.+...+...|  ++++|++.+
T Consensus       233 ------------~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P~~~~-a~~~l~~ll~~~g~~~~~~a~~~~  299 (382)
T 2h6f_A          233 ------------NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNES-AWNYLKGILQDRGLSKYPNLLNQL  299 (382)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHTTTCGGGCHHHHHHH
T ss_pred             ------------CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHccCccchHHHHHHH
Confidence                        44555666666666 4444555     355655 334444433 4777777777777  578888888


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccC---------cHHHHHHHHHHH
Q 012365          241 EEIKEAGCNLEPRAVIALIEHLNSEG---------ELNRLIQLLEEV  278 (465)
Q Consensus       241 ~~m~~~~~~p~~~~~~~ll~~~~~~g---------~~~~a~~~~~~~  278 (465)
                      .++ +.. ..+...+..+...+.+.|         ..++|.++++.+
T Consensus       300 ~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          300 LDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             HHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHH
T ss_pred             HHh-ccC-CCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHH
Confidence            777 322 234666777777776653         235566666655

>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=99.49  E-value=6.9e-11  Score=103.06  Aligned_cols=192  Identities=13%  Similarity=0.017  Sum_probs=108.9

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEE----SYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      +..++..+-..+...|++++|++.|++..+.+   +...+..+...+..    .+++++|.+.|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            34555566666666666666666666666522   34555556666666    666666666666666654   555666


Q ss_pred             HHHHHHhc----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012365           86 SMISLNVK----IKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR----KKDVQGALMVLKEMEQANVKPDSQTFSYL  157 (465)
Q Consensus        86 ~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  157 (465)
                      .+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|++.|++..+.+           
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~-----------  144 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN-----------  144 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT-----------
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC-----------
Confidence            66666666    666666666666665543   55556666666666    666666666665544321           


Q ss_pred             HHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHc----
Q 012365          158 IHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTT----CGEFEKARQVVLDAEIPVKSRSEVKSALVSALAS----  229 (465)
Q Consensus       158 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----  229 (465)
                                              +...+..+...|..    .+++++|.+.|++.....  ....+..+...|..    
T Consensus       145 ------------------------~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~~  198 (273)
T 1ouv_A          145 ------------------------DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK--DSPGCFNAGNMYHHGEGA  198 (273)
T ss_dssp             ------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTCSS
T ss_pred             ------------------------cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHcCCCC
Confidence                                    23344555555555    566666666665421111  11224455555555    


Q ss_pred             CCChhHHHHHHHHHHHcC
Q 012365          230 HGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       230 ~g~~~~a~~~~~~m~~~~  247 (465)
                      .+++++|+..|++..+.+
T Consensus       199 ~~~~~~A~~~~~~a~~~~  216 (273)
T 1ouv_A          199 TKNFKEALARYSKACELE  216 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT
T ss_pred             CccHHHHHHHHHHHHhCC
Confidence            556666666665555543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.49  E-value=4.9e-12  Score=110.24  Aligned_cols=231  Identities=13%  Similarity=0.039  Sum_probs=130.4

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC--CHHHHHHHHHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKP--NSETFRSMISL   90 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~   90 (465)
                      .+......+...|++++|+..|+...+.... +...+..+..++...|++++|.+.++...+.+-.+  ...+|..+...
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            3444556667777777777777777765432 44466667777777777777777777777632111  13346677777


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKY  170 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~  170 (465)
                      +...|++++|...|++..+.. +.+..+|..+...+...|++++|.+.|++..+.  .|+                    
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~--------------------  140 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTT--------------------  140 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCC--------------------
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCC--------------------
Confidence            777777777777777776654 345566777777777777777777777665543  221                    


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCC---hhHHHHHHHHHHHc
Q 012365          171 YEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGR---TSDAIIVYEEIKEA  246 (465)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~m~~~  246 (465)
                                 +...+..+...+...+++++|.+.|++. ...+.. ...+..+...+...|+   +++|...+++..+.
T Consensus       141 -----------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          141 -----------DPKVFYELGQAYYYNKEYVKADSSFVKVLELKPNI-YIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             -----------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC-HHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             -----------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccc-hHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence                       2233333331222233666666666652 222222 2234555555555555   55566666655443


Q ss_pred             C-CCCC------HHHHHHHHHHHHccCcHHHHHHHHHHHc
Q 012365          247 G-CNLE------PRAVIALIEHLNSEGELNRLIQLLEEVH  279 (465)
Q Consensus       247 ~-~~p~------~~~~~~ll~~~~~~g~~~~a~~~~~~~~  279 (465)
                      . -.|+      ...+..+...+...|++++|...+++..
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al  248 (272)
T 3u4t_A          209 CAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNIL  248 (272)
T ss_dssp             HGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            1 1122      1234444444455555555555554443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.48  E-value=4.3e-12  Score=110.77  Aligned_cols=55  Identities=16%  Similarity=0.003  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHH
Q 012365          361 RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLL  419 (465)
Q Consensus       361 ~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  419 (465)
                      ...+..+...+...|++++|...|+++.+.. |.+..   ....++...|++++|.+-+
T Consensus       215 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          215 SETNFYLGKYYLSLGDLDSATALFKLAVANN-VHNFV---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-CTTCH---HHHHHHHHHHHHHHC----
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-chhHH---HHHHHHHHHHHHHhhHHHH
Confidence            3566677777778888888888888887652 22333   2345566777777777665

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.48  E-value=1.3e-10  Score=101.27  Aligned_cols=192  Identities=14%  Similarity=0.052  Sum_probs=162.1

Q ss_pred             CHHHHHHHHHHHhc----ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCH
Q 012365           10 SSASYKKLITYSCD----LLKVHVALDVVEQMVQGELVPSTETINSILHACEE----SYEFNLVRRIYPMICHHNLKPNS   81 (465)
Q Consensus        10 ~~~~y~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   81 (465)
                      +...+..+...|..    .+++++|++.|++..+.+   +...+..+...+..    .+++++|.+.|+...+.+   +.
T Consensus        37 ~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~  110 (273)
T 1ouv_A           37 ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YA  110 (273)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---Cc
Confidence            46778888888999    999999999999999876   77888899999999    999999999999999875   78


Q ss_pred             HHHHHHHHHHhc----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHH
Q 012365           82 ETFRSMISLNVK----IKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR----KKDVQGALMVLKEMEQANVKPDSQT  153 (465)
Q Consensus        82 ~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~  153 (465)
                      ..+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++..+.+       
T Consensus       111 ~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~-------  180 (273)
T 1ouv_A          111 EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK-------  180 (273)
T ss_dssp             HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-------
T ss_pred             cHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC-------
Confidence            899999999999    999999999999999865   67788888888888    899999999999877542       


Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHc
Q 012365          154 FSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTT----CGEFEKARQVVLDAEIPVKSRSEVKSALVSALAS  229 (465)
Q Consensus       154 ~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  229 (465)
                                                  +...+..+...|..    .+++++|.+.|++......  ...+..+...|..
T Consensus       181 ----------------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~  230 (273)
T 1ouv_A          181 ----------------------------DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYN  230 (273)
T ss_dssp             ----------------------------CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHT
T ss_pred             ----------------------------CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHc
Confidence                                        23445556677777    8999999999987322222  3347788888988


Q ss_pred             ----CCChhHHHHHHHHHHHcC
Q 012365          230 ----HGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       230 ----~g~~~~a~~~~~~m~~~~  247 (465)
                          .+++++|.+.|++..+.|
T Consensus       231 g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          231 GEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             TSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCCcccCHHHHHHHHHHHHHcC
Confidence                999999999999999887

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.48  E-value=1e-12  Score=112.47  Aligned_cols=209  Identities=15%  Similarity=0.057  Sum_probs=124.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365          182 TKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEH  261 (465)
Q Consensus       182 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  261 (465)
                      ....+..+...+...|++++|...|++.....+.....+..+...+...|++++|.+.+++..+... .+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHHH
Confidence            3455666666777777777777777764333333334567777777777777777777777776542 245566666666


Q ss_pred             HHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCc
Q 012365          262 LNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPD  340 (465)
Q Consensus       262 ~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  340 (465)
                      +...|++++|...++++.+... .+..+..+...+...                                        |+
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~----------------------------------------~~  140 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKL----------------------------------------EQ  140 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHT----------------------------------------SC
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh----------------------------------------cc
Confidence            6666666666666665543221 111222222223333                                        66


Q ss_pred             hhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHh
Q 012365          341 VQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLS  420 (465)
Q Consensus       341 ~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  420 (465)
                      +++|+..++++. .. ...+...+..+...+...|++++|...++++.+. .+.+..++..+...|.+.|++++|.+.++
T Consensus       141 ~~~A~~~~~~~~-~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~  217 (243)
T 2q7f_A          141 PKLALPYLQRAV-EL-NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQ-DPGHADAFYNAGVTYAYKENREKALEMLD  217 (243)
T ss_dssp             HHHHHHHHHHHH-HH-CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHH-Hh-CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            666666666655 22 1235667777888888889999999999988876 36677788888889999999999999999


Q ss_pred             ccCCCCCChhHHHH
Q 012365          421 KMPKDDPHVRFVIQ  434 (465)
Q Consensus       421 ~m~~~~~~~~~~l~  434 (465)
                      ++.+.+|.......
T Consensus       218 ~~~~~~p~~~~~~~  231 (243)
T 2q7f_A          218 KAIDIQPDHMLALH  231 (243)
T ss_dssp             HHHHHCTTCHHHHH
T ss_pred             HHHccCcchHHHHH
Confidence            98887776554443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.47  E-value=8.5e-12  Score=117.03  Aligned_cols=350  Identities=12%  Similarity=0.030  Sum_probs=162.5

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEF---NLVRRIYPMICHHNLKPNSETFRSMISLNVK   93 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~   93 (465)
                      +...+.+.|++++|+++|++..+.|.   ...+..|...+...|+.   ++|.+.|+...+.    ++..+..|...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            45566778999999999998877663   33444555556666777   8888888887754    45555666664444


Q ss_pred             cC-----CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH---HHHHHHHHHHHCCCCCCHHHHHHHHHhhCChh
Q 012365           94 IK-----DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQ---GALMVLKEMEQANVKPDSQTFSYLIHNCSNEE  165 (465)
Q Consensus        94 ~g-----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~---~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  165 (465)
                      .+     ++++|...|++..+.|. ++  .+..|...|...+..+   ++.+.+......|..........+...-....
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~-~~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGE-GN--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTC-SS--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGG
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCC-HH--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcc
Confidence            44     77889999988887662 32  6666777666655433   34444554444443222222222222212111


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcC----CChhHHHH
Q 012365          166 DIIKYYEQLKSAGGQITKYVFMALINAYTTCG---EFEKARQVVLDAEIPVKSRSEVKSALVSALASH----GRTSDAII  238 (465)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~  238 (465)
                      ........+.+.-...++..+..|...|...|   +.++|.+.|++......+....+..+...|...    +++++|.+
T Consensus       159 ~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~  238 (452)
T 3e4b_A          159 QHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQA  238 (452)
T ss_dssp             GGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            11111111111111112225556666666666   666777766653222222222234455555433    46667777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHH-H--HccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcC-----ChhHHHHHHHH
Q 012365          239 VYEEIKEAGCNLEPRAVIALIEH-L--NSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFK-----QLSSATDLLKQ  310 (465)
Q Consensus       239 ~~~~m~~~~~~p~~~~~~~ll~~-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~a~~~~~~  310 (465)
                      +|++.. .|   ++..+..+-.. +  ...++.++|...|++..+.+ .+.....+...|. .|     ++++|...|++
T Consensus       239 ~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g-~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~  312 (452)
T 3e4b_A          239 LLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD-QPRAELLLGKLYY-EGKWVPADAKAAEAHFEK  312 (452)
T ss_dssp             HHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHT
T ss_pred             HHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHH
Confidence            776665 33   33344444443 2  34666667777666665544 3334444444443 33     66666666666


Q ss_pred             HHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHh----hhhhhHHHHHHHH
Q 012365          311 LKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVN----ARDLKRAHLIWKE  386 (465)
Q Consensus       311 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~  386 (465)
                      .. .+  +....+ .+..++.. +.....+.++|...|++.. ..|. |+  ....|...|..    ..+.++|...|+.
T Consensus       313 Aa-~g--~~~A~~-~Lg~~y~~-G~g~~~d~~~A~~~~~~Aa-~~g~-~~--A~~~Lg~~y~~G~g~~~d~~~A~~~~~~  383 (452)
T 3e4b_A          313 AV-GR--EVAADY-YLGQIYRR-GYLGKVYPQKALDHLLTAA-RNGQ-NS--ADFAIAQLFSQGKGTKPDPLNAYVFSQL  383 (452)
T ss_dssp             TT-TT--CHHHHH-HHHHHHHT-TTTSSCCHHHHHHHHHHHH-TTTC-TT--HHHHHHHHHHSCTTBCCCHHHHHHHHHH
T ss_pred             Hh-CC--CHHHHH-HHHHHHHC-CCCCCcCHHHHHHHHHHHH-hhCh-HH--HHHHHHHHHHhCCCCCCCHHHHHHHHHH
Confidence            55 21  111111 12222222 1112346666666666666 4332 22  22233333332    3356666666666


Q ss_pred             HHHcC
Q 012365          387 YENAG  391 (465)
Q Consensus       387 m~~~g  391 (465)
                      ..+.|
T Consensus       384 A~~~g  388 (452)
T 3e4b_A          384 AKAQD  388 (452)
T ss_dssp             HHTTC
T ss_pred             HHHCC
Confidence            66655

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.46  E-value=2.7e-11  Score=113.60  Aligned_cols=349  Identities=11%  Similarity=0.047  Sum_probs=219.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCH---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012365           52 ILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDF---DSAYSLLDDLKEMNLMPTASMYNAIMAGYFR  128 (465)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  128 (465)
                      +...+.+.|++++|.++|+...+.|   ++..+..|...|...|+.   ++|...|++..+.    +...+..+...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            5566778899999999999998876   334445566666777887   8999999988853    55667777775555


Q ss_pred             cC-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCC---hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---
Q 012365          129 KK-----DVQGALMVLKEMEQANVKPDSQTFSYLIHNCSN---EEDIIKYYEQLKSAGGQITKYVFMALINAYTTCG---  197 (465)
Q Consensus       129 ~g-----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---  197 (465)
                      .+     +.++|++.|++..+.|...-......+......   ...+.+.+......|.   ......+...|...+   
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGG
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcc
Confidence            55     789999999999987754433333333322111   2223444444545553   445556667777777   


Q ss_pred             -CHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCC---ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc----CcHH
Q 012365          198 -EFEKARQVVLDAEIPVKSRSEVKSALVSALASHG---RTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSE----GELN  269 (465)
Q Consensus       198 -~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~----g~~~  269 (465)
                       +.+.+..+++...... +.  .+..+...|...|   ++++|++.|.+..+.|. ++...+..+-..|...    ++.+
T Consensus       159 ~~~~~a~~~~~~a~~~~-~~--a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~  234 (452)
T 3e4b_A          159 QHLDDVERICKAALNTT-DI--CYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEK  234 (452)
T ss_dssp             GGHHHHHHHHHHHTTTC-TT--HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHH
T ss_pred             cCHHHHHHHHHHHHcCC-HH--HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHH
Confidence             4555666665433222 22  4778888999999   99999999999999884 4555545666666554    7999


Q ss_pred             HHHHHHHHHcCCCCCccchhhHhhH-h--hhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHH
Q 012365          270 RLIQLLEEVHDPDYWMDGCCRLILH-C--VRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLD  346 (465)
Q Consensus       270 ~a~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~  346 (465)
                      +|...|+...  .-.+.....+... +  ...+++++|+..|++..+.+.+.   ....+..++.. +.....++++|+.
T Consensus       235 ~A~~~~~~aa--~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~-G~g~~~d~~~A~~  308 (452)
T 3e4b_A          235 TAQALLEKIA--PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAADQPR---AELLLGKLYYE-GKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHHHHG--GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHH-CSSSCCCHHHHHH
T ss_pred             HHHHHHHHHc--CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHc-CCCCCCCHHHHHH
Confidence            9999999998  3345555555554 4  56899999999999988744222   22223333332 2222349999999


Q ss_pred             hHHHHHhhcCCCCcHHHHHHHHHHhHh----hhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----cCChhhHHHH
Q 012365          347 LLQFIKDELGLPPSRKCLDFLLGACVN----ARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLA----SGNRKSASKL  418 (465)
Q Consensus       347 ~~~~m~~~~~~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~  418 (465)
                      .|++..     .-++..+..|...|..    ..+.++|...|++..+.|   +......|...|..    ..+.++|..+
T Consensus       309 ~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~  380 (452)
T 3e4b_A          309 HFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVF  380 (452)
T ss_dssp             HHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHH
T ss_pred             HHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHH
Confidence            998764     3455666666666655    338999999999999876   45566777777764    4589999999


Q ss_pred             HhccCCCCCC
Q 012365          419 LSKMPKDDPH  428 (465)
Q Consensus       419 ~~~m~~~~~~  428 (465)
                      +++..+.+..
T Consensus       381 ~~~A~~~g~~  390 (452)
T 3e4b_A          381 SQLAKAQDTP  390 (452)
T ss_dssp             HHHHHTTCCH
T ss_pred             HHHHHHCCCH
Confidence            9998887763

>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=99.46  E-value=9.6e-10  Score=106.84  Aligned_cols=412  Identities=9%  Similarity=0.036  Sum_probs=269.8

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHhhCC-CCCCHHH
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYE---FNLVRRIYPMICHHN-LKPNSET   83 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~~   83 (465)
                      +-|..+|..++..+.+.+.++.+..+|+++... .+.+...|...+..-.+.++   ++.+..+|+...... .+|++..
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            347889999999999999999999999999886 55577888888888888888   999999999998864 2489999


Q ss_pred             HHHHHHHHhccCCH--------HHHHHHHHHHH-HcCC-CC-CHHHHHHHHHHHH---------hcCCHHHHHHHHHHHH
Q 012365           84 FRSMISLNVKIKDF--------DSAYSLLDDLK-EMNL-MP-TASMYNAIMAGYF---------RKKDVQGALMVLKEME  143 (465)
Q Consensus        84 ~~~li~~~~~~g~~--------~~a~~~~~~m~-~~~~-~~-~~~~~~~li~~~~---------~~g~~~~a~~~~~~m~  143 (465)
                      |...+....+.++.        +.+.++|+... ..|. .+ +...|...+....         ..++.+.+..+|+...
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            98888766665543        34557887754 4465 44 4578888887544         2345678889999887


Q ss_pred             HCCCCCCHHHH---HHHHHhhCCh-------------hHHHHHHHHHHH--cCCC---------------C-----C---
Q 012365          144 QANVKPDSQTF---SYLIHNCSNE-------------EDIIKYYEQLKS--AGGQ---------------I-----T---  182 (465)
Q Consensus       144 ~~~~~p~~~~~---~~ll~~~~~~-------------~~~~~~~~~~~~--~~~~---------------~-----~---  182 (465)
                      ......-..+|   ..+.......             ..+...+..+..  .++.               |     +   
T Consensus       222 ~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~q  301 (679)
T 4e6h_A          222 CQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQ  301 (679)
T ss_dssp             TSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHH
T ss_pred             hCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHH
Confidence            53222122333   2222222110             011122222221  1111               1     0   


Q ss_pred             HHHHHHHHHHHHhcC-------CHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHH-HHHHHHHHcCCCCCHHH
Q 012365          183 KYVFMALINAYTTCG-------EFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAI-IVYEEIKEAGCNLEPRA  254 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g-------~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~~~~~p~~~~  254 (465)
                      ...|...+..--..+       ..+.+..+|++.-...+.....|...+.-+...|+.++|. ++|.+..... +.+...
T Consensus       302 l~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~L  380 (679)
T 4e6h_A          302 LLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHH
Confidence            134444444333322       1233455676622222223335878888888889999997 9999998754 334555


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHcCCCC---------Cc--------------cchhhHhhHhhhcCChhHHHHHHHHH
Q 012365          255 VIALIEHLNSEGELNRLIQLLEEVHDPDY---------WM--------------DGCCRLILHCVRFKQLSSATDLLKQL  311 (465)
Q Consensus       255 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~---------~~--------------~~~~~~~~~~~~~~~~~~a~~~~~~~  311 (465)
                      +...+....+.|++++|.++|+.+.+...         .|              ..+...+....+.+..+.|..+|.+.
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66677888889999999999998875310         01              12334444455788999999999999


Q ss_pred             HHc-ccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          312 KDK-FKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       312 ~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      .+. .......|   +..  ..+.....++.+.|..+|+... +. ..-+...|...+......|+.+.|+.+|+...+.
T Consensus       461 ~~~~~~~~~~ly---i~~--A~lE~~~~~d~e~Ar~ife~~L-k~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~  533 (679)
T 4e6h_A          461 RRLKKLVTPDIY---LEN--AYIEYHISKDTKTACKVLELGL-KY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDK  533 (679)
T ss_dssp             HHTGGGSCTHHH---HHH--HHHHHTTTSCCHHHHHHHHHHH-HH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTT
T ss_pred             HHhcCCCChHHH---HHH--HHHHHHhCCCHHHHHHHHHHHH-HH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            874 11111122   111  1111111356999999999988 32 3335566778888888899999999999999986


Q ss_pred             CCCC--ChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          391 GLPY--NVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       391 g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      ..++  ....|...+..-.+.|+.+.+.++.+++.+..|.
T Consensus       534 ~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          534 ISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             SSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            3211  3457888888888899999999999999876664

>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=99.46  E-value=2.3e-11  Score=110.69  Aligned_cols=244  Identities=12%  Similarity=0.019  Sum_probs=189.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD-FDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      ...|..+...+...|++++|.+.++++++.. +-+..+|+.+..++...|+ +++|+..|++..... +.+...|+.+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            4567778888889999999999999999876 5578899999999999997 999999999998876 567889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQ  204 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  204 (465)
                      ++...|++++|+..|+++.+..  |                               -+...|..+..++...|++++|+.
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld--P-------------------------------~~~~a~~~lg~~~~~~g~~~eAl~  221 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD--A-------------------------------KNYHAWQHRQWVIQEFKLWDNELQ  221 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC--T-------------------------------TCHHHHHHHHHHHHHHTCCTTHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC--c-------------------------------cCHHHHHHHHHHHHHcCChHHHHH
Confidence            9999999999999999987632  2                               256777888888999999999999


Q ss_pred             HHHH-hcCCCCChHHHHHHHHHHHHc-CCChhHH-----HHHHHHHHHcCCCCCHHHHHHHHHHHHccC--cHHHHHHHH
Q 012365          205 VVLD-AEIPVKSRSEVKSALVSALAS-HGRTSDA-----IIVYEEIKEAGCNLEPRAVIALIEHLNSEG--ELNRLIQLL  275 (465)
Q Consensus       205 ~~~~-~~~~~~~~~~~~~~l~~~~~~-~g~~~~a-----~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g--~~~~a~~~~  275 (465)
                      .|++ +...+.... .|+.+..++.. .|..++|     +..|++...... -+...|..+...+...|  ++++|.+.+
T Consensus       222 ~~~~al~l~P~~~~-a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~  299 (382)
T 2h6f_A          222 YVDQLLKEDVRNNS-VWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQL  299 (382)
T ss_dssp             HHHHHHHHCTTCHH-HHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHH
T ss_pred             HHHHHHHhCCCCHH-HHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHH
Confidence            9998 444555444 58999999999 6666888     588888888662 24667888888888888  689999999


Q ss_pred             HHHcCCCC-CccchhhHhhHhhhcC---------ChhHHHHHHHHH-HHcccchhHHHHHHHH
Q 012365          276 EEVHDPDY-WMDGCCRLILHCVRFK---------QLSSATDLLKQL-KDKFKDDEMAMEYHFS  327 (465)
Q Consensus       276 ~~~~~~~~-~~~~~~~~~~~~~~~~---------~~~~a~~~~~~~-~~~~~~~~~~~~~~l~  327 (465)
                      .++ +... .+..+..+...+.+.+         .+++|+++|+++ .+..+.....|.....
T Consensus       300 ~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~  361 (382)
T 2h6f_A          300 LDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGR  361 (382)
T ss_dssp             HHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHh-ccCCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            998 3332 2334456666666653         358999999999 5533333333443333

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.45  E-value=1.2e-11  Score=114.62  Aligned_cols=302  Identities=14%  Similarity=0.044  Sum_probs=179.4

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 012365           79 PNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT----ASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTF  154 (465)
Q Consensus        79 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  154 (465)
                      .....+......+...|++++|...|++....+ +.+    ...|..+...+...|++++|...+++..+..        
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------   77 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA--------   77 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH--------
Confidence            445556666667777777788877777776653 223    2466777777888888888888877764310        


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHh-c-----CCCCChHHHHHHHHHHH
Q 012365          155 SYLIHNCSNEEDIIKYYEQLKSAGGQ-ITKYVFMALINAYTTCGEFEKARQVVLDA-E-----IPVKSRSEVKSALVSAL  227 (465)
Q Consensus       155 ~~ll~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~-----~~~~~~~~~~~~l~~~~  227 (465)
                                          ...+.. ....++..+...+...|++++|...+++. .     ........++..+...|
T Consensus        78 --------------------~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  137 (406)
T 3sf4_A           78 --------------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVY  137 (406)
T ss_dssp             --------------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             --------------------HhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHH
Confidence                                000000 01234555666667777777777766541 1     01111122466666777


Q ss_pred             HcCCC--------------------hhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHcCCC
Q 012365          228 ASHGR--------------------TSDAIIVYEEIKEA----GCNLE-PRAVIALIEHLNSEGELNRLIQLLEEVHDPD  282 (465)
Q Consensus       228 ~~~g~--------------------~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  282 (465)
                      ...|+                    +++|.+.+.+....    +..|. ..++..+...+...|++++|...+++..+..
T Consensus       138 ~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  217 (406)
T 3sf4_A          138 HAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIA  217 (406)
T ss_dssp             HHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHH
T ss_pred             HHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            77777                    77777777665432    11111 2345566667777777777777777664321


Q ss_pred             CC-------ccchhhHhhHhhhcCChhHHHHHHHHHHHcccc--h---hHHHHHHHHHHHHhhhcCCCCchhhhHHhHHH
Q 012365          283 YW-------MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKD--D---EMAMEYHFSEIFCQIATTDPPDVQIGLDLLQF  350 (465)
Q Consensus       283 ~~-------~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~---~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~  350 (465)
                      ..       ...+..+...+...|++++|...+++.......  +   .......+..++..     .|++++|...+++
T Consensus       218 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~-----~g~~~~A~~~~~~  292 (406)
T 3sf4_A          218 KEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTL-----LQDYEKAIDYHLK  292 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-----TTCHHHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHH-----hCcHHHHHHHHHH
Confidence            11       114455666677788888888888776652111  1   01112222222222     4888888888887


Q ss_pred             HHhhcCCCCc----HHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CC-CCChhHHHHHHHHHHhcCChhh
Q 012365          351 IKDELGLPPS----RKCLDFLLGACVNARDLKRAHLIWKEYENA----GL-PYNVLSYLWMYKAFLASGNRKS  414 (465)
Q Consensus       351 m~~~~~~~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~-~p~~~~~~~l~~~~~~~g~~~~  414 (465)
                      ......-.++    ..++..+...+...|++++|...+++..+.    +. +....++..+...|...|+...
T Consensus       293 a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          293 HLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHH
Confidence            7621111111    456778888899999999999999988754    21 2223477788888888887643

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.42  E-value=5e-12  Score=117.44  Aligned_cols=272  Identities=13%  Similarity=0.041  Sum_probs=182.1

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CC-CCCHHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPST----ETINSILHACEESYEFNLVRRIYPMICHH----NL-KPNSET   83 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~   83 (465)
                      .+..+...+...|++++|+..|++..+.... +.    ..+..+...+...|++++|.+.+++..+.    +- +....+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            3444556677788888888888888775332 33    45667777777888888888888776642    11 223456


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHc----C-CCCCHHHHHHHHHHHHhcCC-----------------HHHHHHHHHH
Q 012365           84 FRSMISLNVKIKDFDSAYSLLDDLKEM----N-LMPTASMYNAIMAGYFRKKD-----------------VQGALMVLKE  141 (465)
Q Consensus        84 ~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~~~~~~~~~li~~~~~~g~-----------------~~~a~~~~~~  141 (465)
                      +..+...|...|++++|...|++....    + .+....++..+...|...|+                 +++|.+.+++
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            777777788888888888887776533    1 01224466777777777787                 6666666655


Q ss_pred             HHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cC-----CCC
Q 012365          142 MEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGG-QITKYVFMALINAYTTCGEFEKARQVVLDA-EI-----PVK  214 (465)
Q Consensus       142 m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~-----~~~  214 (465)
                      ..+.                            ..+.+. .....++..+...+...|++++|.+.+++. ..     ...
T Consensus       209 al~~----------------------------~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  260 (411)
T 4a1s_A          209 NLKL----------------------------MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRA  260 (411)
T ss_dssp             HHHH----------------------------HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHH----------------------------HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcH
Confidence            4321                            111111 112346777888899999999999999862 11     111


Q ss_pred             ChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-----
Q 012365          215 SRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCN-LE----PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-----  284 (465)
Q Consensus       215 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-----  284 (465)
                      ....++..+...|...|++++|...+++....... .+    ..++..+...+...|++++|...+++.......     
T Consensus       261 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  340 (411)
T 4a1s_A          261 AERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRI  340 (411)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChH
Confidence            11224788889999999999999999887654210 11    456777888899999999999998877543211     


Q ss_pred             --ccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          285 --MDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       285 --~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                        ...+..+...+...|++++|...|++..+
T Consensus       341 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          341 GEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence              22455677778888999999999888776

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.41  E-value=1.5e-11  Score=116.14  Aligned_cols=221  Identities=10%  Similarity=-0.110  Sum_probs=149.9

Q ss_pred             HHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCCh-hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHH
Q 012365          199 FEKARQVVLDAEIPVKSRSEVKSALVSALASHGRT-SDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEE  277 (465)
Q Consensus       199 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  277 (465)
                      ++++...+++.....+.....+..+...+...|++ ++|++.|++..+... -+...+..+..+|...|++++|...|+.
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44445555443333333333466666666666666 666666666666541 1355666666666666777777776666


Q ss_pred             HcCCCCCccchhhHhhHhhhc---------CChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCC--CCchhhhHH
Q 012365          278 VHDPDYWMDGCCRLILHCVRF---------KQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTD--PPDVQIGLD  346 (465)
Q Consensus       278 ~~~~~~~~~~~~~~~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~~~~~~A~~  346 (465)
                      ..+..+....+..+...+...         |++++|+..|++..+..+.+...+..+-..++..+....  .|++++|+.
T Consensus       163 al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~  242 (474)
T 4abn_A          163 ALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALS  242 (474)
T ss_dssp             HHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHH
Confidence            665554444445555555566         778888888887777544444444444333332211112  288999999


Q ss_pred             hHHHHHhhcCCCC----cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhcc
Q 012365          347 LLQFIKDELGLPP----SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKM  422 (465)
Q Consensus       347 ~~~~m~~~~~~~p----~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  422 (465)
                      .|++.. .  +.|    +...|..+..+|...|++++|.+.|++..+.. |.+...+..+..++...|++++|.+.+.++
T Consensus       243 ~~~~al-~--~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          243 AYAQAE-K--VDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHH-H--HCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHH-H--hCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            999998 3  345    67888999999999999999999999999873 667778999999999999999999988877


Q ss_pred             CC
Q 012365          423 PK  424 (465)
Q Consensus       423 ~~  424 (465)
                      ..
T Consensus       319 ~~  320 (474)
T 4abn_A          319 KP  320 (474)
T ss_dssp             CH
T ss_pred             cC
Confidence            53

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.41  E-value=3.3e-11  Score=108.28  Aligned_cols=274  Identities=14%  Similarity=0.025  Sum_probs=168.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT----ASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLI  158 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  158 (465)
                      .+......+...|++++|...|++..+.+ +.+    ...+..+...+...|++++|.+.+++..+..            
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~------------   73 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA------------   73 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh------------
Confidence            34445566777888888888888887653 223    3567788888888999999998888865310            


Q ss_pred             HhhCChhHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHh-c----CCC-CChHHHHHHHHHHHHcCC
Q 012365          159 HNCSNEEDIIKYYEQLKSAGGQ-ITKYVFMALINAYTTCGEFEKARQVVLDA-E----IPV-KSRSEVKSALVSALASHG  231 (465)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~----~~~-~~~~~~~~~l~~~~~~~g  231 (465)
                                      ...+.. ....++..+...+...|++++|.+.+++. .    ... .....++..+...+...|
T Consensus        74 ----------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~  137 (338)
T 3ro2_A           74 ----------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKG  137 (338)
T ss_dssp             ----------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------hcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcC
Confidence                            000000 12345666778888889999998888762 1    111 111224677778888888


Q ss_pred             C--------------------hhHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC--
Q 012365          232 R--------------------TSDAIIVYEEIKEA----GCNL-EPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW--  284 (465)
Q Consensus       232 ~--------------------~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~--  284 (465)
                      +                    +++|.+.+.+....    +..| ....+..+...+...|++++|...+++..+....  
T Consensus       138 ~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~  217 (338)
T 3ro2_A          138 KSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFG  217 (338)
T ss_dssp             HTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHT
T ss_pred             cccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcC
Confidence            8                    77777777765432    1111 1223445555555566666665555544321000  


Q ss_pred             -----ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhc---C
Q 012365          285 -----MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDEL---G  356 (465)
Q Consensus       285 -----~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~---~  356 (465)
                           ...+..+...+...                                        |++++|...+++.....   +
T Consensus       218 ~~~~~~~~~~~l~~~~~~~----------------------------------------g~~~~A~~~~~~al~~~~~~~  257 (338)
T 3ro2_A          218 DKAAERRAYSNLGNAYIFL----------------------------------------GEFETASEYYKKTLLLARQLK  257 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHH----------------------------------------TCHHHHHHHHHHHHHHHHHTT
T ss_pred             ChHHHHHHHHHHHHHHHHc----------------------------------------CCHHHHHHHHHHHHHHHHhhc
Confidence                 00111222222222                                        66666666666655111   1


Q ss_pred             CCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CCC-CChhHHHHHHHHHHhcCChhhHHHHHhccCCC
Q 012365          357 LPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENA----GLP-YNVLSYLWMYKAFLASGNRKSASKLLSKMPKD  425 (465)
Q Consensus       357 ~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  425 (465)
                      ..+ ...++..+...+...|++++|...+++..+.    +.+ ....++..+...|.+.|++++|...+++..+.
T Consensus       258 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          258 DRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             chhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            111 1456777888899999999999999998754    111 11347888999999999999999999987654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.40  E-value=6.9e-12  Score=116.49  Aligned_cols=277  Identities=14%  Similarity=0.014  Sum_probs=175.3

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTA----SMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLI  158 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  158 (465)
                      .+..+...+...|++++|...|++..+.+ +.+.    ..|..+...|...|++++|.+.|++..+..            
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------------  116 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLA------------  116 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH------------
Confidence            44456667788899999999999888764 2333    467888888889999999999988875420            


Q ss_pred             HhhCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhc-C-----CCCChHHHHHHHHHHHHcCC
Q 012365          159 HNCSNEEDIIKYYEQLKSAGG-QITKYVFMALINAYTTCGEFEKARQVVLDAE-I-----PVKSRSEVKSALVSALASHG  231 (465)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~-----~~~~~~~~~~~l~~~~~~~g  231 (465)
                                      ...+. .....++..+...|...|++++|.+.+++.. .     .......++..+...|...|
T Consensus       117 ----------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g  180 (411)
T 4a1s_A          117 ----------------KSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKG  180 (411)
T ss_dssp             ----------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------HHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcC
Confidence                            00000 1123456667778888889888888887621 1     11222334777788888888


Q ss_pred             C-----------------hhHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-cc--
Q 012365          232 R-----------------TSDAIIVYEEIKEA----GCNL-EPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MD--  286 (465)
Q Consensus       232 ~-----------------~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~--  286 (465)
                      +                 +++|++.+.+..+.    +-.+ ...++..+...+...|++++|...+++..+.... .+  
T Consensus       181 ~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  260 (411)
T 4a1s_A          181 KHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRA  260 (411)
T ss_dssp             HHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             cccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcH
Confidence            8                 77777777765432    1111 1234555556666666666666666554331100 00  


Q ss_pred             ----chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhc---CCC-
Q 012365          287 ----GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDEL---GLP-  358 (465)
Q Consensus       287 ----~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~---~~~-  358 (465)
                          .+..+...+...                                        |++++|...+++.....   +.. 
T Consensus       261 ~~~~~~~~la~~~~~~----------------------------------------g~~~~A~~~~~~al~~~~~~~~~~  300 (411)
T 4a1s_A          261 AERRANSNLGNSHIFL----------------------------------------GQFEDAAEHYKRTLALAVELGERE  300 (411)
T ss_dssp             HHHHHHHHHHHHHHTT----------------------------------------TCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHC----------------------------------------cCHHHHHHHHHHHHHHHHHcCCHH
Confidence                122222223333                                        66666666665554111   111 


Q ss_pred             CcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CC-CCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          359 PSRKCLDFLLGACVNARDLKRAHLIWKEYENA----GL-PYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       359 p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      ....++..+...+...|++++|...+++..+.    +. .....++..+...|.+.|++++|.+++++..+....
T Consensus       301 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  375 (411)
T 4a1s_A          301 VEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXX  375 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhh
Confidence            12456778888999999999999999998764    11 112347888999999999999999999998765543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.39  E-value=4.8e-11  Score=106.05  Aligned_cols=211  Identities=8%  Similarity=-0.016  Sum_probs=126.7

Q ss_pred             hHHHHHHHHHHHc-CCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-cc-chhhHhhHhhhcCChhHHHHHHH
Q 012365          234 SDAIIVYEEIKEA-GCNL-EPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MD-GCCRLILHCVRFKQLSSATDLLK  309 (465)
Q Consensus       234 ~~a~~~~~~m~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~a~~~~~  309 (465)
                      ++|..+|++.... .  | +...|..+...+.+.|++++|..+|++..+..+. +. .+..++..+.+.|++++|..+|+
T Consensus        81 ~~A~~~~~rAl~~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  158 (308)
T 2ond_A           81 DEAANIYERAISTLL--KKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHTTTT--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--cccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            6666666666652 2  3 3345556666666666666666666666554332 22 34455555556666777777776


Q ss_pred             HHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHH
Q 012365          310 QLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYEN  389 (465)
Q Consensus       310 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~  389 (465)
                      +..+..+.....+...   ....  ....|++++|..+|++.. +.. +-+...|..++..+.+.|++++|+.+|++..+
T Consensus       159 ~a~~~~p~~~~~~~~~---a~~~--~~~~~~~~~A~~~~~~al-~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~  231 (308)
T 2ond_A          159 KAREDARTRHHVYVTA---ALME--YYCSKDKSVAFKIFELGL-KKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT  231 (308)
T ss_dssp             HHHTSTTCCTHHHHHH---HHHH--HHTSCCHHHHHHHHHHHH-HHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHhcCCCCHHHHHHH---HHHH--HHHcCCHHHHHHHHHHHH-HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6665332222222111   1110  001378888888888877 221 12566777888888888899999999998888


Q ss_pred             cC-CCC--ChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHH--HHHHHhhccccchhhhcCCCCCcchhh
Q 012365          390 AG-LPY--NVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFV--IQACKQTYTIPSLQKERGFEKDRDTLL  459 (465)
Q Consensus       390 ~g-~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~--l~~~~~~~~~~~~~~~~~~~pd~~t~~  459 (465)
                      .. ++|  ....|..++..+.+.|+.++|..+++++.+..|.....  +..+.      .+.+-.+..|+....+
T Consensus       232 ~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~~~~~~~~~~~~------~r~~~l~~~P~~~~~l  300 (308)
T 2ond_A          232 SGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYEGKETALLV------DRYKFMDLYPCSASEL  300 (308)
T ss_dssp             SSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTSSCHHHHHH------TTTCBTTBCSSCHHHH
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccccccchHHHHH------HHHHhcccCCCCHHHH
Confidence            52 455  35578888888888899999998888887766632111  12221      2233355677766655

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.38  E-value=3.9e-11  Score=111.07  Aligned_cols=277  Identities=13%  Similarity=0.035  Sum_probs=196.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365          113 MPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD-SQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALIN  191 (465)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  191 (465)
                      .+....+......+...|++++|...|++..+.+  |+ ...                            -..++..+..
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~----------------------------~~~~~~~l~~   55 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKT----------------------------LSAIYSQLGN   55 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHH----------------------------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHH----------------------------HHHHHHHHHH
Confidence            4556677778888999999999999999987642  22 110                            1245667778


Q ss_pred             HHHhcCCHHHHHHHHHHh-----cCC-CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC-CCC----HHHHHHHHH
Q 012365          192 AYTTCGEFEKARQVVLDA-----EIP-VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGC-NLE----PRAVIALIE  260 (465)
Q Consensus       192 ~~~~~g~~~~a~~~~~~~-----~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~~~~ll~  260 (465)
                      .+...|++++|...+++.     ... ......++..+...|...|++++|...+.+..+... .++    ..++..+..
T Consensus        56 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  135 (406)
T 3sf4_A           56 AYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGN  135 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHH
Confidence            889999999999998762     111 122233578889999999999999999998765420 012    346778888


Q ss_pred             HHHccCc--------------------HHHHHHHHHHHcCC----CCC---ccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          261 HLNSEGE--------------------LNRLIQLLEEVHDP----DYW---MDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       261 ~~~~~g~--------------------~~~a~~~~~~~~~~----~~~---~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      .+...|+                    +++|...+++..+.    +..   ...+..+...+...|++++|...+++...
T Consensus       136 ~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  215 (406)
T 3sf4_A          136 VYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLL  215 (406)
T ss_dssp             HHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHH
T ss_pred             HHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            8999999                    99999988876432    111   22456777788899999999999998876


Q ss_pred             ccc--ch---hHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc----HHHHHHHHHHhHhhhhhhHHHHHH
Q 012365          314 KFK--DD---EMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS----RKCLDFLLGACVNARDLKRAHLIW  384 (465)
Q Consensus       314 ~~~--~~---~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~----~~~~~~ll~~~~~~g~~~~A~~~~  384 (465)
                      ...  ++   .......+..++..     .|++++|...+++......-.++    ..++..+...+...|++++|...+
T Consensus       216 ~~~~~~~~~~~~~~~~~la~~~~~-----~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  290 (406)
T 3sf4_A          216 IAKEFGDKAAERRAYSNLGNAYIF-----LGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYH  290 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH-----TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHHH-----cCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHH
Confidence            311  11   11122222222222     49999999999987721111111    457778888999999999999999


Q ss_pred             HHHHHc----CCCC-ChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          385 KEYENA----GLPY-NVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       385 ~~m~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      ++..+.    +.++ ...++..+...|...|++++|.+.+++..+
T Consensus       291 ~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          291 LKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            998764    1111 145788899999999999999999999775

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.37  E-value=6e-10  Score=98.94  Aligned_cols=234  Identities=12%  Similarity=0.105  Sum_probs=159.9

Q ss_pred             HHHHHHHHHHHhcc----cCH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cCCH-------HHHHHH
Q 012365           11 SASYKKLITYSCDL----LKV----HVALDVVEQMVQGELVPSTETINSILHACEE-------SYEF-------NLVRRI   68 (465)
Q Consensus        11 ~~~y~~li~~~~~~----g~~----~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~-------~~~~-------~~a~~~   68 (465)
                      ...|...+..-.+.    ++.    ++|..+|++..+.. +-+...|..+...+..       .|++       ++|..+
T Consensus         8 ~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~   86 (308)
T 2ond_A            8 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANI   86 (308)
T ss_dssp             HHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHH
Confidence            45677777765443    243    78999999998853 3477888888777653       5775       899999


Q ss_pred             HHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC-HH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 012365           69 YPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT-AS-MYNAIMAGYFRKKDVQGALMVLKEMEQAN  146 (465)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~  146 (465)
                      |++..+.-.+-+...|..+...+.+.|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|++..+..
T Consensus        87 ~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  164 (308)
T 2ond_A           87 YERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA  164 (308)
T ss_dssp             HHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            999998322456779999999999999999999999999875  454 43 89999999999999999999999988643


Q ss_pred             CCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHH
Q 012365          147 VKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINA-YTTCGEFEKARQVVLDA-EIPVKSRSEVKSALV  224 (465)
Q Consensus       147 ~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~  224 (465)
                      - ++...|.                                ..... +...|+.++|.++|++. ...+.. ...|..++
T Consensus       165 p-~~~~~~~--------------------------------~~a~~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~~~  210 (308)
T 2ond_A          165 R-TRHHVYV--------------------------------TAALMEYYCSKDKSVAFKIFELGLKKYGDI-PEYVLAYI  210 (308)
T ss_dssp             T-CCTHHHH--------------------------------HHHHHHHHTSCCHHHHHHHHHHHHHHHTTC-HHHHHHHH
T ss_pred             C-CCHHHHH--------------------------------HHHHHHHHHcCCHHHHHHHHHHHHHhCCCc-HHHHHHHH
Confidence            1 1111111                                11111 11246777777777652 222222 23466677


Q ss_pred             HHHHcCCChhHHHHHHHHHHHcC-CCC--CHHHHHHHHHHHHccCcHHHHHHHHHHHcCC
Q 012365          225 SALASHGRTSDAIIVYEEIKEAG-CNL--EPRAVIALIEHLNSEGELNRLIQLLEEVHDP  281 (465)
Q Consensus       225 ~~~~~~g~~~~a~~~~~~m~~~~-~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  281 (465)
                      ..+.+.|++++|..+|++..... +.|  ....|..++....+.|+.+.|..+++.+.+.
T Consensus       211 ~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          211 DYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            77777777777777777776652 334  2445666666666677777777777766543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.36  E-value=2.4e-11  Score=109.19  Aligned_cols=273  Identities=12%  Similarity=0.017  Sum_probs=183.0

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC-CCHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPS----TETINSILHACEESYEFNLVRRIYPMICHH----NLK-PNSE   82 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~   82 (465)
                      ..+......+...|++++|+..|++..+.... +    ...+..+...+...|++++|.+.+++..+.    +.. ....
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            34555666778899999999999999876432 3    356778888889999999999998887642    211 2255


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCC--------------------HHHHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNL-MPT----ASMYNAIMAGYFRKKD--------------------VQGALM  137 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~--------------------~~~a~~  137 (465)
                      ++..+...+...|++++|...+++.....- .++    ..++..+...+...|+                    +++|.+
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            778888889999999999999888654210 122    3367778888888888                    777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhc-C----
Q 012365          138 VLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGG-QITKYVFMALINAYTTCGEFEKARQVVLDAE-I----  211 (465)
Q Consensus       138 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~----  211 (465)
                      .+++....                            ....+. .....++..+...+...|++++|.+.+++.. .    
T Consensus       165 ~~~~a~~~----------------------------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~  216 (338)
T 3ro2_A          165 LYEENLSL----------------------------VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEF  216 (338)
T ss_dssp             HHHHHHHH----------------------------HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH----------------------------HHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhc
Confidence            76664321                            001110 1123456677788888999999998887621 1    


Q ss_pred             -CCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-
Q 012365          212 -PVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCN-LE----PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-  284 (465)
Q Consensus       212 -~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-  284 (465)
                       .......++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+.... 
T Consensus       217 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  296 (338)
T 3ro2_A          217 GDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  296 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhc
Confidence             11111224777888888999999999988887653210 11    445667777888888888888888776542111 


Q ss_pred             ------ccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          285 ------MDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       285 ------~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                            ...+..+...+...|++++|...+++..+
T Consensus       297 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          297 KDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence                  12344555666677777777777776655

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.36  E-value=2.8e-10  Score=92.68  Aligned_cols=164  Identities=13%  Similarity=0.060  Sum_probs=135.7

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      -++..|..+-..|.+.|++++|++.|++..+..+. +..++..+..++...|++++|...+....... +.+...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            36778999999999999999999999999886543 78888889999999999999999999988765 45678888888


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDII  168 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  168 (465)
                      ..+...++++.|...+++..... +.+...+..+...+.+.|++++|++.|++..+.  .|                   
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~--~p-------------------  138 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISI--KP-------------------  138 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT-------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHh--cc-------------------
Confidence            88999999999999999887765 567888899999999999999999999887753  12                   


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          169 KYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                                  .+..++..+..+|.+.|++++|.+.|++
T Consensus       139 ------------~~~~~~~~lg~~~~~~g~~~~A~~~~~~  166 (184)
T 3vtx_A          139 ------------GFIRAYQSIGLAYEGKGLRDEAVKYFKK  166 (184)
T ss_dssp             ------------TCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------------hhhhHHHHHHHHHHHCCCHHHHHHHHHH
Confidence                        2455667777778888888888888876

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.36  E-value=2e-10  Score=93.53  Aligned_cols=167  Identities=17%  Similarity=0.157  Sum_probs=116.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...|..+...+...|++++|.+.|++..+.. +-+..++..+..+|.+.|++++|...++...... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            55677777777777778888877777777664 4467777777777777777777777777776554 445666666677


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQ  204 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  204 (465)
                      .+...++++.|.+.+.+..+.  .                               +.+...+..+...+.+.|++++|++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~--~-------------------------------~~~~~~~~~lg~~~~~~g~~~~A~~  128 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIAL--N-------------------------------TVYADAYYKLGLVYDSMGEHDKAIE  128 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--C-------------------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--C-------------------------------ccchHHHHHHHHHHHHhCCchhHHH
Confidence            777777777777777665542  1                               2244556666777788888888888


Q ss_pred             HHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC
Q 012365          205 VVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       205 ~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  247 (465)
                      .|++ ....+... .+|..+...|...|++++|++.|++..+..
T Consensus       129 ~~~~~l~~~p~~~-~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  171 (184)
T 3vtx_A          129 AYEKTISIKPGFI-RAYQSIGLAYEGKGLRDEAVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHCTTCH-HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcchhh-hHHHHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence            8876 33333333 347777888888888888888888877643

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.33  E-value=7.6e-11  Score=111.25  Aligned_cols=212  Identities=12%  Similarity=0.066  Sum_probs=145.1

Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCH-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 012365           61 EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDF-DSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVL  139 (465)
Q Consensus        61 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  139 (465)
                      .++++.+.++...... +.+...+..+...+...|++ ++|...|++..+.. +.+...|..+...|...|++++|.+.|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3556666666555443 34666777777777777777 77777777766554 345667777777777777777777777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHhhCCh---------hHHH---HHHHHHHHcCCCCCHHHHHHHHHHHHhc--------CCH
Q 012365          140 KEMEQANVKPDSQTFSYLIHNCSNE---------EDII---KYYEQLKSAGGQITKYVFMALINAYTTC--------GEF  199 (465)
Q Consensus       140 ~~m~~~~~~p~~~~~~~ll~~~~~~---------~~~~---~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~  199 (465)
                      ++..+.  .|+...+..+-..+...         ++..   ..++...+.. +-+...+..+..+|...        |++
T Consensus       161 ~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            777654  35555555555555444         4433   3444444443 33577888888888888        999


Q ss_pred             HHHHHHHHHh-cCCCC--ChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 012365          200 EKARQVVLDA-EIPVK--SRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLE  276 (465)
Q Consensus       200 ~~a~~~~~~~-~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  276 (465)
                      ++|.+.|++. ...+.  .....|..+...|...|++++|.+.|++..+... -+...+..+..++...|++++|.+.+.
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999883 33331  3444588999999999999999999999988762 246677788888888888888877554


Q ss_pred             HH
Q 012365          277 EV  278 (465)
Q Consensus       277 ~~  278 (465)
                      .+
T Consensus       317 ~~  318 (474)
T 4abn_A          317 KT  318 (474)
T ss_dssp             TC
T ss_pred             cc
Confidence            43

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.30  E-value=1.4e-10  Score=106.48  Aligned_cols=229  Identities=10%  Similarity=-0.079  Sum_probs=159.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhcC-----CCCC-hHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC-CCC-----HHHHH
Q 012365          189 LINAYTTCGEFEKARQVVLDAEI-----PVKS-RSEVKSALVSALASHGRTSDAIIVYEEIKEAGC-NLE-----PRAVI  256 (465)
Q Consensus       189 l~~~~~~~g~~~~a~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~p~-----~~~~~  256 (465)
                      ....+...|++++|.+.|++...     +..+ ...++..+...|...|++++|...+.+..+.-. .++     ..++.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            45667889999999999987322     1111 233588889999999999999999998765411 111     34677


Q ss_pred             HHHHHHHccCcHHHHHHHHHHHcCCCCC-------ccchhhHhhHhhhcCChhHHHHHHHHHHH-----cccchhHHHHH
Q 012365          257 ALIEHLNSEGELNRLIQLLEEVHDPDYW-------MDGCCRLILHCVRFKQLSSATDLLKQLKD-----KFKDDEMAMEY  324 (465)
Q Consensus       257 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  324 (465)
                      .+...|...|++++|...+++..+....       ...+..+...|...|++++|...|++...     ...|.......
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            7888899999999999999877643211       12566788888899999999999998877     23233333333


Q ss_pred             HHHHHHHhhhcCCCCchhhhHHhHHHHHhhc---CCCCcHHHHHHHHHHhHhhhh---hhHHHHHHHHHHHcCCCCChhH
Q 012365          325 HFSEIFCQIATTDPPDVQIGLDLLQFIKDEL---GLPPSRKCLDFLLGACVNARD---LKRAHLIWKEYENAGLPYNVLS  398 (465)
Q Consensus       325 ~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~---~~~p~~~~~~~ll~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~  398 (465)
                      .+...+..     .|++++|...+++.....   +-......+..+...+...|+   +++|..++++...  .+.....
T Consensus       269 ~l~~~~~~-----~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~--~~~~~~~  341 (383)
T 3ulq_A          269 LITQIHYK-----LGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML--YADLEDF  341 (383)
T ss_dssp             HHHHHHHH-----TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC--HHHHHHH
T ss_pred             HHHHHHHH-----CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC--HHHHHHH
Confidence            34433333     499999999998877211   111122335667777888888   7777777766521  2333447


Q ss_pred             HHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          399 YLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       399 ~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      +..+...|...|++++|..++++..+
T Consensus       342 ~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          342 AIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88899999999999999999987653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.29  E-value=1.2e-09  Score=100.21  Aligned_cols=301  Identities=9%  Similarity=0.023  Sum_probs=184.8

Q ss_pred             hcccCHHHHHHHHHHHHhC--CCCCCH--HHHHHHHHH--HHhcCCHHHHH-----------HHHHHHhhCCCCCCHHH-
Q 012365           22 CDLLKVHVALDVVEQMVQG--ELVPST--ETINSILHA--CEESYEFNLVR-----------RIYPMICHHNLKPNSET-   83 (465)
Q Consensus        22 ~~~g~~~~A~~~~~~m~~~--~~~p~~--~~~~~ll~~--~~~~~~~~~a~-----------~~~~~~~~~~~~~~~~~-   83 (465)
                      .+.+++++|..+++++.+.  .+..|.  ..|-.++..  ..-.++++.+.           +.++.+....  .+... 
T Consensus        23 i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~~  100 (383)
T 3ulq_A           23 IRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTGL  100 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHHH
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchhH
Confidence            4589999999999998653  232343  333444433  11223444444           6666665432  11121 


Q ss_pred             -----HHHHHHHHhccCCHHHHHHHHHHHHHcC-CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 012365           84 -----FRSMISLNVKIKDFDSAYSLLDDLKEMN-LMP----TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQT  153 (465)
Q Consensus        84 -----~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  153 (465)
                           +......+...|++++|...|++....- -.+    ...+|..+...|...|++++|.+.+++..+.-       
T Consensus       101 l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-------  173 (383)
T 3ulq_A          101 LEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIY-------  173 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-------
Confidence                 1225556778899999999999886531 012    24678888999999999999999998876420       


Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-c----CC-CCChHHHHHHHHH
Q 012365          154 FSYLIHNCSNEEDIIKYYEQLKSAGG--QITKYVFMALINAYTTCGEFEKARQVVLDA-E----IP-VKSRSEVKSALVS  225 (465)
Q Consensus       154 ~~~ll~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~----~~-~~~~~~~~~~l~~  225 (465)
                                           .+.+.  .....+++.+...|...|++++|.+.|++. .    .+ ......++..+..
T Consensus       174 ---------------------~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  232 (383)
T 3ulq_A          174 ---------------------KEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGL  232 (383)
T ss_dssp             ---------------------HTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---------------------HhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence                                 00000  012346677788899999999999988762 1    11 1112224778888


Q ss_pred             HHHcCCChhHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCC
Q 012365          226 ALASHGRTSDAIIVYEEIKEA----GC-NLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQ  300 (465)
Q Consensus       226 ~~~~~g~~~~a~~~~~~m~~~----~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  300 (465)
                      .|...|++++|.+.+++..+.    +. +....++..+...+.+.|++++|...+++..+.                   
T Consensus       233 ~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-------------------  293 (383)
T 3ulq_A          233 CKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAY-------------------  293 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-------------------
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-------------------
Confidence            899999999999998887662    22 223556667777777777777777776655321                   


Q ss_pred             hhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCc---hhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhh
Q 012365          301 LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPD---VQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARD  376 (465)
Q Consensus       301 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~---~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~  376 (465)
                             ....   ..+........+..++..     .|+   +++|+.++++..    ..| ....+..+...|...|+
T Consensus       294 -------~~~~---~~~~~~~~~~~l~~~~~~-----~~~~~~~~~al~~~~~~~----~~~~~~~~~~~la~~y~~~g~  354 (383)
T 3ulq_A          294 -------SQKA---GDVIYLSEFEFLKSLYLS-----GPDEEAIQGFFDFLESKM----LYADLEDFAIDVAKYYHERKN  354 (383)
T ss_dssp             -------HHHH---TCHHHHHHHHHHHHHHTS-----SCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHHHHHTTC
T ss_pred             -------HHHc---CCHHHHHHHHHHHHHHhC-----CCcHHHHHHHHHHHHHCc----CHHHHHHHHHHHHHHHHHCCC
Confidence                   0000   011111111112222221     355   666777766553    333 33466778888999999


Q ss_pred             hhHHHHHHHHHHHc
Q 012365          377 LKRAHLIWKEYENA  390 (465)
Q Consensus       377 ~~~A~~~~~~m~~~  390 (465)
                      +++|...+++..+.
T Consensus       355 ~~~A~~~~~~al~~  368 (383)
T 3ulq_A          355 FQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999988753

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.29  E-value=3.9e-11  Score=106.61  Aligned_cols=210  Identities=13%  Similarity=0.067  Sum_probs=121.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhcC--------CCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc------CC
Q 012365          183 KYVFMALINAYTTCGEFEKARQVVLDAEI--------PVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA------GC  248 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~------~~  248 (465)
                      ..++..+...+...|++++|..+|++...        .......++..+...|...|++++|...+++....      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            35566666667777777777777765211        22222334666666667777777777776666543      11


Q ss_pred             CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHH
Q 012365          249 NL-EPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFS  327 (465)
Q Consensus       249 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  327 (465)
                      .| ...++..+...+...|++++|...+++..+.                          .........+........+.
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--------------------------~~~~~~~~~~~~~~~~~~la  160 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEI--------------------------REKVLGKDHPDVAKQLNNLA  160 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--------------------------HHHHHCTTCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--------------------------HHHhcCCCChHHHHHHHHHH
Confidence            11 1334445555555555555555555544321                          00000000111111222222


Q ss_pred             HHHHhhhcCCCCchhhhHHhHHHHHhhc------CCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----------
Q 012365          328 EIFCQIATTDPPDVQIGLDLLQFIKDEL------GLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENA----------  390 (465)
Q Consensus       328 ~~~~~~~~~~~~~~~~A~~~~~~m~~~~------~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----------  390 (465)
                      .++..     .|++++|+..+++.. ..      +..| ...++..+...+...|++++|...++++.+.          
T Consensus       161 ~~~~~-----~~~~~~A~~~~~~a~-~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  234 (311)
T 3nf1_A          161 LLCQN-----QGKYEEVEYYYQRAL-EIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVD  234 (311)
T ss_dssp             HHHHT-----TTCHHHHHHHHHHHH-HHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHH-----cCCHHHHHHHHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            22222     477788887777776 32      2233 3346777888888889999999888888753          


Q ss_pred             --------------------------------------CCCCChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          391 --------------------------------------GLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       391 --------------------------------------g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                                                            ..+.+..++..+..+|.+.|++++|.+++++.++
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          235 DENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ---CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                                                  1233455788888999999999999999987654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.27  E-value=1.3e-10  Score=103.25  Aligned_cols=245  Identities=10%  Similarity=0.041  Sum_probs=163.7

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC------C
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQG-------ELVPSTETINSILHACEESYEFNLVRRIYPMICHH------N   76 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~-------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~   76 (465)
                      +..++..+...+...|++++|+.+|+++.+.       ..+.....+..+...+...|++++|...++...+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4678889999999999999999999998763       23334567888888999999999999999998764      2


Q ss_pred             C-CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 012365           77 L-KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM------NL-MPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK  148 (465)
Q Consensus        77 ~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  148 (465)
                      - +....++..+...|...|++++|...|++..+.      +- +.....+..+...+...|++++|.+.|++..+.-  
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--  183 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY--  183 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH--
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--
Confidence            1 234568888999999999999999999988754      21 2235668888899999999999999999886420  


Q ss_pred             CCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcC----------CCCChH-
Q 012365          149 PDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEI----------PVKSRS-  217 (465)
Q Consensus       149 p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----------~~~~~~-  217 (465)
                                             +.......+....++..+...+...|++++|.+.+++...          .+.... 
T Consensus       184 -----------------------~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  240 (311)
T 3nf1_A          184 -----------------------QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPI  240 (311)
T ss_dssp             -----------------------HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCH
T ss_pred             -----------------------HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHH
Confidence                                   0000000011234566777888889999999888876211          111110 


Q ss_pred             ----HHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcC
Q 012365          218 ----EVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHD  280 (465)
Q Consensus       218 ----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  280 (465)
                          ..+..+...+...+.+.++...+....... ..+..++..+..+|.+.|++++|...+++..+
T Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          241 WMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                012333344445566667777777666543 12456677888899999999999999887643

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.24  E-value=1.4e-09  Score=88.32  Aligned_cols=162  Identities=13%  Similarity=0.030  Sum_probs=128.7

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      ...|..+...+...|++++|++.|+.+.+.. +.+...+..+...+...|++++|.+.++.+.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3567777888888999999999998887653 3367788888888889999999999999888764 4578888888888


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKY  170 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~  170 (465)
                      +...|++++|...+++..... +.+...+..+...+...|++++|.+.+++..+..                        
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------------------------  140 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR------------------------  140 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------------
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC------------------------
Confidence            999999999999999887764 5677888888888999999999999988876531                        


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          171 YEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                               +.+..++..+...+...|++++|.+.+++
T Consensus       141 ---------~~~~~~~~~la~~~~~~~~~~~A~~~~~~  169 (186)
T 3as5_A          141 ---------PNEGKVHRAIAFSYEQMGRHEEALPHFKK  169 (186)
T ss_dssp             ---------TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ---------ccchHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                     12345566677777778888888877765

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.23  E-value=2.8e-07  Score=89.62  Aligned_cols=388  Identities=8%  Similarity=0.015  Sum_probs=249.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC---HHHHHHH
Q 012365           27 VHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD---FDSAYSL  103 (465)
Q Consensus        27 ~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~  103 (465)
                      ..+-+..|++.+..+. -|..+|..++..+.+.+.++.+..+|+.+...- +.+...|...+..-.+.++   ++.+..+
T Consensus        48 ~~d~i~~lE~~l~~np-~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~f-P~~~~lW~~Yi~~E~~~~~~~~~~~v~~l  125 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQP-TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRF-PLMANIWCMRLSLEFDKMEELDAAVIEPV  125 (679)
T ss_dssp             CSCHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC--CCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCc-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhhCCcchHHHHHHH
Confidence            3344555666666554 499999999999999999999999999999874 7788899999999888898   9999999


Q ss_pred             HHHHHHcC-CCCCHHHHHHHHHHHHhcCCH--------HHHHHHHHHHHH-CCC-CCC-HHHHHHHHHhhC---------
Q 012365          104 LDDLKEMN-LMPTASMYNAIMAGYFRKKDV--------QGALMVLKEMEQ-ANV-KPD-SQTFSYLIHNCS---------  162 (465)
Q Consensus       104 ~~~m~~~~-~~~~~~~~~~li~~~~~~g~~--------~~a~~~~~~m~~-~~~-~p~-~~~~~~ll~~~~---------  162 (465)
                      |++..... .+|++..|...+....+.++.        +.+.++|+.... .|. .|+ ...|...+.-..         
T Consensus       126 feRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~e  205 (679)
T 4e6h_A          126 LARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFE  205 (679)
T ss_dssp             HHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHH
Confidence            99988653 248999999888766665543        334477777653 566 564 455555554321         


Q ss_pred             ---ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-------------cCCHHHHHHHHHHh-------cCC-CC----
Q 012365          163 ---NEEDIIKYYEQLKSAGGQITKYVFMALINAYTT-------------CGEFEKARQVVLDA-------EIP-VK----  214 (465)
Q Consensus       163 ---~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~g~~~~a~~~~~~~-------~~~-~~----  214 (465)
                         +.+.+..+++............+|......-..             ..+++.|...+.+.       ... +.    
T Consensus       206 eq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~  285 (679)
T 4e6h_A          206 EQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQ  285 (679)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTT
T ss_pred             HHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhcccccccc
Confidence               123345567766643222122333322111111             12234445555431       100 00    


Q ss_pred             ------C--------hHHHHHHHHHHHHcCCC-------hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHH-
Q 012365          215 ------S--------RSEVKSALVSALASHGR-------TSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLI-  272 (465)
Q Consensus       215 ------~--------~~~~~~~l~~~~~~~g~-------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~-  272 (465)
                            |        ....|...+.---..+.       .+.+..+|++..... .-++..|.....-+...|+.++|. 
T Consensus       286 ~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r  364 (679)
T 4e6h_A          286 ATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVIT  364 (679)
T ss_dssp             CCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHH
T ss_pred             chhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHH
Confidence                  0        01235555554433331       234566788877764 236777777778788889988996 


Q ss_pred             HHHHHHcCCCCCc-cchhhHhhHhhhcCChhHHHHHHHHHHHcc----------cch------------hHHHHHHHHHH
Q 012365          273 QLLEEVHDPDYWM-DGCCRLILHCVRFKQLSSATDLLKQLKDKF----------KDD------------EMAMEYHFSEI  329 (465)
Q Consensus       273 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~----------~~~------------~~~~~~~l~~~  329 (465)
                      .+++......+.. ..+...+....+.|+++.|.++|+++....          .|.            ...|...+. +
T Consensus       365 ~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~-~  443 (679)
T 4e6h_A          365 KYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMN-T  443 (679)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHH-H
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHH-H
Confidence            9999887543321 123345555668899999999999988732          121            112322222 2


Q ss_pred             HHhhhcCCCCchhhhHHhHHHHHhhc--CCCCcHHHHHHHHHHhHhh-hhhhHHHHHHHHHHHcCCCCChhHHHHHHHHH
Q 012365          330 FCQIATTDPPDVQIGLDLLQFIKDEL--GLPPSRKCLDFLLGACVNA-RDLKRAHLIWKEYENAGLPYNVLSYLWMYKAF  406 (465)
Q Consensus       330 ~~~~~~~~~~~~~~A~~~~~~m~~~~--~~~p~~~~~~~ll~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  406 (465)
                      ...     .|+.+.|..+|.... +.  ...+......+.+.  .+. ++.+.|..+|+...+. ++.+...|...++..
T Consensus       444 erR-----~~~l~~AR~vf~~A~-~~~~~~~~~lyi~~A~lE--~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe  514 (679)
T 4e6h_A          444 MKR-----IQGLAASRKIFGKCR-RLKKLVTPDIYLENAYIE--YHISKDTKTACKVLELGLKY-FATDGEYINKYLDFL  514 (679)
T ss_dssp             HHH-----HHCHHHHHHHHHHHH-HTGGGSCTHHHHHHHHHH--HTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHH
T ss_pred             HHH-----cCCHHHHHHHHHHHH-HhcCCCChHHHHHHHHHH--HHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHH
Confidence            222     378999999999998 43  22233333333333  233 5599999999999987 677788888999988


Q ss_pred             HhcCChhhHHHHHhccCCCCC
Q 012365          407 LASGNRKSASKLLSKMPKDDP  427 (465)
Q Consensus       407 ~~~g~~~~A~~~~~~m~~~~~  427 (465)
                      ...|+.+.|..+|++.....+
T Consensus       515 ~~~~~~~~AR~lferal~~~~  535 (679)
T 4e6h_A          515 IYVNEESQVKSLFESSIDKIS  535 (679)
T ss_dssp             HHHTCHHHHHHHHHHHTTTSS
T ss_pred             HhCCCHHHHHHHHHHHHHhcC
Confidence            899999999999999998776

>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=99.22  E-value=1.5e-09  Score=88.09  Aligned_cols=165  Identities=15%  Similarity=0.090  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365           47 ETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGY  126 (465)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  126 (465)
                      ..+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...+++..+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345556666777777777777777776553 4466777777777777777777777777776653 44566777777777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 012365          127 FRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVV  206 (465)
Q Consensus       127 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  206 (465)
                      ...|++++|.+.++++.+..                                 +.+...+..+...+...|++++|.+.+
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~---------------------------------~~~~~~~~~~a~~~~~~~~~~~A~~~~  133 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN---------------------------------PINFNVRFRLGVALDNLGRFDEAIDSF  133 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC---------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC---------------------------------cHhHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            77777777777777665421                                 113344555556666666666666666


Q ss_pred             HHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc
Q 012365          207 LDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA  246 (465)
Q Consensus       207 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  246 (465)
                      ++.....+....++..+...+...|++++|...+++..+.
T Consensus       134 ~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          134 KIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6521111222233556666666666666666666665543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.19  E-value=3e-09  Score=97.45  Aligned_cols=33  Identities=21%  Similarity=0.074  Sum_probs=21.8

Q ss_pred             CCCCHHHHHHHHHHH--hcccCHHHHHHHHHHHHh
Q 012365            7 ITPSSASYKKLITYS--CDLLKVHVALDVVEQMVQ   39 (465)
Q Consensus         7 ~~p~~~~y~~li~~~--~~~g~~~~A~~~~~~m~~   39 (465)
                      +.|+..+=+.|-..|  .+.+++++|..+++++.+
T Consensus         6 ~~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~   40 (378)
T 3q15_A            6 AIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQ   40 (378)
T ss_dssp             CBCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHH
Confidence            345556666666666  667777777777777654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.18  E-value=7.8e-08  Score=87.78  Aligned_cols=232  Identities=8%  Similarity=0.024  Sum_probs=145.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHH----HHHHHHHHHhccCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHH
Q 012365           54 HACEESYEFNLVRRIYPMICHHNLKPNSE----TFRSMISLNVKIKDFDSAYSLLDDLKEMNL-MPT----ASMYNAIMA  124 (465)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~  124 (465)
                      ..+...|++++|...+++.....-..+..    +++.+...+...|++++|...+++.....- .++    ..++..+..
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            34556788888888888876654222222    455666777788888888888887653210 112    233566778


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCC--C-CHHHHHHHHHHHHhcCCHHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ--I-TKYVFMALINAYTTCGEFEK  201 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~l~~~~~~~g~~~~  201 (465)
                      .+...|++++|...+++..+.                            ..+.+..  | ....+..+...+...|++++
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~----------------------------~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  153 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQL----------------------------INEQHLEQLPMHEFLVRIRAQLLWAWARLDE  153 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH----------------------------HHHTTCTTSTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH----------------------------HHHhccccCcHHHHHHHHHHHHHHHhcCHHH
Confidence            888999999999999887642                            1111111  1 23455667788899999999


Q ss_pred             HHHHHHHh-cCC----CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC--HHHHH----HHHHHHHccCcHHH
Q 012365          202 ARQVVLDA-EIP----VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLE--PRAVI----ALIEHLNSEGELNR  270 (465)
Q Consensus       202 a~~~~~~~-~~~----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~----~ll~~~~~~g~~~~  270 (465)
                      |...+++. ...    +.....++..+...+...|++++|...+++.......++  .....    .....+...|++++
T Consensus       154 A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  233 (373)
T 1hz4_A          154 AEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAA  233 (373)
T ss_dssp             HHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHH
Confidence            99999872 111    111233577788889999999999999998875421111  12111    23344778999999


Q ss_pred             HHHHHHHHcCCCCCcc-----chhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          271 LIQLLEEVHDPDYWMD-----GCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       271 a~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      |...+++.........     .+..+...+...|++++|...+++...
T Consensus       234 A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          234 AANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999998876442211     112333444555666666666555443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.17  E-value=4.6e-09  Score=96.18  Aligned_cols=229  Identities=11%  Similarity=0.033  Sum_probs=157.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhcCC----CC--ChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC--C---CC-CHHHHH
Q 012365          189 LINAYTTCGEFEKARQVVLDAEIP----VK--SRSEVKSALVSALASHGRTSDAIIVYEEIKEAG--C---NL-EPRAVI  256 (465)
Q Consensus       189 l~~~~~~~g~~~~a~~~~~~~~~~----~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~--~---~p-~~~~~~  256 (465)
                      ....+...|++++|...|++....    +.  ....++..+...|...|+++.|...+.+..+..  .   .+ ...++.
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            345667899999999999873211    11  122357888999999999999999999876531  1   11 144677


Q ss_pred             HHHHHHHccCcHHHHHHHHHHHcCC----CC---CccchhhHhhHhhhcCChhHHHHHHHHHHHc----ccchhHHHHHH
Q 012365          257 ALIEHLNSEGELNRLIQLLEEVHDP----DY---WMDGCCRLILHCVRFKQLSSATDLLKQLKDK----FKDDEMAMEYH  325 (465)
Q Consensus       257 ~ll~~~~~~g~~~~a~~~~~~~~~~----~~---~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~  325 (465)
                      .+..+|...|++++|...+++..+.    +.   ....+..+...|...|++++|+..|++....    ..|........
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            8888999999999999999877542    11   1224567778888999999999999988771    22332333333


Q ss_pred             HHHHHHhhhcCCCCchhhhHHhHHHHHhhcCC--CC-cHHHHHHHHHHhHhhhh---hhHHHHHHHHHHHcCCCCChhHH
Q 012365          326 FSEIFCQIATTDPPDVQIGLDLLQFIKDELGL--PP-SRKCLDFLLGACVNARD---LKRAHLIWKEYENAGLPYNVLSY  399 (465)
Q Consensus       326 l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~--~p-~~~~~~~ll~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~~  399 (465)
                      +...+..     .|++++|...+++......-  .| ....+..+...+...|+   +.+|..++++..  ..+.....+
T Consensus       267 la~~~~~-----~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~--~~~~~~~~~  339 (378)
T 3q15_A          267 LSWTLCK-----AGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN--LHAYIEACA  339 (378)
T ss_dssp             HHHHHHH-----TTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT--CHHHHHHHH
T ss_pred             HHHHHHH-----CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC--ChhHHHHHH
Confidence            3333333     49999999999998832221  12 23345556666767777   777777776621  122333467


Q ss_pred             HHHHHHHHhcCChhhHHHHHhccCC
Q 012365          400 LWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       400 ~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      ..+...|...|++++|...+++..+
T Consensus       340 ~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          340 RSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7889999999999999999988754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.17  E-value=1.3e-08  Score=93.00  Aligned_cols=270  Identities=10%  Similarity=-0.059  Sum_probs=165.3

Q ss_pred             HHHHHHhcccCHHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCCH----HHHHH
Q 012365           16 KLITYSCDLLKVHVALDVVEQMVQGELVPSTE----TINSILHACEESYEFNLVRRIYPMICHHNL-KPNS----ETFRS   86 (465)
Q Consensus        16 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~   86 (465)
                      .....+...|++++|...+++........+..    .++.+...+...|++++|.+.+++..+..- ..+.    .++..
T Consensus        19 ~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   98 (373)
T 1hz4_A           19 LRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   98 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            34445667899999999999988764333332    455666778889999999999998775210 1122    34667


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHc----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012365           87 MISLNVKIKDFDSAYSLLDDLKEM----NLM--P-TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIH  159 (465)
Q Consensus        87 li~~~~~~g~~~~a~~~~~~m~~~----~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  159 (465)
                      +...+...|++++|...+++....    +.+  | ....+..+...+...|++++|...+++..+..-...         
T Consensus        99 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~---------  169 (373)
T 1hz4_A           99 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQ---------  169 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSC---------
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccC---------
Confidence            778889999999999999887543    222  2 234567788889999999999999998875321110         


Q ss_pred             hhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhc---CCCCChHHHHH----HHHHHHHcCCC
Q 012365          160 NCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAE---IPVKSRSEVKS----ALVSALASHGR  232 (465)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~~~----~l~~~~~~~g~  232 (465)
                                         ......++..+...+...|++++|...+++..   ...........    ..+..+...|+
T Consensus       170 -------------------~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  230 (373)
T 1hz4_A          170 -------------------PQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGD  230 (373)
T ss_dssp             -------------------GGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             -------------------cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCC
Confidence                               00112344555666677777777777776521   11111111111    22334567777


Q ss_pred             hhHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHccCcHHHHHHHHHHHcCC----CCC---ccchhhHhhHhhhcCChh
Q 012365          233 TSDAIIVYEEIKEAGCNL---EPRAVIALIEHLNSEGELNRLIQLLEEVHDP----DYW---MDGCCRLILHCVRFKQLS  302 (465)
Q Consensus       233 ~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~---~~~~~~~~~~~~~~~~~~  302 (465)
                      +++|...+.+.......+   ....+..+...+...|++++|...++.....    +..   ...+..+...+...|+.+
T Consensus       231 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  310 (373)
T 1hz4_A          231 KAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKS  310 (373)
T ss_dssp             HHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHH
Confidence            777777776665433111   1223455566677777777777777665431    111   112233444555667777


Q ss_pred             HHHHHHHHHHH
Q 012365          303 SATDLLKQLKD  313 (465)
Q Consensus       303 ~a~~~~~~~~~  313 (465)
                      +|...+++...
T Consensus       311 ~A~~~l~~al~  321 (373)
T 1hz4_A          311 DAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777766554

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.16  E-value=3.6e-09  Score=80.71  Aligned_cols=131  Identities=12%  Similarity=0.151  Sum_probs=115.4

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      ..|..+...+...|++++|+.+|+.+.+... .+...+..+...+...|++++|...++.+.+.+ +.+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            3577888999999999999999999987643 367888888999999999999999999998865 56788899999999


Q ss_pred             hccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365           92 VKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ...|++++|...++++.... +.+...+..+...+...|++++|...|+++.+.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999998765 457888999999999999999999999998764

>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=99.14  E-value=2.2e-09  Score=105.50  Aligned_cols=166  Identities=9%  Similarity=0.079  Sum_probs=138.3

Q ss_pred             CCCC-HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365            7 ITPS-SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus         7 ~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      -.|+ ..+|+.+-..|.+.|++++|++.|++..+.... +..++..+..++.+.|++++|.+.|++..+.. +-+...|.
T Consensus         4 s~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~   81 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYS   81 (723)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            3454 678999999999999999999999999886433 68899999999999999999999999999875 45688999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChh
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEE  165 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  165 (465)
                      .+..+|.+.|++++|.+.|++..+.. +-+...|+.+...|.+.|++++|++.|++..+.  .|+               
T Consensus        82 nLg~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~---------------  143 (723)
T 4gyw_A           82 NMGNTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPD---------------  143 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSC---------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC---------------
Confidence            99999999999999999999998775 557889999999999999999999999998763  233               


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          166 DIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                                      +...+..+..++...|++++|.+.+++
T Consensus       144 ----------------~~~a~~~L~~~l~~~g~~~~A~~~~~k  170 (723)
T 4gyw_A          144 ----------------FPDAYCNLAHCLQIVCDWTDYDERMKK  170 (723)
T ss_dssp             ----------------CHHHHHHHHHHHHHTTCCTTHHHHHHH
T ss_pred             ----------------ChHHHhhhhhHHHhcccHHHHHHHHHH
Confidence                            345566666667777777766666654

>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=99.14  E-value=2.2e-08  Score=84.47  Aligned_cols=134  Identities=8%  Similarity=-0.000  Sum_probs=98.2

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      .|+..|......+.+.|++++|++.|+...+...+++...+..+..++...|++++|.+.++...+.. +.+..++..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            35677777777788888888888888888776544567777777777778888888888888877764 34566777778


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTA-------SMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .+|...|++++|...|++..+.. +.+.       ..|..+...+...|++++|.+.|++..+
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  145 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD  145 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh
Confidence            88888888888888888777653 3344       3466666777777777777777777654

>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=99.14  E-value=3.1e-09  Score=104.54  Aligned_cols=165  Identities=13%  Similarity=0.089  Sum_probs=141.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +..+|+.+..++...|++++|.+.|++..+.. +-+..+|..+..+|.+.|++++|...|++..+.+ +-+...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            46789999999999999999999999999875 4568899999999999999999999999998775 456889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQ  204 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  204 (465)
                      .+.+.|++++|++.|++..+.  .|+                               +...++.+..+|...|++++|++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l--~P~-------------------------------~~~a~~~Lg~~~~~~g~~~eAi~  132 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI--NPA-------------------------------FADAHSNLASIHKDSGNIPEAIA  132 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTT-------------------------------CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCC-------------------------------CHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999988753  222                               56678888999999999999999


Q ss_pred             HHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          205 VVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       205 ~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                      .|++ +...+.... .|..+...|...|++++|.+.+++..+
T Consensus       133 ~~~~Al~l~P~~~~-a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          133 SYRTALKLKPDFPD-AYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHCSCCHH-HHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCCChH-HHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            9998 444444444 589999999999999999999888764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.11  E-value=1.4e-08  Score=87.76  Aligned_cols=190  Identities=14%  Similarity=0.077  Sum_probs=133.5

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC---CccchhhHhhHhhhcCChhHHHHHHHHHH
Q 012365          236 AIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY---WMDGCCRLILHCVRFKQLSSATDLLKQLK  312 (465)
Q Consensus       236 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  312 (465)
                      |+..|++....+ .++..++..+..++...|++++|++++.+....+.   .++.+...+..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            667777766554 35566666777788888888888888888766553   45566677777888899999999998887


Q ss_pred             Hcccc-----hhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHH
Q 012365          313 DKFKD-----DEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEY  387 (465)
Q Consensus       313 ~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m  387 (465)
                      +. .|     +..+...+..+.+....  ..+++.+|..+|+++.   .-.|+..+-..++.++...|++++|.+.++.+
T Consensus       164 ~~-~~d~~~~~d~~l~~Laea~v~l~~--g~~~~q~A~~~f~El~---~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          164 NA-IEDTVSGDNEMILNLAESYIKFAT--NKETATSNFYYYEELS---QTFPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HH-SCHHHHHHHHHHHHHHHHHHHHHH--TCSTTTHHHHHHHHHH---TTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hc-CccccccchHHHHHHHHHHHHHHh--CCccHHHHHHHHHHHH---HhCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            63 23     23333333333222221  1258999999999998   44565444445555889999999999999977


Q ss_pred             HHc-----C----CCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHH
Q 012365          388 ENA-----G----LPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQ  434 (465)
Q Consensus       388 ~~~-----g----~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~  434 (465)
                      .+.     .    -+.|+.++..+|......|+  +|.++++++.+..|..+.++.
T Consensus       238 ~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d  291 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKH  291 (310)
T ss_dssp             HSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHH
T ss_pred             HHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHH
Confidence            653     1    15677788777777777787  899999999998886554443

>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=99.09  E-value=2.3e-08  Score=84.28  Aligned_cols=198  Identities=10%  Similarity=-0.031  Sum_probs=99.2

Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCCh
Q 012365          223 LVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQL  301 (465)
Q Consensus       223 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  301 (465)
                      ....+...|++++|+..|++..+....++...+..+..++...|++++|...++...+..+. +..+..+...+...|++
T Consensus        13 ~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~   92 (228)
T 4i17_A           13 EGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAYRDMKNN   92 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHcccH
Confidence            33334444444444444444443332223333333344444444444444444443332211 22233344444445555


Q ss_pred             hHHHHHHHHHHHcccchhHH------HHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc---HHHHHHHHHHhH
Q 012365          302 SSATDLLKQLKDKFKDDEMA------MEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS---RKCLDFLLGACV  372 (465)
Q Consensus       302 ~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~---~~~~~~ll~~~~  372 (465)
                      ++|+..|++..+..+.+...      ....+...+..     .|++++|+..|++..   ...|+   ...|..+..++.
T Consensus        93 ~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~-----~~~~~~A~~~~~~al---~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           93 QEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQ-----AGNIEKAEENYKHAT---DVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHH-----TTCHHHHHHHHHHHT---TSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHH-----hccHHHHHHHHHHHH---hcCCCcccHHHHHHHHHHHH
Confidence            55555555544422222211      11111222222     489999999999988   56676   456666766776


Q ss_pred             hhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHH
Q 012365          373 NARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQAC  436 (465)
Q Consensus       373 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~  436 (465)
                      ..|+     .+++++...+ +.+...|....  ....+.+++|...+++..+.+|.....+...
T Consensus       165 ~~~~-----~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l  220 (228)
T 4i17_A          165 NNGA-----DVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQ  220 (228)
T ss_dssp             HHHH-----HHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHH-----HHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHH
Confidence            5554     3455555543 44444554443  3356778999999999998888765444433

>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=99.09  E-value=2.2e-09  Score=93.64  Aligned_cols=231  Identities=15%  Similarity=0.069  Sum_probs=136.1

Q ss_pred             hcCCHHHHHHHHHHHhh-------CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc------CC-CCCHHHHHHHH
Q 012365           58 ESYEFNLVRRIYPMICH-------HNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM------NL-MPTASMYNAIM  123 (465)
Q Consensus        58 ~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~-~~~~~~~~~li  123 (465)
                      ..|++++|...+++..+       ...+....++..+...|...|++++|...|++....      +- +....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            34555555555555443       221234567777888888888888888888877643      11 22356788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 012365          124 AGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKAR  203 (465)
Q Consensus       124 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  203 (465)
                      ..+...|++++|.+.|++..+..                         +.......+....++..+...+...|++++|.
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~-------------------------~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  147 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIR-------------------------EKVLGKFHPDVAKQLNNLALLCQNQGKAEEVE  147 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHH-------------------------HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHH-------------------------HHHcCCCChHHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999998876420                         00000001112456677778888889999888


Q ss_pred             HHHHHh-cC------C-CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc-------CCCCCHHH-HHHHHHHHHccC-
Q 012365          204 QVVLDA-EI------P-VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA-------GCNLEPRA-VIALIEHLNSEG-  266 (465)
Q Consensus       204 ~~~~~~-~~------~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~-------~~~p~~~~-~~~ll~~~~~~g-  266 (465)
                      +.+++. ..      + .+....++..+...|...|++++|...+++..+.       ...+.... +..+.......+ 
T Consensus       148 ~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (283)
T 3edt_B          148 YYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDK  227 (283)
T ss_dssp             HHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCc
Confidence            888762 11      1 2223335778888888999999999988887653       11222222 222222222221 


Q ss_pred             -----cHHHHHHHHHHHcCCC-CCccchhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          267 -----ELNRLIQLLEEVHDPD-YWMDGCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       267 -----~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                           .+..+...++...... ..+..+..+...+...|++++|...|++..+
T Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          228 RRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             CCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                 2223333333322211 1123456677778888999999988887764

>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=1.2e-09  Score=95.35  Aligned_cols=176  Identities=11%  Similarity=0.059  Sum_probs=106.2

Q ss_pred             HHHHHHHHHHHHcCCChhHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchh
Q 012365          217 SEVKSALVSALASHGRTSDAIIVYEEIKEA------GCNL-EPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCC  289 (465)
Q Consensus       217 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  289 (465)
                      ..++..+...|...|++++|...+.+..+.      +-.| ...++..+...+...|++++|...+++..+.        
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--------  114 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEI--------  114 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--------
Confidence            334677777777777777777777776544      1112 2334555666666666666666665554321        


Q ss_pred             hHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhc------CCCC-cHH
Q 012365          290 RLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDEL------GLPP-SRK  362 (465)
Q Consensus       290 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~------~~~p-~~~  362 (465)
                                        +++......|........+...+..     .|++++|+..+++.. ..      +..| ...
T Consensus       115 ------------------~~~~~~~~~~~~~~~~~~la~~~~~-----~g~~~~A~~~~~~al-~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B          115 ------------------REKVLGKFHPDVAKQLNNLALLCQN-----QGKAEEVEYYYRRAL-EIYATRLGPDDPNVAK  170 (283)
T ss_dssp             ------------------HHHHHCTTCHHHHHHHHHHHHHHHT-----TTCHHHHHHHHHHHH-HHHHHHSCTTCHHHHH
T ss_pred             ------------------HHHHcCCCChHHHHHHHHHHHHHHH-----cCCHHHHHHHHHHHH-HHHHHhcCCCCHHHHH
Confidence                              1111000012222222222222222     377777777777766 32      2233 345


Q ss_pred             HHHHHHHHhHhhhhhhHHHHHHHHHHHc------------------------------------------------CCCC
Q 012365          363 CLDFLLGACVNARDLKRAHLIWKEYENA------------------------------------------------GLPY  394 (465)
Q Consensus       363 ~~~~ll~~~~~~g~~~~A~~~~~~m~~~------------------------------------------------g~~p  394 (465)
                      ++..+...+...|++++|...+++..+.                                                ..+.
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            6777888888999999999998888753                                                1123


Q ss_pred             ChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          395 NVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       395 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      ...++..+...|...|++++|.+++++.++
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            344788888899999999999999988654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.00  E-value=8.3e-08  Score=82.92  Aligned_cols=173  Identities=10%  Similarity=0.051  Sum_probs=101.7

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      +.+++...|++...         ....|....+..+...+ ..+    +...+++..+.+ .++..++..+..++...|+
T Consensus        51 ~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~  115 (310)
T 3mv2_B           51 KAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NIEELENLLKDK-QNSPYELYLLATAQAILGD  115 (310)
T ss_dssp             HHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            44666666666531         12334443444333332 322    677777776665 5566666677788888888


Q ss_pred             HHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----CHHHHHHHHHhh-------CC
Q 012365           97 FDSAYSLLDDLKEMNL-MPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKP-----DSQTFSYLIHNC-------SN  163 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-----~~~~~~~ll~~~-------~~  163 (465)
                      +++|.+++.+....|- .-+...+..++..+.+.|+.+.|.+.+++|.+.  .|     +..+...+..++       .+
T Consensus       116 ~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~  193 (310)
T 3mv2_B          116 LDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKET  193 (310)
T ss_dssp             HHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCST
T ss_pred             HHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCcc
Confidence            8888888888765541 135667778888888888888888888888764  45     234433333331       13


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          164 EEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                      ..++..+|+++.+.  .|+......++.++.+.|++++|++.++.
T Consensus       194 ~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~  236 (310)
T 3mv2_B          194 ATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVEL  236 (310)
T ss_dssp             TTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHH
Confidence            33444455554332  22322233333356666666666666654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.96  E-value=1.1e-07  Score=81.89  Aligned_cols=99  Identities=11%  Similarity=0.051  Sum_probs=67.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhcC-CCCC--hHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC-CCC-HHHHH
Q 012365          182 TKYVFMALINAYTTCGEFEKARQVVLDAEI-PVKS--RSEVKSALVSALASHGRTSDAIIVYEEIKEAGC-NLE-PRAVI  256 (465)
Q Consensus       182 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~p~-~~~~~  256 (465)
                      +...+..+...+.+.|++++|...|++... .+..  ....+..+..+|...|++++|+..|++..+... .|. ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            456666677788888899999988887432 2222  133477788888888999999988888887642 112 34555


Q ss_pred             HHHHHHHc--------cCcHHHHHHHHHHHcC
Q 012365          257 ALIEHLNS--------EGELNRLIQLLEEVHD  280 (465)
Q Consensus       257 ~ll~~~~~--------~g~~~~a~~~~~~~~~  280 (465)
                      .+..++..        .|++++|...|+++.+
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  125 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFID  125 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHH
Confidence            66666666        6777777777776654

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.94  E-value=6.2e-08  Score=73.68  Aligned_cols=59  Identities=15%  Similarity=0.254  Sum_probs=28.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365           84 FRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus        84 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                      +..+...+...|++++|..+|+++...+ +.+...+..+...+...|++++|...|+++.
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~   62 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL   62 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            3344444455555555555555544432 2344444445555555555555555555443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.92  E-value=3.8e-08  Score=86.49  Aligned_cols=206  Identities=11%  Similarity=-0.048  Sum_probs=123.3

Q ss_pred             HHHHcCCChhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-------ccchhhHh
Q 012365          225 SALASHGRTSDAIIVYEEIKEA----GCNLE-PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-------MDGCCRLI  292 (465)
Q Consensus       225 ~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-------~~~~~~~~  292 (465)
                      ..|...|++++|...|.+..+.    |-.++ ..+|..+..+|.+.|++++|...+++..+....       ...+..+.
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3455566666666666655432    21111 345566666666666666666666655432110       12344566


Q ss_pred             hHhhhc-CChhHHHHHHHHHHHcccch----h-HHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCC-CcH----
Q 012365          293 LHCVRF-KQLSSATDLLKQLKDKFKDD----E-MAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLP-PSR----  361 (465)
Q Consensus       293 ~~~~~~-~~~~~a~~~~~~~~~~~~~~----~-~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~-p~~----  361 (465)
                      ..|... |++++|+..|++..+..+..    . ......+..++..     .|++++|+..|++.. ..... +..    
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~-----~g~~~~A~~~~~~al-~~~~~~~~~~~~~  198 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKAL-----DGQYIEASDIYSKLI-KSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-----TTCHHHHHHHHHHHH-HTTSSCTTTGGGH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHH-----hCCHHHHHHHHHHHH-HHHhcCCcccHHH
Confidence            666664 88888888888776632111    0 1112222223333     489999999999988 33222 221    


Q ss_pred             -HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChh------HHHHHHHHHH--hcCChhhHHHHHhccCCCCCChhHH
Q 012365          362 -KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVL------SYLWMYKAFL--ASGNRKSASKLLSKMPKDDPHVRFV  432 (465)
Q Consensus       362 -~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~------~~~~l~~~~~--~~g~~~~A~~~~~~m~~~~~~~~~~  432 (465)
                       ..|..+..++...|++++|...|++..+.  .|+..      .+..++.+|.  ..+++++|.+.|+++...+|....+
T Consensus       199 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~  276 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITI  276 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHH
Confidence             25677777888999999999999998864  33322      3455666665  4578999999999999988876555


Q ss_pred             HHHHHh
Q 012365          433 IQACKQ  438 (465)
Q Consensus       433 l~~~~~  438 (465)
                      +.-...
T Consensus       277 ~~~~k~  282 (292)
T 1qqe_A          277 LNKIKE  282 (292)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            544333

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.88  E-value=7.5e-08  Score=83.06  Aligned_cols=183  Identities=10%  Similarity=0.043  Sum_probs=119.5

Q ss_pred             HHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC----ccchhh
Q 012365          219 VKSALVSALASHGRTSDAIIVYEEIKEAGCNLE----PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW----MDGCCR  290 (465)
Q Consensus       219 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~  290 (465)
                      .+..+...+...|++++|+..|+++.+..  |+    ...+..+..++.+.|++++|...|+...+..+.    +..+..
T Consensus        17 ~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           17 EAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            35667777888888888888888888765  33    556677778888888888888888887654321    234445


Q ss_pred             HhhHhhh--------cCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHH
Q 012365          291 LILHCVR--------FKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRK  362 (465)
Q Consensus       291 ~~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~  362 (465)
                      +...+..        .|++++|+..|+++....+.+.......                    ..+.... .    --..
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~--------------------~~~~~~~-~----~~~~  149 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDAT--------------------QKIRELR-A----KLAR  149 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHH--------------------HHHHHHH-H----HHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHH--------------------HHHHHHH-H----HHHH
Confidence            5555556        6777777777777766433222222211                    1111111 0    0011


Q ss_pred             HHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCC---ChhHHHHHHHHHHhc----------CChhhHHHHHhccCCCCCCh
Q 012365          363 CLDFLLGACVNARDLKRAHLIWKEYENAGLPY---NVLSYLWMYKAFLAS----------GNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       363 ~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~~~~~  429 (465)
                      .+..+...|...|++++|...|+++.+.. |.   ....+..+..+|...          |++++|...++++.+..|..
T Consensus       150 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~  228 (261)
T 3qky_A          150 KQYEAARLYERRELYEAAAVTYEAVFDAY-PDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDS  228 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCC
Confidence            23456677888899999999999988752 22   234677788888766          88899999999988877754

>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=98.88  E-value=6e-08  Score=95.72  Aligned_cols=174  Identities=11%  Similarity=-0.047  Sum_probs=106.9

Q ss_pred             hcccCHHHHHHHHHHHH--------hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc
Q 012365           22 CDLLKVHVALDVVEQMV--------QGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVK   93 (465)
Q Consensus        22 ~~~g~~~~A~~~~~~m~--------~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~   93 (465)
                      ...|++++|++.|++..        +.. +.+...+..+..++...|++++|.+.|+++.+.. +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            55677777777777766        322 2245566666666677777777777777766654 3456666666677777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHH
Q 012365           94 IKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQ  173 (465)
Q Consensus        94 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~  173 (465)
                      .|++++|...|++..+.. +-+...|..+..++.+.|++++ .+.|++..+.+                           
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~---------------------------  530 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN---------------------------  530 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC---------------------------
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC---------------------------
Confidence            777777777777766554 3455666666667777777766 66666655421                           


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCC
Q 012365          174 LKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGR  232 (465)
Q Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  232 (465)
                            +-+...+..+..++.+.|++++|.+.|++.....+.....|..+..++...++
T Consensus       531 ------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          531 ------DGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             ------TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             ------CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHccCC
Confidence                  12455666777777788888888888876333333333346666666655444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.87  E-value=8.4e-08  Score=84.24  Aligned_cols=207  Identities=7%  Similarity=-0.082  Sum_probs=114.2

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC---CC--CHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQG----ELVPS-TETINSILHACEESYEFNLVRRIYPMICHHNL---KP--NSE   82 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~   82 (465)
                      .|+.....|...|++++|++.|++..+.    |-+++ ..+|+.+..++...|++++|...+++..+...   .+  -..
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4566666666667777777777665432    22111 34666666667777777777776666654210   11  134


Q ss_pred             HHHHHHHHHhcc-CCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 012365           83 TFRSMISLNVKI-KDFDSAYSLLDDLKEMNL-MPT----ASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSY  156 (465)
Q Consensus        83 ~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  156 (465)
                      +++.+..+|... |++++|...|++.....- ..+    ..+|+.+...+.+.|++++|+..|++..+.........+  
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~--  196 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQW--  196 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGG--
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccH--
Confidence            566666666664 777777777766543210 001    235666666777777777777777766653211100000  


Q ss_pred             HHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHH----HHHHHHHHHH--c
Q 012365          157 LIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSE----VKSALVSALA--S  229 (465)
Q Consensus       157 ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~----~~~~l~~~~~--~  229 (465)
                                              .....+..+..++...|++++|...|++. ...+.....    .+..++.++.  .
T Consensus       197 ------------------------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~  252 (292)
T 1qqe_A          197 ------------------------SLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGD  252 (292)
T ss_dssp             ------------------------GHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTC
T ss_pred             ------------------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCC
Confidence                                    00124566677788899999999999873 222221111    2344555554  3


Q ss_pred             CCChhHHHHHHHHHHH
Q 012365          230 HGRTSDAIIVYEEIKE  245 (465)
Q Consensus       230 ~g~~~~a~~~~~~m~~  245 (465)
                      .+++++|+..|+.+..
T Consensus       253 ~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          253 SEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             TTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHhccCCc
Confidence            4567777777766543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.87  E-value=3.2e-06  Score=79.72  Aligned_cols=371  Identities=9%  Similarity=-0.060  Sum_probs=184.5

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHhh-CCC-CCCHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYE-FNLVRRIYPMICH-HNL-KPNSETFRSM   87 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~-~~~-~~~~~~~~~l   87 (465)
                      ...|...+..+-. |+++.+..+|++....  .|+...|...+.-..+.++ .+.+..+|+.... .|. ..+...|...
T Consensus        15 R~vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Y   91 (493)
T 2uy1_A           15 SAIMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEY   91 (493)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence            4556666665544 6677777777777663  3577777766666555542 3445666666554 232 2356666666


Q ss_pred             HHHHhc----cCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh
Q 012365           88 ISLNVK----IKDFDSAYSLLDDLKEMNLMPT--ASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC  161 (465)
Q Consensus        88 i~~~~~----~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  161 (465)
                      +..+..    .++.+.+.++|++....  |+.  ...|...... .+..+...+.+++.+...                 
T Consensus        92 i~f~~~~~~~~~~~~~vR~iy~rAL~~--P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~~~~~~-----------------  151 (493)
T 2uy1_A           92 IEEEGKIEDEQTRIEKIRNGYMRALQT--PMGSLSELWKDFENF-ELELNKITGKKIVGDTLP-----------------  151 (493)
T ss_dssp             HHHTSSCSSHHHHHHHHHHHHHHHHTS--CCTTHHHHHHHHHHH-HHHHCHHHHHHHHHHHHH-----------------
T ss_pred             HHHHHhchhhhHHHHHHHHHHHHHHhC--hhhhHHHHHHHHHHH-HHHhccccHHHHHHHHhH-----------------
Confidence            665432    35566677777777652  221  1122222111 111122222222222110                 


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-------CHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChh
Q 012365          162 SNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCG-------EFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTS  234 (465)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-------~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  234 (465)
                       ....+..+++.+...-...+...|...+..-...+       ..+.+..+|++.-...+.....|...+.-+.+.|+++
T Consensus       152 -~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~  230 (493)
T 2uy1_A          152 -IFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKE  230 (493)
T ss_dssp             -HHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHH
T ss_pred             -HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHH
Confidence             00001111111111000012233433333322110       0234555666522211222334777777777788888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC-----C-C----ccchhhHhhHhhhcCChhHH
Q 012365          235 DAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD-----Y-W----MDGCCRLILHCVRFKQLSSA  304 (465)
Q Consensus       235 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~-~----~~~~~~~~~~~~~~~~~~~a  304 (465)
                      .|..++.+....   |....+......+.+.+..  ...+.+......     . .    ...+...+....+.+..+.|
T Consensus       231 ~ar~i~erAi~~---P~~~~l~~~y~~~~e~~~~--~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~A  305 (493)
T 2uy1_A          231 KAKKVVERGIEM---SDGMFLSLYYGLVMDEEAV--YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELF  305 (493)
T ss_dssp             HHHHHHHHHHHH---CCSSHHHHHHHHHTTCTHH--HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHH
T ss_pred             HHHHHHHHHHhC---CCcHHHHHHHHhhcchhHH--HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHH
Confidence            888888888776   3333222211111111111  111111111000     0 0    01222333334456778899


Q ss_pred             HHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHH
Q 012365          305 TDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIW  384 (465)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~  384 (465)
                      ..+|++. .........|...  +.+....   .++.+.|..+|+......+-  ++..|...++-....|+.+.|+.+|
T Consensus       306 R~i~~~A-~~~~~~~~v~i~~--A~lE~~~---~~d~~~ar~ife~al~~~~~--~~~~~~~yid~e~~~~~~~~aR~l~  377 (493)
T 2uy1_A          306 RKLFIEL-GNEGVGPHVFIYC--AFIEYYA---TGSRATPYNIFSSGLLKHPD--STLLKEEFFLFLLRIGDEENARALF  377 (493)
T ss_dssp             HHHHHHH-TTSCCCHHHHHHH--HHHHHHH---HCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHh-hCCCCChHHHHHH--HHHHHHH---CCChHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999888 3111111112110  1111110   14689999999998833322  3445666777777889999999999


Q ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          385 KEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       385 ~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      +.+.     .....|...+..-...|+.+.+.++++++.
T Consensus       378 er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          378 KRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9872     356778888877777899999988888765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.84  E-value=7.9e-08  Score=80.82  Aligned_cols=183  Identities=10%  Similarity=-0.018  Sum_probs=119.2

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCC-CC-HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCcc----chhhHhh
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCN-LE-PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMD----GCCRLIL  293 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~~  293 (465)
                      +..+...+...|++++|+..|+++.+.... |. ...+..+..++.+.|++++|...|+.+.+..+...    .+..+..
T Consensus         7 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~   86 (225)
T 2yhc_A            7 IYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGL   86 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHH
Confidence            555677788889999999999988876522 11 34666777888888888888888888765433211    2222222


Q ss_pred             HhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHH-HH--------
Q 012365          294 HCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRK-CL--------  364 (465)
Q Consensus       294 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~-~~--------  364 (465)
                      .+...+..     .+....            .+..     ...+.|+.++|+..|+++.   ...|+.. .+        
T Consensus        87 ~~~~~~~~-----~~~~~~------------~~~~-----~~~~~~~~~~A~~~~~~~l---~~~P~~~~a~~a~~~l~~  141 (225)
T 2yhc_A           87 TNMALDDS-----ALQGFF------------GVDR-----SDRDPQQARAAFSDFSKLV---RGYPNSQYTTDATKRLVF  141 (225)
T ss_dssp             HHHHHHC------------------------------------CCHHHHHHHHHHHHHH---TTCTTCTTHHHHHHHHHH
T ss_pred             HHHhhhhh-----hhhhhh------------ccch-----hhcCcHHHHHHHHHHHHHH---HHCcCChhHHHHHHHHHH
Confidence            33222110     000000            0000     1113588999999999988   3344322 11        


Q ss_pred             ---------HHHHHHhHhhhhhhHHHHHHHHHHHcCCCCCh---hHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          365 ---------DFLLGACVNARDLKRAHLIWKEYENAGLPYNV---LSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       365 ---------~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                               ..+...+.+.|++++|...|+++.+. .|.+.   ..+..+..+|.+.|++++|.+.++++...+|.
T Consensus       142 ~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~-~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          142 LKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRD-YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH-CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence                     23455678899999999999999986 23333   46888999999999999999999988876663

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.82  E-value=4.2e-07  Score=75.27  Aligned_cols=60  Identities=15%  Similarity=0.164  Sum_probs=46.8

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365           85 RSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        85 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ..+..+|.+.|++++|...|++..+.. |.+...|..+...+...|++++|...|++..+.
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  117 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL  117 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            347777888888888888888877765 456778888888888888888888888887763

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.79  E-value=1.2e-07  Score=78.48  Aligned_cols=180  Identities=14%  Similarity=0.056  Sum_probs=103.2

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhc
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPR-AVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRF  298 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (465)
                      +......+...|++++|+..|++..+..  |+.. .+.. . ..  .....             ..+.....+...+.+.
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~-~-~~--~~~~~-------------~~~~~~~~lg~~~~~~   67 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYW-T-NV--DKNSE-------------ISSKLATELALAYKKN   67 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHH-H-HS--CTTSH-------------HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHH-h-hh--cchhh-------------hhHHHHHHHHHHHHHC
Confidence            3445567778999999999999988865  5432 2222 0 00  00000             0011122345556677


Q ss_pred             CChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhh-
Q 012365          299 KQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARD-  376 (465)
Q Consensus       299 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~-  376 (465)
                      |++++|+..|++..+..+.+...+..+-..++..      |++++|+..|++..   .+.| +...|..+..++...|+ 
T Consensus        68 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~------g~~~~A~~~~~~al---~~~P~~~~a~~~lg~~~~~~~~~  138 (208)
T 3urz_A           68 RNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCR------GQEKDALRMYEKIL---QLEADNLAANIFLGNYYYLTAEQ  138 (208)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH------TCHHHHHHHHHHHH---HHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHc------CCHHHHHHHHHHHH---HcCCCCHHHHHHHHHHHHHHhHH
Confidence            7777777777777664444444444443333333      77778887777777   2344 45566667666655543 


Q ss_pred             -hhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          377 -LKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       377 -~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                       ...+...++....  .+|....+..+..++...|++++|...|++.++.+|..
T Consensus       139 ~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          139 EKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence             3344555555432  22333344455666777888888888888888887764

>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=98.74  E-value=1.6e-07  Score=92.62  Aligned_cols=166  Identities=12%  Similarity=0.016  Sum_probs=116.7

Q ss_pred             HccCcHHHHHHHHHHHc--------CCC-CCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhh
Q 012365          263 NSEGELNRLIQLLEEVH--------DPD-YWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQI  333 (465)
Q Consensus       263 ~~~g~~~~a~~~~~~~~--------~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  333 (465)
                      ...|++++|.+.+++..        +.. .....+..+...+...|++++|+..|++..+..+.+...++.+-..++.. 
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~-  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT-  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc-
Confidence            56677777777777765        222 22345556666677778888888888777775444444444444433333 


Q ss_pred             hcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh
Q 012365          334 ATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNR  412 (465)
Q Consensus       334 ~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  412 (465)
                           |++++|+..|++..   ...| +...|..+..++...|++++ .+.|++..+.+ |.+...|..+..+|.+.|++
T Consensus       481 -----g~~~~A~~~~~~al---~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~  550 (681)
T 2pzi_A          481 -----GDYDSATKHFTEVL---DTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDR  550 (681)
T ss_dssp             -----TCHHHHHHHHHHHH---HHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             -----CCHHHHHHHHHHHH---HhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCH
Confidence                 88888888888877   3344 45667778888888899988 88888888863 66777888888889999999


Q ss_pred             hhHHHHHhccCCCCCChhHHHHHHHhh
Q 012365          413 KSASKLLSKMPKDDPHVRFVIQACKQT  439 (465)
Q Consensus       413 ~~A~~~~~~m~~~~~~~~~~l~~~~~~  439 (465)
                      ++|.+.+++.++.+|.+.......+..
T Consensus       551 ~~A~~~~~~al~l~P~~~~a~~~~~~~  577 (681)
T 2pzi_A          551 VGAVRTLDEVPPTSRHFTTARLTSAVT  577 (681)
T ss_dssp             HHHHHHHHTSCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccCcccHHHHHHHHHH
Confidence            999999999988888765544444444

>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=98.74  E-value=2.5e-08  Score=77.85  Aligned_cols=91  Identities=11%  Similarity=0.028  Sum_probs=62.6

Q ss_pred             CchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHH
Q 012365          339 PDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASK  417 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~  417 (465)
                      |++++|++.|++..   .+.| +...|..+..++...|++++|...|++..+.. |.+..+|..+...|.+.|++++|.+
T Consensus        45 ~~~~~A~~~~~~al---~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~  120 (150)
T 4ga2_A           45 KEYDLAKKYICTYI---NVQERDPKAHRFLGLLYELEENTDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAK  120 (150)
T ss_dssp             TCHHHHHHHHHHHH---HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHH
T ss_pred             CCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHH
Confidence            66666666666666   2334 45667777777788888888888888887763 5566777778888888888776555


Q ss_pred             H-HhccCCCCCChhHHH
Q 012365          418 L-LSKMPKDDPHVRFVI  433 (465)
Q Consensus       418 ~-~~~m~~~~~~~~~~l  433 (465)
                      . +++..+.+|....+.
T Consensus       121 ~~~~~al~l~P~~~~~~  137 (150)
T 4ga2_A          121 YWVERAAKLFPGSPAVY  137 (150)
T ss_dssp             HHHHHHHHHSTTCHHHH
T ss_pred             HHHHHHHHhCcCCHHHH
Confidence            4 577777776554443

>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=98.73  E-value=6.5e-07  Score=74.32  Aligned_cols=128  Identities=13%  Similarity=0.011  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      ..+..+...+...|++++|++.|++.    +.|+...+..+..++...|++++|.+.++...+.. +.+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            44566777888999999999999876    36688999999999999999999999999998875 56788999999999


Q ss_pred             hccCCHHHHHHHHHHHHHcCCCCCH----------------HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365           92 VKIKDFDSAYSLLDDLKEMNLMPTA----------------SMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~~~~~~~~----------------~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ...|++++|...|++..+.. +.+.                ..+..+...+.+.|++++|.+.|++..+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            99999999999999998753 2222                78889999999999999999999999865

>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=98.73  E-value=2.8e-06  Score=70.48  Aligned_cols=178  Identities=11%  Similarity=0.050  Sum_probs=129.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccC----CHHHHHHH
Q 012365           28 HVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIK----DFDSAYSL  103 (465)
Q Consensus        28 ~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g----~~~~a~~~  103 (465)
                      .+|++.|++..+.|   +...+..+...+...+++++|.+.|+...+.|   ++..+..|-..|.. +    ++++|...
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            35777888887765   67788888888888899999999999988876   67777788888877 6    89999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCC
Q 012365          104 LDDLKEMNLMPTASMYNAIMAGYFR----KKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGG  179 (465)
Q Consensus       104 ~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  179 (465)
                      |++..+.|   +...+..|...|..    .+++++|++.|++..+.|...                              
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~------------------------------  122 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESD------------------------------  122 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSH------------------------------
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCc------------------------------
Confidence            99887754   67778888888876    788888888888876653210                              


Q ss_pred             CCCHHHHHHHHHHHHh----cCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcC-C-----ChhHHHHHHHHHHHcCC
Q 012365          180 QITKYVFMALINAYTT----CGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASH-G-----RTSDAIIVYEEIKEAGC  248 (465)
Q Consensus       180 ~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~m~~~~~  248 (465)
                       .++..+..|...|..    .++.++|...|++. ..+..+.  .+..|...|... |     ++++|..+|+...+.|.
T Consensus       123 -~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~--a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          123 -AAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGY--AEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             -HHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTH--HHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             -chHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHH--HHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence             013445555556665    67889999999873 3322222  356666666543 3     78899999998888873

>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=98.72  E-value=3.9e-07  Score=88.26  Aligned_cols=119  Identities=8%  Similarity=-0.111  Sum_probs=87.8

Q ss_pred             ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 012365           24 LLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSL  103 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  103 (465)
                      .|++++|++.|++..+... -+...+..+...+...|++++|.+.+++..+.. +.+...+..+..+|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP-QDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4788999999999877543 367888889999999999999999999998875 55688999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365          104 LDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       104 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      |++..+.. +.+...|..+...+.+.|++++|.+.|++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  120 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL  120 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99988765 556788999999999999999999999998764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.72  E-value=3.4e-07  Score=80.03  Aligned_cols=94  Identities=6%  Similarity=0.013  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-HH
Q 012365           47 ETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIM-AG  125 (465)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~  125 (465)
                      ..+..+...+...|++++|...|++..+.. +-+...+..+...+.+.|++++|...+++.....  |+........ ..
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~~  194 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHHH
Confidence            334444444555555555555555554443 2344455555555555555555555555544332  3322222111 12


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 012365          126 YFRKKDVQGALMVLKEME  143 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~  143 (465)
                      +...++.++|...|++..
T Consensus       195 l~~~~~~~~a~~~l~~al  212 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQV  212 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHH
T ss_pred             HHhhcccCccHHHHHHHH
Confidence            334444455555554444

>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=98.72  E-value=1.2e-07  Score=73.95  Aligned_cols=124  Identities=10%  Similarity=0.023  Sum_probs=100.1

Q ss_pred             HHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCH
Q 012365           18 ITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDF   97 (465)
Q Consensus        18 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~   97 (465)
                      -..+...|++++|++.++....... -+...+..+...|...|++++|.+.|++..+.. +-+..+|..+..+|.+.|++
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~p-~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSPR-QKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSHH-HHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcChHHHHHHHHHHhcccCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            3456678999999999998765421 134455668888999999999999999999876 56789999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH-HHHHHH
Q 012365           98 DSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMV-LKEMEQ  144 (465)
Q Consensus        98 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~-~~~m~~  144 (465)
                      ++|...|++..+.+ |-+...|..+...|.+.|+.++|.+. +++..+
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            99999999998875 55688999999999999998876655 576665

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.71  E-value=3.5e-07  Score=80.01  Aligned_cols=162  Identities=12%  Similarity=0.116  Sum_probs=100.1

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012365           78 KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYL  157 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  157 (465)
                      +.+...+..+...+.+.|++++|...|++..... |-+...+..+...+...|++++|...+++....  .|+.......
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            4456777788888999999999999999998765 557888999999999999999999999987653  3554322221


Q ss_pred             HHh----hCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCC-hHHHHHHHHHHHHcCC
Q 012365          158 IHN----CSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKS-RSEVKSALVSALASHG  231 (465)
Q Consensus       158 l~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~-~~~~~~~l~~~~~~~g  231 (465)
                      ...    ..+...+...++...+.. +.+...+..+...+...|++++|.+.|++. ...+.. ....+..++..+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            111    112222333444444433 224555555556666666666666666552 222211 1223555555565566


Q ss_pred             ChhHHHHHHHHH
Q 012365          232 RTSDAIIVYEEI  243 (465)
Q Consensus       232 ~~~~a~~~~~~m  243 (465)
                      +.++|...+++.
T Consensus       270 ~~~~a~~~~r~a  281 (287)
T 3qou_A          270 TGDALASXYRRQ  281 (287)
T ss_dssp             TTCHHHHHHHHH
T ss_pred             CCCcHHHHHHHH
Confidence            655555555543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.71  E-value=3.2e-06  Score=70.85  Aligned_cols=187  Identities=11%  Similarity=-0.015  Sum_probs=114.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhc-CCCCC--hHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCH--HHHH
Q 012365          182 TKYVFMALINAYTTCGEFEKARQVVLDAE-IPVKS--RSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEP--RAVI  256 (465)
Q Consensus       182 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~  256 (465)
                      +...+..+...+.+.|++++|...|++.. ..+..  ....+..+..+|...|++++|+..|+++.+.......  ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            34455666778899999999999999832 22222  2234777889999999999999999999887622111  2333


Q ss_pred             HHHHHHHc------------------cCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccch
Q 012365          257 ALIEHLNS------------------EGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDD  318 (465)
Q Consensus       257 ~ll~~~~~------------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  318 (465)
                      .+..++..                  .|+.++|...|+++.+..+...             ....+......+..    .
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~-------------~a~~a~~~l~~~~~----~  145 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQ-------------YTTDATKRLVFLKD----R  145 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCT-------------THHHHHHHHHHHHH----H
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCCh-------------hHHHHHHHHHHHHH----H
Confidence            34444433                  4667777777777765432211             01111111111111    0


Q ss_pred             hHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc
Q 012365          319 EMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENA  390 (465)
Q Consensus       319 ~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~  390 (465)
                      .......+..++..     .|++++|+..|+++.+...-.| ....+..+..++.+.|+.++|.+.++.+...
T Consensus       146 ~~~~~~~~a~~~~~-----~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          146 LAKYEYSVAEYYTE-----RGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHHHHHHHHHH-----HTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHH-----cCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            00000111112222     3999999999999982222222 1256778889999999999999999998876

>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=7.7e-07  Score=70.44  Aligned_cols=130  Identities=8%  Similarity=-0.022  Sum_probs=105.8

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      ...|..+...+...|++++|...|+...+... .+...+..+..++...|++++|...++...+.. +.+...+..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            45677788888899999999999999887643 367888888889999999999999999988865 5578889999999


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH--HHHHHhcCCHHHHHHHHHHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAI--MAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l--i~~~~~~g~~~~a~~~~~~m~  143 (465)
                      +...|++++|...|++..... +.+...+..+  ...+.+.|++++|.+.+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            999999999999999988764 3455555443  344778899999999888764

>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=1e-05  Score=70.60  Aligned_cols=222  Identities=8%  Similarity=-0.060  Sum_probs=137.7

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH----hcc
Q 012365           21 SCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY--EFNLVRRIYPMICHHNLKPNSETFRSMISLN----VKI   94 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----~~~   94 (465)
                      ..+....++|+++++.+....+. +...|+.--.++...+  +++++++.++.+...+ +-+..+|+.--..+    ...
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           43 MKAEEYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhc
Confidence            33344457899999999886543 5667777777777778  8999999999998865 44566666554444    444


Q ss_pred             ---CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH--HHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHH
Q 012365           95 ---KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQ--GALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK  169 (465)
Q Consensus        95 ---g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~--~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  169 (465)
                         ++++++..+++.+.+.. +.+..+|+.-.-.+.+.|.++  ++++.++++.+.+. -|...++              
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~--------------  184 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWS--------------  184 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHH--------------
T ss_pred             cccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHH--------------
Confidence               78889999999988776 678888888887778888887  88888888876432 1222222              


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCC------HHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhH-HHHHHH
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTTCGE------FEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSD-AIIVYE  241 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~  241 (465)
                                        --...+...+.      ++++++.+++ +...+.+.. .|+-+-..+.+.|+... +..+..
T Consensus       185 ------------------~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~S-aW~y~~~ll~~~~~~~~~~~~~~~  245 (306)
T 3dra_A          185 ------------------HRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPS-TWNYLLGIHERFDRSITQLEEFSL  245 (306)
T ss_dssp             ------------------HHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHH-HHHHHHHHHHHTTCCGGGGHHHHH
T ss_pred             ------------------HHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCcc-HHHHHHHHHHhcCCChHHHHHHHH
Confidence                              21112222222      4555555554 233333333 36666666666665433 334444


Q ss_pred             HHHHcC--CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHc
Q 012365          242 EIKEAG--CNLEPRAVIALIEHLNSEGELNRLIQLLEEVH  279 (465)
Q Consensus       242 ~m~~~~--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  279 (465)
                      ++...+  -..++..+..+..++.+.|+.++|.++++.+.
T Consensus       246 ~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~  285 (306)
T 3dra_A          246 QFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLK  285 (306)
T ss_dssp             TTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            443322  12345556666666666666666666666554

>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=8.1e-07  Score=66.26  Aligned_cols=114  Identities=11%  Similarity=0.091  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      ...|..+...+...|++++|++.|+++.+.. +.+..++..+...+...|++++|..+++.+.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4566667777777777777777777776643 2356666667777777777777777777776654 4456666777777


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYF  127 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  127 (465)
                      +...|++++|...|++..... +.+...+..+...+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            777777777777777766543 334444444444443

>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=98.67  E-value=5.8e-07  Score=87.00  Aligned_cols=153  Identities=8%  Similarity=0.014  Sum_probs=105.5

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 012365           59 SYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMV  138 (465)
Q Consensus        59 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  138 (465)
                      .|++++|.+.+++..+.. +.+...+..+...+.+.|++++|...|++..+.. +.+...|..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478889999999887764 4568899999999999999999999999998765 55688899999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChH
Q 012365          139 LKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRS  217 (465)
Q Consensus       139 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~  217 (465)
                      |++..+..  |+                               +...+..+..++.+.|++++|.+.|++ ....+.. .
T Consensus        80 ~~~al~~~--p~-------------------------------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~-~  125 (568)
T 2vsy_A           80 LQQASDAA--PE-------------------------------HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEE-P  125 (568)
T ss_dssp             HHHHHHHC--TT-------------------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-H
T ss_pred             HHHHHhcC--CC-------------------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC-H
Confidence            99887631  22                               455666777778888888888888877 3333333 3


Q ss_pred             HHHHHHHHHHHcC---CChhHHHHHHHHHHHcC
Q 012365          218 EVKSALVSALASH---GRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       218 ~~~~~l~~~~~~~---g~~~~a~~~~~~m~~~~  247 (465)
                      ..+..+...+...   |++++|.+.+++..+.+
T Consensus       126 ~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A          126 YITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            3477778888888   88888888888887765

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.67  E-value=5.9e-05  Score=71.06  Aligned_cols=339  Identities=11%  Similarity=0.027  Sum_probs=189.7

Q ss_pred             CCCCHHHHHHHHHHHhcccC-HHHHHHHHHHHHhC-CC-CCCHHHHHHHHHHHH----hcCCHHHHHHHHHHHhhCCCCC
Q 012365            7 ITPSSASYKKLITYSCDLLK-VHVALDVVEQMVQG-EL-VPSTETINSILHACE----ESYEFNLVRRIYPMICHHNLKP   79 (465)
Q Consensus         7 ~~p~~~~y~~li~~~~~~g~-~~~A~~~~~~m~~~-~~-~p~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~   79 (465)
                      ..|++..|...+....+.++ .+....+|+..... |. .++...|...+..+.    ..++.+.+.++|+..++.....
T Consensus        43 ~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~  122 (493)
T 2uy1_A           43 KSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGS  122 (493)
T ss_dssp             TCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTT
T ss_pred             cCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhh
Confidence            35899999999998888774 46678888887653 43 336677777776543    3467899999999999843211


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012365           80 NSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIH  159 (465)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  159 (465)
                      -...|...... -.......+..++.+..                     +.+..|..+++++...--..+...|...+.
T Consensus       123 ~~~lw~~Y~~f-E~~~~~~~~~~~~~~~~---------------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~  180 (493)
T 2uy1_A          123 LSELWKDFENF-ELELNKITGKKIVGDTL---------------------PIFQSSFQRYQQIQPLIRGWSVKNAARLID  180 (493)
T ss_dssp             HHHHHHHHHHH-HHHHCHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHHhccccHHHHHHHHh---------------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence            12233322221 11122223333332211                     112223333332221000001122222222


Q ss_pred             hh-CC---------hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHH
Q 012365          160 NC-SN---------EEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALA  228 (465)
Q Consensus       160 ~~-~~---------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~  228 (465)
                      -- ..         ...+..+++...... +.+...|...+..+.+.|+.+.|.+++++ ... |.... .|.    .|.
T Consensus       181 ~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~-l~~----~y~  253 (493)
T 2uy1_A          181 LEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMF-LSL----YYG  253 (493)
T ss_dssp             HHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSH-HHH----HHH
T ss_pred             HHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHH-HHH----HHH
Confidence            11 10         123455777776654 44578888888888999999999999998 333 33322 232    222


Q ss_pred             cCCChhHHHHHHHHHHHcC---------CCC---CHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHh-hHh
Q 012365          229 SHGRTSDAIIVYEEIKEAG---------CNL---EPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLI-LHC  295 (465)
Q Consensus       229 ~~g~~~~a~~~~~~m~~~~---------~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~  295 (465)
                      .....++.   ++.+.+.-         ..+   ....|...+....+.+..+.|..+|+.....+.....+.... .-+
T Consensus       254 ~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~  330 (493)
T 2uy1_A          254 LVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEY  330 (493)
T ss_dssp             HHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHH
T ss_pred             hhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHH
Confidence            21122222   33332221         011   123455666666677889999999999932222122222111 112


Q ss_pred             hhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhh
Q 012365          296 VRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNAR  375 (465)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g  375 (465)
                      ...++.+.|..+|+...+..+.....+...+. ....     .|+.+.|..+|+...      .....|...+.--...|
T Consensus       331 ~~~~d~~~ar~ife~al~~~~~~~~~~~~yid-~e~~-----~~~~~~aR~l~er~~------k~~~lw~~~~~fE~~~G  398 (493)
T 2uy1_A          331 YATGSRATPYNIFSSGLLKHPDSTLLKEEFFL-FLLR-----IGDEENARALFKRLE------KTSRMWDSMIEYEFMVG  398 (493)
T ss_dssp             HHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHH-HHHH-----HTCHHHHHHHHHHSC------CBHHHHHHHHHHHHHHS
T ss_pred             HHCCChHHHHHHHHHHHHHCCCCHHHHHHHHH-HHHH-----cCCHHHHHHHHHHHH------HHHHHHHHHHHHHHHCC
Confidence            23447999999999988854332222333333 2222     388999999999875      25678888888777889


Q ss_pred             hhhHHHHHHHHHHH
Q 012365          376 DLKRAHLIWKEYEN  389 (465)
Q Consensus       376 ~~~~A~~~~~~m~~  389 (465)
                      +.+.+..++++..+
T Consensus       399 ~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          399 SMELFRELVDQKMD  412 (493)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999988875

>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=98.67  E-value=3.2e-07  Score=73.68  Aligned_cols=160  Identities=11%  Similarity=0.032  Sum_probs=115.2

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH-Hh
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL-NV   92 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~   92 (465)
                      +......+.+.|++++|+..|++..+... -+...+..+..++...|++++|...++...+..  |+...+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            44566778889999999999998876432 367788889999999999999999999887654  355544333222 22


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHH
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYE  172 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~  172 (465)
                      ..+....|...|++..+.. |.+...+..+...+...|++++|...|+++.+..  |+                      
T Consensus        86 ~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~--p~----------------------  140 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVN--LG----------------------  140 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TT----------------------
T ss_pred             hhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC--cc----------------------
Confidence            3233445788888887764 4568899999999999999999999999988653  22                      


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          173 QLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       173 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                             ..+...+..+...+...|+.++|...|++
T Consensus       141 -------~~~~~a~~~l~~~~~~~g~~~~A~~~y~~  169 (176)
T 2r5s_A          141 -------AQDGEVKKTFMDILSALGQGNAIASKYRR  169 (176)
T ss_dssp             -------TTTTHHHHHHHHHHHHHCSSCHHHHHHHH
T ss_pred             -------cChHHHHHHHHHHHHHhCCCCcHHHHHHH
Confidence                   01233455566666667777777666653

>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=98.67  E-value=3.1e-06  Score=70.23  Aligned_cols=171  Identities=12%  Similarity=0.020  Sum_probs=97.1

Q ss_pred             HHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----CHHHHHHHHH
Q 012365           65 VRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK----DVQGALMVLK  140 (465)
Q Consensus        65 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g----~~~~a~~~~~  140 (465)
                      |.+.|++..+.|   ++..+..+-..|...+++++|...|++..+.|   +...+..|...|.. +    ++++|++.|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            455566655553   55666666666666666666666666666543   45555555555555 4    5666666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhcCCCCC-
Q 012365          141 EMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTT----CGEFEKARQVVLDAEIPVKS-  215 (465)
Q Consensus       141 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~-  215 (465)
                      +..+.|                                   +...+..|...|..    .+++++|.+.|++....... 
T Consensus        78 ~A~~~g-----------------------------------~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~  122 (212)
T 3rjv_A           78 KAVEAG-----------------------------------SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESD  122 (212)
T ss_dssp             HHHHTT-----------------------------------CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSH
T ss_pred             HHHHCC-----------------------------------CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCc
Confidence            554321                                   45556666666665    66777777777763333221 


Q ss_pred             -hHHHHHHHHHHHHc----CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-C-----cHHHHHHHHHHHc
Q 012365          216 -RSEVKSALVSALAS----HGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSE-G-----ELNRLIQLLEEVH  279 (465)
Q Consensus       216 -~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-g-----~~~~a~~~~~~~~  279 (465)
                       ....+..|...|..    .+++++|..+|++..+.+  .++..+..|-..|... |     +.++|...++...
T Consensus       123 ~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~  195 (212)
T 3rjv_A          123 AAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSC  195 (212)
T ss_dssp             HHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHH
Confidence             12345666666666    666777777777776652  2333444444444332 1     4555555554443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.63  E-value=1.3e-06  Score=65.62  Aligned_cols=94  Identities=12%  Similarity=0.056  Sum_probs=43.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR  128 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  128 (465)
                      +......+.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|++++|...|++..+.+ +.+...|..+..++..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            3334444444444444444444444433 2344444444444444455555555544444433 3334444444445555


Q ss_pred             cCCHHHHHHHHHHHHH
Q 012365          129 KKDVQGALMVLKEMEQ  144 (465)
Q Consensus       129 ~g~~~~a~~~~~~m~~  144 (465)
                      .|++++|.+.|++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            5555555555544443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.62  E-value=1.3e-06  Score=65.80  Aligned_cols=120  Identities=6%  Similarity=-0.017  Sum_probs=90.4

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|.+.++...+.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45667777788888888888888888887653 2367777778888888888888888888887754 445777888888


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDV  132 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  132 (465)
                      ++...|++++|...|++..... +.+...+..+...+.+.|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            8888888888888888877664 44666777777777766653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.62  E-value=1e-06  Score=66.70  Aligned_cols=120  Identities=7%  Similarity=0.005  Sum_probs=78.2

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      +.+...|..+...+.+.|++++|++.|++..+... .+...+..+..++...|++++|.+.++...+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            34556677777777777777777777777766532 256666667777777777777777777776654 3456677777


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 012365           88 ISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK  130 (465)
Q Consensus        88 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  130 (465)
                      ..++.+.|++++|...|++..... +.+...+..+...+...|
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            777777777777777777766543 223445555555554443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.61  E-value=2.2e-06  Score=74.73  Aligned_cols=226  Identities=10%  Similarity=-0.003  Sum_probs=150.5

Q ss_pred             CHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCC--ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH----Hcc---Cc
Q 012365          198 EFEKARQVVLD-AEIPVKSRSEVKSALVSALASHG--RTSDAIIVYEEIKEAGCNLEPRAVIALIEHL----NSE---GE  267 (465)
Q Consensus       198 ~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~----~~~---g~  267 (465)
                      ..++|+++++. +...+.... .|+.--..+...|  +++++++.++.+...+.+ +...|+.--..+    ...   ++
T Consensus        48 ~s~~aL~~t~~~L~~nP~~~t-aWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           48 YSERALHITELGINELASHYT-IWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CCHHHHHHHHHHHHHCcHHHH-HHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCC
Confidence            34678888876 344444443 4887777777777  899999999988887632 223333222222    333   67


Q ss_pred             HHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChh--HHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhh
Q 012365          268 LNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLS--SATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIG  344 (465)
Q Consensus       268 ~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A  344 (465)
                      +++++.+++.+.+..+. ..++..-.....+.+.++  ++++.++++.+..+.+...|+.-...+...........++++
T Consensus       126 ~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          126 PYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             THHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhhhHHHH
Confidence            88888888888764432 334444444445667777  999999999987777777776543322221000000127889


Q ss_pred             HHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhH-HHHHHHHHHHcC--CCCChhHHHHHHHHHHhcCChhhHHHHHh
Q 012365          345 LDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKR-AHLIWKEYENAG--LPYNVLSYLWMYKAFLASGNRKSASKLLS  420 (465)
Q Consensus       345 ~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~-A~~~~~~m~~~g--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  420 (465)
                      ++.++++.   ...| |...|+.+-..+.+.|+... +..+.+++.+.+  -+.++..+..++++|.+.|+.++|.++++
T Consensus       206 l~~~~~aI---~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~  282 (306)
T 3dra_A          206 LNYVKDKI---VKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYD  282 (306)
T ss_dssp             HHHHHHHH---HHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHH---HhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            99988888   3344 67778888777878777444 556777666542  25577789999999999999999999999


Q ss_pred             ccCC-CCCC
Q 012365          421 KMPK-DDPH  428 (465)
Q Consensus       421 ~m~~-~~~~  428 (465)
                      .+.+ -+|.
T Consensus       283 ~l~~~~Dpi  291 (306)
T 3dra_A          283 LLKSKYNPI  291 (306)
T ss_dssp             HHHHTTCGG
T ss_pred             HHHhccChH
Confidence            9885 5774

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.59  E-value=4.3e-07  Score=72.93  Aligned_cols=161  Identities=11%  Similarity=-0.035  Sum_probs=93.9

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcC
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFK  299 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  299 (465)
                      +......+...|++++|...|++..+... -+...+..+..++...|++++|...++......+.+.             
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~-------------   74 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNS-------------   74 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHH-------------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChH-------------
Confidence            34455556666666666666666554431 1345555566666666666666666665543221000             


Q ss_pred             ChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhh
Q 012365          300 QLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLK  378 (465)
Q Consensus       300 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~  378 (465)
                                            +......+ ....   .+...+|+..+++..   ...| +...+..+..++...|+++
T Consensus        75 ----------------------~~~~~~~~-~~~~---~~~~~~a~~~~~~al---~~~P~~~~~~~~la~~~~~~g~~~  125 (176)
T 2r5s_A           75 ----------------------YKSLIAKL-ELHQ---QAAESPELKRLEQEL---AANPDNFELACELAVQYNQVGRDE  125 (176)
T ss_dssp             ----------------------HHHHHHHH-HHHH---HHTSCHHHHHHHHHH---HHSTTCHHHHHHHHHHHHHTTCHH
T ss_pred             ----------------------HHHHHHHH-HHHh---hcccchHHHHHHHHH---HhCCCCHHHHHHHHHHHHHcccHH
Confidence                                  00000000 0000   011223455565555   2345 4667778888888899999


Q ss_pred             HHHHHHHHHHHcCCC-CChhHHHHHHHHHHhcCChhhHHHHHhccC
Q 012365          379 RAHLIWKEYENAGLP-YNVLSYLWMYKAFLASGNRKSASKLLSKMP  423 (465)
Q Consensus       379 ~A~~~~~~m~~~g~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  423 (465)
                      +|...|+++.+..-. .+...+..+...|...|+.++|...|++.+
T Consensus       126 ~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          126 EALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            999999988876311 135578888888999999999988887654

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.58  E-value=5.3e-07  Score=72.46  Aligned_cols=122  Identities=7%  Similarity=0.095  Sum_probs=101.7

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH-HhccCCH--
Q 012365           21 SCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL-NVKIKDF--   97 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~--   97 (465)
                      +...|++++|+..|+...+... .+...+..+...+...|++++|...|+...+.. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            4567899999999999887643 477889999999999999999999999998865 4578888888888 7789998  


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365           98 DSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        98 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ++|...|++..... +.+...+..+...+...|++++|...|++..+.
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            99999999998775 456788999999999999999999999999875

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.57  E-value=5.1e-07  Score=70.11  Aligned_cols=104  Identities=12%  Similarity=0.026  Sum_probs=89.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+..+|...|++++|...|++..... |.+...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            34567777788889999999999999999876 5678999999999999999999999999998775 557888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQANVKPDSQ  152 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~  152 (465)
                      +|.+.|++++|...|++..+.  .|+..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            999999999999999998874  35543

>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=98.56  E-value=1.8e-06  Score=75.21  Aligned_cols=190  Identities=8%  Similarity=-0.065  Sum_probs=96.0

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhc
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRF  298 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~  298 (465)
                      +..+...+...|++++|+..|++...... -+...+..+..++.+.|++++|...++...+.... +..+..+...+...
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   85 (281)
T 2c2l_A            7 LKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEM   85 (281)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            44455555556666666666665555431 14455555555566666666666666665544322 33444555555566


Q ss_pred             CChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhh
Q 012365          299 KQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLK  378 (465)
Q Consensus       299 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~  378 (465)
                      |++++|...|++.....+.+...+...+...+..         .++.. +.... .....++......+ ..+ ..|+.+
T Consensus        86 g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~---------~~~~~-~~~~~-~~~~~~~~~i~~~l-~~l-~~~~~~  152 (281)
T 2c2l_A           86 ESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRI---------AKKKR-WNSIE-ERRIHQESELHSYL-TRL-IAAERE  152 (281)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHH---------HHHHH-HHHHH-HTCCCCCCHHHHHH-HHH-HHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHH---------HHHHH-HHHHH-HHHHhhhHHHHHHH-HHH-HHHHHH
Confidence            6666666666665542211111111111111111         11111 11122 22333343333333 222 368888


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhc-CChhhHHHHHhccCC
Q 012365          379 RAHLIWKEYENAGLPYNVLSYLWMYKAFLAS-GNRKSASKLLSKMPK  424 (465)
Q Consensus       379 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~  424 (465)
                      +|.+.+++..+.. |.+......+...+.+. +.+++|.++|+++.+
T Consensus       153 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHEGH-EDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGTTT-SCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhccc-cchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            8888888777652 33444444454455555 678888988887765

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.56  E-value=3e-06  Score=63.59  Aligned_cols=114  Identities=9%  Similarity=0.030  Sum_probs=96.2

Q ss_pred             CCCC-HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365            7 ITPS-SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus         7 ~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      +-|+ ...|...-..|.+.|++++|++.|++..+... .+...|..+..++...|++++|...++...+.. +.+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDP-ENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHH
Confidence            3454 46688888999999999999999999988653 378899999999999999999999999999876 56789999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIM  123 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  123 (465)
                      .+..++...|++++|...|++..+.. |-+...+..+-
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~-P~~~~a~~~l~  122 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVD-PSNEEAREGVR  122 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-cCCHHHHHHHH
Confidence            99999999999999999999998864 44555555443

>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=98.55  E-value=2.7e-05  Score=68.14  Aligned_cols=164  Identities=6%  Similarity=-0.078  Sum_probs=94.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhcCC-CCChH-----HHHHHHHHHHHcCCChhHHHHHHHHHHHcCCC-CC----HHHHHH
Q 012365          189 LINAYTTCGEFEKARQVVLDAEIP-VKSRS-----EVKSALVSALASHGRTSDAIIVYEEIKEAGCN-LE----PRAVIA  257 (465)
Q Consensus       189 l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~  257 (465)
                      .+..+...|++++|.+++++.... +..+.     ..+..+...+...|++++|+..+.+....... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            356677788888888888763222 21111     12334555666667788888888877763211 22    224666


Q ss_pred             HHHHHHccCcHHHHHHHHHHHcC----C-CC---CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHH
Q 012365          258 LIEHLNSEGELNRLIQLLEEVHD----P-DY---WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEI  329 (465)
Q Consensus       258 ll~~~~~~g~~~~a~~~~~~~~~----~-~~---~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  329 (465)
                      +...|...|++++|...++++.+    . +.   ....+..+...|.+.|++++|...+++..+.               
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~---------------  225 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEI---------------  225 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH---------------
Confidence            77777777777777777776652    0 00   0113344444455555555555555544330               


Q ss_pred             HHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhh-hhHHHHHHHHHHH
Q 012365          330 FCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARD-LKRAHLIWKEYEN  389 (465)
Q Consensus       330 ~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~-~~~A~~~~~~m~~  389 (465)
                                           .. ..+..+ -..+|..+..++.+.|+ +++|.+.+++...
T Consensus       226 ---------------------~~-~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          226 ---------------------SC-RINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             ---------------------HH-HTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             ---------------------HH-HcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence                                 00 112222 25677778888888884 5888888887764

>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=98.54  E-value=9.4e-07  Score=78.14  Aligned_cols=89  Identities=10%  Similarity=-0.034  Sum_probs=56.8

Q ss_pred             CchhhhHHhHHHHHhhc---CCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CCCCC-hhHHHHHHHHHHhc
Q 012365          339 PDVQIGLDLLQFIKDEL---GLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENA----GLPYN-VLSYLWMYKAFLAS  409 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~---~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~l~~~~~~~  409 (465)
                      |++++|+..|++.....   +..+ ...++..+...+...|++++|...|++..+.    +..++ ...+..++..+...
T Consensus       129 g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~  208 (307)
T 2ifu_A          129 LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHR  208 (307)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHc
Confidence            67777777776665111   1111 1346667777788888888888888887753    11111 12566666677777


Q ss_pred             CChhhHHHHHhccCCCCCC
Q 012365          410 GNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       410 g~~~~A~~~~~~m~~~~~~  428 (465)
                      |++++|...+++.+ .+|.
T Consensus       209 g~~~~A~~~~~~al-~~p~  226 (307)
T 2ifu_A          209 ADYVAAQKCVRESY-SIPG  226 (307)
T ss_dssp             TCHHHHHHHHHHHT-TSTT
T ss_pred             CCHHHHHHHHHHHh-CCCC
Confidence            88888888888877 6664

>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=98.53  E-value=2.4e-06  Score=76.43  Aligned_cols=131  Identities=11%  Similarity=-0.019  Sum_probs=101.6

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPS--------------TETINSILHACEESYEFNLVRRIYPMICHHN   76 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   76 (465)
                      ...|..+-..+.+.|++++|+..|++..+......              ...|..+..++.+.|++++|...++...+..
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            45677778888888889999988888877543321              4778888888888888888888888888765


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 012365           77 LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGA-LMVLKEME  143 (465)
Q Consensus        77 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  143 (465)
                       +.+...|..+..+|...|++++|...|++..+.. +.+...+..+...+.+.|+.++| ...|+.|.
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             4577888888888888888888888888887764 45677788888888888888877 44566554

>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=98.49  E-value=7.6e-07  Score=69.11  Aligned_cols=98  Identities=11%  Similarity=0.105  Sum_probs=74.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+..+|...|++++|...|++....+ +.+...|..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            34456666677778888888888888877765 4577778888888888888888888888877664 456677778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~  144 (465)
                      +|...|++++|.+.|++..+
T Consensus        98 ~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            88888888888888887765

>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=98.49  E-value=1.7e-06  Score=75.24  Aligned_cols=98  Identities=8%  Similarity=-0.015  Sum_probs=66.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+..+|.+.|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34555666666667777777777777766653 3456677777777777777777777777766553 445666777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 012365          125 GYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ++...|++++|...|++..+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777777654

>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=98.48  E-value=2.7e-05  Score=64.40  Aligned_cols=138  Identities=12%  Similarity=0.058  Sum_probs=104.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYF  127 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  127 (465)
                      .+..+...+...|++++|.+.|+...    .|+..++..+...+.+.|++++|...|++..... +.+...|..+...+.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            34556677889999999999998763    6788999999999999999999999999988775 567889999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 012365          128 RKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQI-TKYVFMALINAYTTCGEFEKARQVV  206 (465)
Q Consensus       128 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~  206 (465)
                      ..|++++|.+.|++..+..  |+.....     +...+           ....| ....+..+..++...|++++|.+.|
T Consensus        83 ~~~~~~~A~~~~~~al~~~--~~~~~~~-----~~~~~-----------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  144 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQL--RGNQLID-----YKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQL  144 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTT--TTCSEEE-----CGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HcccHHHHHHHHHHHHHhC--CCccHHH-----HHHhc-----------cccCccchHHHHHHHHHHHHccCHHHHHHHH
Confidence            9999999999999988742  2110000     00000           00112 2356667777888888888888888


Q ss_pred             HH
Q 012365          207 LD  208 (465)
Q Consensus       207 ~~  208 (465)
                      +.
T Consensus       145 ~~  146 (213)
T 1hh8_A          145 AL  146 (213)
T ss_dssp             HH
T ss_pred             HH
Confidence            87

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.47  E-value=2.1e-06  Score=66.54  Aligned_cols=109  Identities=7%  Similarity=-0.013  Sum_probs=94.1

Q ss_pred             cCCCCC-HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHH
Q 012365            5 LEITPS-SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSET   83 (465)
Q Consensus         5 ~~~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   83 (465)
                      .++.|+ ...+..+-..+.+.|++++|+..|+...+..+. +...|..+..++...|++++|...|++..+.. +.++..
T Consensus        29 l~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~  106 (151)
T 3gyz_A           29 NAIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTP  106 (151)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHH
T ss_pred             hCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHH
Confidence            345564 457778888999999999999999999987543 78899999999999999999999999999876 557889


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHH
Q 012365           84 FRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTAS  117 (465)
Q Consensus        84 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  117 (465)
                      |..+..+|.+.|++++|...|++..+..  |+..
T Consensus       107 ~~~lg~~~~~lg~~~eA~~~~~~al~l~--~~~~  138 (151)
T 3gyz_A          107 VFHTGQCQLRLKAPLKAKECFELVIQHS--NDEK  138 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCHH
Confidence            9999999999999999999999998864  6654

>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=98.47  E-value=0.00021  Score=62.35  Aligned_cols=165  Identities=12%  Similarity=0.039  Sum_probs=105.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCC-CCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCC-CC----HHHHHH
Q 012365           52 ILHACEESYEFNLVRRIYPMICHHNL-KPNS----ETFRSMISLNVKIKDFDSAYSLLDDLKEMNLM-PT----ASMYNA  121 (465)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~----~~~~~~  121 (465)
                      .+..+...|++++|..+++...+... .|+.    ..+..+...+...|++++|...|++....... ++    ..+|+.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            35667788899999999888876431 1221    13344666677778889999988888763222 22    236888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHc-CCC-CCHHHHHHHHHHHHhcCCH
Q 012365          122 IMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSA-GGQ-ITKYVFMALINAYTTCGEF  199 (465)
Q Consensus       122 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~  199 (465)
                      +...|...|++++|+..|++..+.                            ..+. +.. ....++..+...|.+.|++
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~----------------------------~~~~~~~~~~~~~~~~nlg~~y~~~~~y  212 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQ----------------------------LEALHDNEEFDVKVRYNHAKALYLDSRY  212 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH----------------------------HHHSSCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH----------------------------HHhcccchhHHHHHHHHHHHHHHHHhHH
Confidence            888888899999999888887631                            0000 000 1123566677778888888


Q ss_pred             HHHHHHHHHh-----cC-CCCChHHHHHHHHHHHHcCCC-hhHHHHHHHHHH
Q 012365          200 EKARQVVLDA-----EI-PVKSRSEVKSALVSALASHGR-TSDAIIVYEEIK  244 (465)
Q Consensus       200 ~~a~~~~~~~-----~~-~~~~~~~~~~~l~~~~~~~g~-~~~a~~~~~~m~  244 (465)
                      ++|.+.+++.     .. .......+|..+..+|...|+ +++|.+.+++..
T Consensus       213 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          213 EESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            8888877651     11 112223346777777777774 477777776654

>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=98.46  E-value=1.2e-05  Score=71.06  Aligned_cols=88  Identities=9%  Similarity=0.051  Sum_probs=39.2

Q ss_pred             HHHhcCCHHHHHHHHHHHhhC----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHH
Q 012365           55 ACEESYEFNLVRRIYPMICHH----NLKP-NSETFRSMISLNVKIKDFDSAYSLLDDLKEM----NLMP-TASMYNAIMA  124 (465)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~  124 (465)
                      .+...|++++|...|.+..+.    +-.+ -..+|+.+..+|...|++++|...|++....    |-+. -..+++.+..
T Consensus        45 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  124 (307)
T 2ifu_A           45 AFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGK  124 (307)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344445555555555544331    1000 1234455555555555555555555543321    1000 1234445555


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 012365          125 GYFRKKDVQGALMVLKEME  143 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~  143 (465)
                      .|.. |++++|++.|++..
T Consensus       125 ~~~~-g~~~~A~~~~~~Al  142 (307)
T 2ifu_A          125 LMEP-LDLSKAVHLYQQAA  142 (307)
T ss_dssp             HHTT-TCHHHHHHHHHHHH
T ss_pred             HHHc-CCHHHHHHHHHHHH
Confidence            5555 55555555555544

>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=98.46  E-value=8.5e-06  Score=59.85  Aligned_cols=98  Identities=6%  Similarity=-0.047  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      ...|..+...+...|++++|...|+...+... .+...+..+..++...|++++|...++...+.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            44555566666666666666666666655432 245555556666666666666666666665543 3345556666666


Q ss_pred             HhccCCHHHHHHHHHHHHHc
Q 012365           91 NVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~  110 (465)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            66666666666666665544

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.45  E-value=2.7e-06  Score=72.58  Aligned_cols=134  Identities=12%  Similarity=-0.067  Sum_probs=89.6

Q ss_pred             hHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCc--HHHHHHHHHH
Q 012365          293 LHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPS--RKCLDFLLGA  370 (465)
Q Consensus       293 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~--~~~~~~ll~~  370 (465)
                      ..+...|++++|.++|+.+.... |.....+..-..++.      .+++++|+..|+... ... .|.  ...+..+..+
T Consensus       110 ~~L~~~g~y~eA~~~l~~~~~~~-p~~~~~~~~a~l~~~------~~r~~dA~~~l~~a~-~~~-d~~~~~~a~~~LG~a  180 (282)
T 4f3v_A          110 ACEAAQGNYADAMEALEAAPVAG-SEHLVAWMKAVVYGA------AERWTDVIDQVKSAG-KWP-DKFLAGAAGVAHGVA  180 (282)
T ss_dssp             HHHHHHTCHHHHHHHHTSSCCTT-CHHHHHHHHHHHHHH------TTCHHHHHHHHTTGG-GCS-CHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHH------cCCHHHHHHHHHHhh-ccC-CcccHHHHHHHHHHH
Confidence            44557778888888877766533 322222222222222      388888888887655 211 221  2356677788


Q ss_pred             hHhhhhhhHHHHHHHHHHHcCCCCC--hhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHH
Q 012365          371 CVNARDLKRAHLIWKEYENAGLPYN--VLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQAC  436 (465)
Q Consensus       371 ~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~  436 (465)
                      +...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...+|. ...-.+.
T Consensus       181 l~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL  247 (282)
T 4f3v_A          181 AANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAAL  247 (282)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHH
Confidence            8999999999999999885433243  346777788889999999999999999988887 5444433

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.41  E-value=1.1e-05  Score=60.01  Aligned_cols=98  Identities=14%  Similarity=0.205  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG  125 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  125 (465)
                      ...+..+...+...|++++|.+.++.+.+.. +.+..++..+...+.+.|++++|...|+++.... +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            5678888889999999999999999998865 4578899999999999999999999999998765 5678889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 012365          126 YFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~~~  145 (465)
                      +...|++++|...|+++.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            99999999999999998864

>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=98.41  E-value=9.3e-05  Score=65.30  Aligned_cols=130  Identities=12%  Similarity=0.007  Sum_probs=93.0

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY-EFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      .++.+-....+.+..++|+++++.+...... +...|+.--.++...| ++++++++++.+...+ +-+..+|+.-..++
T Consensus        56 ~~~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL  133 (349)
T 3q7a_A           56 AMDYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            3444444445556667899999999886544 6667777777777777 5899999999998876 56788888777777


Q ss_pred             hcc-C-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHHC
Q 012365           92 VKI-K-DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQ--------GALMVLKEMEQA  145 (465)
Q Consensus        92 ~~~-g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~--------~a~~~~~~m~~~  145 (465)
                      .+. + +++++..+++.+.+.. +.|..+|+.-.-.+.+.|.++        ++++.++++.+.
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~  196 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV  196 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh
Confidence            666 6 7888999999888765 567777876665555555554        666666666653

>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=1.7e-05  Score=62.46  Aligned_cols=98  Identities=10%  Similarity=0.080  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG  125 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  125 (465)
                      ...+..+...+...|++++|...++...+.. +.+..++..+..++...|++++|...+++..... +.+...|..+...
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3456677778889999999999999998865 4578899999999999999999999999988765 5678889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 012365          126 YFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~~~  145 (465)
                      +...|++++|.+.|++..+.
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh
Confidence            99999999999999998764

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.38  E-value=3.6e-05  Score=67.36  Aligned_cols=168  Identities=6%  Similarity=-0.075  Sum_probs=90.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChH-----HHHHHHHHHHHcCCChhHHHHHHHHHHHcCC---CCC--HH
Q 012365          185 VFMALINAYTTCGEFEKARQVVLD-AEIPVKSRS-----EVKSALVSALASHGRTSDAIIVYEEIKEAGC---NLE--PR  253 (465)
Q Consensus       185 ~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~---~p~--~~  253 (465)
                      .+...+..+...|++++|.+.+++ ....+....     ..+..+...+...|++++|+..+.+......   .+.  ..
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            344456667777777777777765 222222111     1133344556666777777777777654321   111  33


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHcCC----CCC----ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHH
Q 012365          254 AVIALIEHLNSEGELNRLIQLLEEVHDP----DYW----MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYH  325 (465)
Q Consensus       254 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~----~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  325 (465)
                      +++.+...|...|++++|...+++..+.    +..    +..+..+...|...|++++|...+++.....          
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~----------  226 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEIS----------  226 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHH----------
Confidence            5566666666666666666666655410    000    1233344444445555555555554443300          


Q ss_pred             HHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHH-HHHHHHHHH
Q 012365          326 FSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRA-HLIWKEYEN  389 (465)
Q Consensus       326 l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A-~~~~~~m~~  389 (465)
                                                . ..+..+ -..+|..+..+|...|++++| ...+++...
T Consensus       227 --------------------------~-~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          227 --------------------------C-RINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             --------------------------H-HTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             --------------------------H-hcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence                                      0 111111 255777888888899999998 777777653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.38  E-value=2.6e-05  Score=68.29  Aligned_cols=167  Identities=9%  Similarity=-0.099  Sum_probs=111.0

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHccCcHHHHHHHHHHHcCCCCC-------ccc
Q 012365          220 KSALVSALASHGRTSDAIIVYEEIKEAGCNLEP-----RAVIALIEHLNSEGELNRLIQLLEEVHDPDYW-------MDG  287 (465)
Q Consensus       220 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-------~~~  287 (465)
                      +...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|...+++..+....       ...
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            455677888999999999999988775422111     12333445567778888888888776543211       113


Q ss_pred             hhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC--cHHHHH
Q 012365          288 CCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP--SRKCLD  365 (465)
Q Consensus       288 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p--~~~~~~  365 (465)
                      +..+...|...|++++|...|++..+.                                 +    +..+..+  ...++.
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~---------------------------------~----~~~~~~~~~~~~~~~  200 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQ---------------------------------L----EALHDNEEFDVKVRY  200 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------------------H----HHSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH---------------------------------H----HhcCccccchHHHHH
Confidence            344555556666666666666655430                                 0    0111112  124778


Q ss_pred             HHHHHhHhhhhhhHHHHHHHHHHHcC----CCC-ChhHHHHHHHHHHhcCChhhH-HHHHhccC
Q 012365          366 FLLGACVNARDLKRAHLIWKEYENAG----LPY-NVLSYLWMYKAFLASGNRKSA-SKLLSKMP  423 (465)
Q Consensus       366 ~ll~~~~~~g~~~~A~~~~~~m~~~g----~~p-~~~~~~~l~~~~~~~g~~~~A-~~~~~~m~  423 (465)
                      .+...|...|++++|...+++..+..    ... -..+|..+...|.+.|++++| ...+++..
T Consensus       201 nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          201 NHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            88889999999999999999987541    111 156889999999999999999 77787765

>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=98.34  E-value=1.3e-05  Score=59.90  Aligned_cols=95  Identities=11%  Similarity=0.061  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYF  127 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  127 (465)
                      .+..+...+...|++++|...|+...+.. +.+...|..+..++.+.|++++|...|++..+.+ +.+...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444444555555555555555555443 3345555555555555555555555555555443 334555555555555


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 012365          128 RKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       128 ~~g~~~~a~~~~~~m~~  144 (465)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55666665555555543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.33  E-value=3.1e-05  Score=59.60  Aligned_cols=99  Identities=9%  Similarity=-0.055  Sum_probs=70.1

Q ss_pred             CCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHH
Q 012365            9 PSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPS----TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETF   84 (465)
Q Consensus         9 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   84 (465)
                      .+...+..+...+.+.|++++|++.|++..+..  |+    ...+..+..++...|++++|...++...+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            356677777777777888888888888777643  44    4566666677777777777777777776653 3456677


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHc
Q 012365           85 RSMISLNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        85 ~~li~~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      ..+..++...|++++|...|++....
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            77777777777777777777777655

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.33  E-value=4.3e-06  Score=68.58  Aligned_cols=86  Identities=8%  Similarity=-0.091  Sum_probs=58.9

Q ss_pred             CchhhhHHhHHHHHhh---cCCCC--cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CCCC-ChhHHHHHHHHHHh
Q 012365          339 PDVQIGLDLLQFIKDE---LGLPP--SRKCLDFLLGACVNARDLKRAHLIWKEYENA----GLPY-NVLSYLWMYKAFLA  408 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~---~~~~p--~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l~~~~~~  408 (465)
                      |++++|...+++....   .+-.|  ....+..+...+...|++++|...+++..+.    +.+. -..++..+...+..
T Consensus        80 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  159 (203)
T 3gw4_A           80 GNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQ  159 (203)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence            5666666666554411   12122  2345677888899999999999999988743    2111 12246788889999


Q ss_pred             cCChhhHHHHHhccCC
Q 012365          409 SGNRKSASKLLSKMPK  424 (465)
Q Consensus       409 ~g~~~~A~~~~~~m~~  424 (465)
                      .|++++|.+.+++..+
T Consensus       160 ~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          160 EKNLLEAQQHWLRARD  175 (203)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHH
Confidence            9999999999988764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.33  E-value=6.2e-06  Score=63.38  Aligned_cols=91  Identities=9%  Similarity=-0.053  Sum_probs=41.7

Q ss_pred             HHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccC
Q 012365           16 KLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIK   95 (465)
Q Consensus        16 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g   95 (465)
                      .+...+.+.|++++|+..|+....... .+...|..+..++...|++++|...|+...+.. +.++..+..+..+|...|
T Consensus        23 ~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g  100 (142)
T 2xcb_A           23 ALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLG  100 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            333444444555555555554444322 134444444444444455555555555444433 233444444444444455


Q ss_pred             CHHHHHHHHHHHH
Q 012365           96 DFDSAYSLLDDLK  108 (465)
Q Consensus        96 ~~~~a~~~~~~m~  108 (465)
                      ++++|...|+...
T Consensus       101 ~~~~A~~~~~~al  113 (142)
T 2xcb_A          101 DLDGAESGFYSAR  113 (142)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555444443

>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=98.33  E-value=1.9e-06  Score=69.15  Aligned_cols=125  Identities=8%  Similarity=-0.024  Sum_probs=92.7

Q ss_pred             hhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHH-hHhh
Q 012365          296 VRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGA-CVNA  374 (465)
Q Consensus       296 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~-~~~~  374 (465)
                      ...|++++|...+++.....+.+...+..+-..++.      .|++++|+..|++.. ... +.+...+..+..+ +...
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~------~~~~~~A~~~~~~al-~~~-p~~~~~~~~la~~l~~~~   92 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLW------QNDYSNSLLAYRQAL-QLR-GENAELYAALATVLYYQA   92 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHH------TTCHHHHHHHHHHHH-HHH-CSCHHHHHHHHHHHHHHT
T ss_pred             hhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH------cCCHHHHHHHHHHHH-HcC-CCCHHHHHHHHHHHHHhc
Confidence            467889999999988887554454555444444333      399999999999988 322 2256677777777 7788


Q ss_pred             hhh--hHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          375 RDL--KRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       375 g~~--~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      |++  ++|...++++.+.. |.+...+..+...|...|++++|...++++.+.+|..
T Consensus        93 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A           93 SQHMTAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             TTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             CCcchHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            998  99999999999873 6678889999999999999999999999998877643

>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=98.33  E-value=1.5e-05  Score=59.59  Aligned_cols=99  Identities=9%  Similarity=0.020  Sum_probs=87.6

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...|..+...+.+.|++++|+..|++..+... .+...|..+..++...|++++|...++...+.. +.+...|..+..
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            356778888899999999999999999988643 378899999999999999999999999999875 557889999999


Q ss_pred             HHhccCCHHHHHHHHHHHHHc
Q 012365           90 LNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      ++...|++++|...|++....
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh
Confidence            999999999999999988764

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.33  E-value=2.1e-05  Score=64.44  Aligned_cols=159  Identities=12%  Similarity=0.016  Sum_probs=97.6

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHhcCCH
Q 012365           58 ESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM----NL-MPTASMYNAIMAGYFRKKDV  132 (465)
Q Consensus        58 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~g~~  132 (465)
                      ..|++++|.++++.+... ......++..+...+...|++++|...+++....    +. +....++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            456777777744444331 1234566777777777778888887777766541    11 12345677788888899999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhc
Q 012365          133 QGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQI--TKYVFMALINAYTTCGEFEKARQVVLDAE  210 (465)
Q Consensus       133 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  210 (465)
                      ++|.+.+++..+.                            ..+.+-.+  ...++..+...+...|++++|.+.+++..
T Consensus        83 ~~A~~~~~~al~~----------------------------~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  134 (203)
T 3gw4_A           83 DAARRCFLEEREL----------------------------LASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSL  134 (203)
T ss_dssp             HHHHHHHHHHHHH----------------------------HHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH----------------------------HHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            9999888876542                            01111010  12345667778888889988888887621


Q ss_pred             ----CCCCCh--HHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          211 ----IPVKSR--SEVKSALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       211 ----~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                          ....+.  ..++..+...+...|++++|.+.+++..+
T Consensus       135 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          135 VYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence                111111  12356677778888888888888776654

>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=98.33  E-value=1.4e-05  Score=65.35  Aligned_cols=97  Identities=10%  Similarity=-0.050  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----------------HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPN----------------SETFRSMISLNVKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~  109 (465)
                      ...+..+...+...|++++|...|++..+.. +.+                ..++..+..+|.+.|++++|...+++...
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3444444555555555555555555555432 111                14555555555555555555555555554


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365          110 MNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       110 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .. +.+...|..+..++...|++++|.+.|++..+
T Consensus       117 ~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A          117 ID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             HS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            43 33445555555555555555555555555544

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.32  E-value=1.8e-05  Score=59.56  Aligned_cols=101  Identities=12%  Similarity=0.115  Sum_probs=89.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365           43 VPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAI  122 (465)
Q Consensus        43 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  122 (465)
                      +.+...+..+...+...|++++|...++...+.. +.+..++..+..++...|++++|...+++..... +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            3456788888899999999999999999998875 4578899999999999999999999999988765 5578899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 012365          123 MAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       123 i~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ...+...|++++|.+.|++..+.
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999999999999999998764

>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=98.32  E-value=1e-05  Score=61.50  Aligned_cols=98  Identities=7%  Similarity=-0.106  Sum_probs=60.0

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...|..+...+...|++++|+..|+...+... .+...+..+..++...|++++|...++...+.. +.+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            455666666666666666666666666655432 245566666666666666666666666666543 334556666666


Q ss_pred             HHhccCCHHHHHHHHHHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~  109 (465)
                      ++...|++++|...|++...
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            66666666666666665543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.32  E-value=1.9e-05  Score=67.31  Aligned_cols=204  Identities=12%  Similarity=0.017  Sum_probs=128.2

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHH-------HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh-hCCh
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTASMYNAI-------MAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN-CSNE  164 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l-------i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~  164 (465)
                      ..++...|.+.|.+..... |-....|..+       ...+...++..+++..+..-  .++.|+......-|.+ |+..
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~--l~l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGS--VQISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHT--TTCCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHH--hcCChhhhhhhhccCCccccc
Confidence            5688888888888887765 4456677666       33444444444443333222  2233332110000000 0000


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q 012365          165 EDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIK  244 (465)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  244 (465)
                                 ..-+.--....-.+...+...|++++|.++|+......+... ....+...+.+.+++++|+..|+...
T Consensus        95 -----------~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~  162 (282)
T 4f3v_A           95 -----------TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHL-VAWMKAVVYGAAERWTDVIDQVKSAG  162 (282)
T ss_dssp             -----------EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHH-HHHHHHHHHHHTTCHHHHHHHHTTGG
T ss_pred             -----------ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchH-HHHHHHHHHHHcCCHHHHHHHHHHhh
Confidence                       000001123445567788899999999999986544443333 45556668889999999999998543


Q ss_pred             HcCCCCCH----HHHHHHHHHHHccCcHHHHHHHHHHHcCCCC----CccchhhHhhHhhhcCChhHHHHHHHHHHHc
Q 012365          245 EAGCNLEP----RAVIALIEHLNSEGELNRLIQLLEEVHDPDY----WMDGCCRLILHCVRFKQLSSATDLLKQLKDK  314 (465)
Q Consensus       245 ~~~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  314 (465)
                      ..   |++    ..+..+-.++...|++++|+..|++....+.    .++.......++.+.|+.++|...|+++...
T Consensus       163 ~~---~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          163 KW---PDKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             GC---SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cc---CCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            32   333    3566778889999999999999999875443    2335567777888999999999999999884

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.31  E-value=1.2e-05  Score=61.73  Aligned_cols=98  Identities=9%  Similarity=0.096  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAG  125 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  125 (465)
                      ...+..+...+...|++++|...|+...+.. +.+...|..+..++.+.|++++|...|++....+ +.+...|..+..+
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   95 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence            3455666777889999999999999998875 5688899999999999999999999999998875 5677889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 012365          126 YFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~~~  145 (465)
                      +...|++++|.+.|+...+.
T Consensus        96 ~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999998753

>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=98.31  E-value=9.1e-06  Score=62.91  Aligned_cols=102  Identities=10%  Similarity=-0.038  Sum_probs=88.1

Q ss_pred             CCC-CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365            7 ITP-SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus         7 ~~p-~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      +.| +...+..+...+.+.|++++|+..|+....... .+...|..+..++...|++++|...|+...+.. +.++..+.
T Consensus        16 ~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~   93 (148)
T 2vgx_A           16 ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPF   93 (148)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHH
T ss_pred             CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHH
Confidence            344 345677788889999999999999999988643 378888899999999999999999999999875 55788899


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHc
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      .+..+|...|++++|...|++..+.
T Consensus        94 ~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           94 HAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999998765

>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=98.31  E-value=2.1e-05  Score=59.68  Aligned_cols=99  Identities=9%  Similarity=0.011  Sum_probs=89.2

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 012365           44 PSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIM  123 (465)
Q Consensus        44 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  123 (465)
                      .+...+..+...+...|++++|...|+...+.. +.+...+..+..++...|++++|...|++....+ +.+...|..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            467888889999999999999999999998875 5578899999999999999999999999998875 55788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 012365          124 AGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       124 ~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ..+...|++++|...|++..+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            999999999999999999875

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.28  E-value=1.2e-05  Score=58.33  Aligned_cols=98  Identities=11%  Similarity=-0.043  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC--CHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKP--NSETFRSMI   88 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li   88 (465)
                      ...|..+...+.+.|++++|+..|++..+... .+...+..+..++...|++++|.+.+++..+.. +.  +...+..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            34555566666677777777777777665432 245566666666666777777777777666653 33  466666666


Q ss_pred             HHHhcc-CCHHHHHHHHHHHHHc
Q 012365           89 SLNVKI-KDFDSAYSLLDDLKEM  110 (465)
Q Consensus        89 ~~~~~~-g~~~~a~~~~~~m~~~  110 (465)
                      .++.+. |++++|.+.+++....
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhc
Confidence            666667 7777777777666654

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.27  E-value=1e-05  Score=60.73  Aligned_cols=108  Identities=10%  Similarity=0.070  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCC----HHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNL--KPN----SETFR   85 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~   85 (465)
                      ..|..+...+...|++++|...|+...+.. +.+...+..+...+...|++++|...++...+...  .++    ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            455666666666777777777777666543 22555666666666666777777666666655321  111    45566


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365           86 SMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAI  122 (465)
Q Consensus        86 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  122 (465)
                      .+..++...|++++|...|++....  .|+...+..+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l  118 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            6666666666666666666666554  2444444333

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.27  E-value=2.6e-05  Score=58.38  Aligned_cols=99  Identities=11%  Similarity=0.062  Sum_probs=86.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...+++..... +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45677778888899999999999999998765 4578899999999999999999999999988764 556888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 012365          125 GYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      .+...|++++|...|++..+.
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhc
Confidence            999999999999999998764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.26  E-value=1.4e-05  Score=63.09  Aligned_cols=99  Identities=11%  Similarity=0.005  Sum_probs=61.9

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...|..+...+.+.|++++|++.|++..+.... +...|..+..++...|++++|...++...+.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3455666666666667777777777666654322 55566666666666666666666666666654 334666666666


Q ss_pred             HHhccCCHHHHHHHHHHHHHc
Q 012365           90 LNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      +|...|++++|...|++....
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            666666666666666665543

>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=98.26  E-value=3.6e-05  Score=56.36  Aligned_cols=99  Identities=10%  Similarity=-0.006  Sum_probs=87.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...+++..... +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            34567778888999999999999999998865 4578899999999999999999999999988765 456888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 012365          125 GYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      .+...|++++|.+.|++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhHHHHHHHHHHHHHc
Confidence            999999999999999998864

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.25  E-value=1.2e-05  Score=58.45  Aligned_cols=99  Identities=5%  Similarity=-0.059  Sum_probs=86.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCC--CHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMP--TASMYNAI  122 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~l  122 (465)
                      +...+..+...+...|++++|...++...+.. +.+...+..+..++...|++++|...|++..+.. +.  +...|..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            34566778888899999999999999998865 5578889999999999999999999999998764 44  68889999


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHHC
Q 012365          123 MAGYFRK-KDVQGALMVLKEMEQA  145 (465)
Q Consensus       123 i~~~~~~-g~~~~a~~~~~~m~~~  145 (465)
                      ...+... |++++|.+.+++....
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            9999999 9999999999998865

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.23  E-value=2.3e-05  Score=61.85  Aligned_cols=99  Identities=11%  Similarity=0.059  Sum_probs=88.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +...+..+...+...|++++|.+.|++..+.. +.+...|..+..+|.+.|++++|...|++..... +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45677888888999999999999999999875 5578999999999999999999999999998875 557889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 012365          125 GYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       125 ~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ++...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999998764

>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=98.21  E-value=0.0012  Score=58.05  Aligned_cols=120  Identities=8%  Similarity=-0.030  Sum_probs=77.5

Q ss_pred             cccCHH-HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           23 DLLKVH-VALDVVEQMVQGELVPSTETINSILHACEESYE----------FNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        23 ~~g~~~-~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      +.|.+. +|+++++.+...++. +...|+.--..+...+.          ++++..+++.+.... +-+..+|+.-..++
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL  118 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  118 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            345444 778888888775433 44455543333333222          567777777777654 45677777766666


Q ss_pred             hccC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHC
Q 012365           92 VKIK--DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKD-VQGALMVLKEMEQA  145 (465)
Q Consensus        92 ~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~  145 (465)
                      .+.+  +++++..+++.+.+.. +.|..+|+.-.-.+...|. ++++++.+.++.+.
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~  174 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR  174 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             hccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH
Confidence            6666  3677888888877765 5677777776666666776 47777777777754

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.19  E-value=3.6e-05  Score=57.66  Aligned_cols=95  Identities=11%  Similarity=0.114  Sum_probs=42.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcC--CCCC----HHHHHHH
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMN--LMPT----ASMYNAI  122 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~----~~~~~~l  122 (465)
                      +..+...+.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|++++|...|++..+.+  ..++    ..+|..+
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            3334444444445555554444444432 2334444444444555555555555444443221  0011    1234444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 012365          123 MAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       123 i~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ..++...|++++|++.|++...
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            4555555555555555555443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.19  E-value=2.5e-05  Score=58.60  Aligned_cols=109  Identities=8%  Similarity=0.006  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CCCC----HHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHN--LKPN----SETF   84 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~   84 (465)
                      ..++..+-..+.+.|++++|++.|++..+..+ -+...|..+..++...|++++|.+.++...+..  ..++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            45678888999999999999999999988643 378889999999999999999999999987642  1222    2467


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012365           85 RSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAI  122 (465)
Q Consensus        85 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  122 (465)
                      ..+..++...|++++|.+.|++....  .||......+
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  122 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHHH
Confidence            78888899999999999999998764  4776654433

>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=98.17  E-value=0.0012  Score=58.36  Aligned_cols=87  Identities=9%  Similarity=0.120  Sum_probs=69.5

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-C-CHH
Q 012365           57 EESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIK-DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRK-K-DVQ  133 (465)
Q Consensus        57 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-g-~~~  133 (465)
                      ...+..++|+++++.+...+ +-+..+|+.--..+...| ++++++.+++.+.... +.+..+|+.-...+... + +++
T Consensus        65 ~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~  142 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPV  142 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCH
T ss_pred             HhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChH
Confidence            34455578999999999876 556778888777777778 5999999999998876 67888888877777766 6 889


Q ss_pred             HHHHHHHHHHHC
Q 012365          134 GALMVLKEMEQA  145 (465)
Q Consensus       134 ~a~~~~~~m~~~  145 (465)
                      +++++++.+.+.
T Consensus       143 ~EL~~~~k~L~~  154 (349)
T 3q7a_A          143 SEIEYIHGSLLP  154 (349)
T ss_dssp             HHHHHHHHHTSS
T ss_pred             HHHHHHHHHHHh
Confidence            999999998864

>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=98.17  E-value=3e-05  Score=58.04  Aligned_cols=107  Identities=11%  Similarity=0.168  Sum_probs=88.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCC--CCC----HHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNL--MPT----ASMY  119 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~----~~~~  119 (465)
                      ...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...+++.....-  +++    ..+|
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4567778888999999999999999998865 56788999999999999999999999999876531  122    7788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 012365          120 NAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFS  155 (465)
Q Consensus       120 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  155 (465)
                      ..+...+...|++++|.+.|++..+.  .|+.....
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  116 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLK  116 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHH
Confidence            89999999999999999999998874  35544433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.16  E-value=2.8e-05  Score=59.84  Aligned_cols=94  Identities=14%  Similarity=-0.009  Sum_probs=80.3

Q ss_pred             CCchhhhHHhHHHHHhhcCCCCc----HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChh
Q 012365          338 PPDVQIGLDLLQFIKDELGLPPS----RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRK  413 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~  413 (465)
                      .|++++|...|++..   ...|+    ...|..+..++...|++++|...+++..+. .+.+...+..+..+|...|+++
T Consensus        41 ~~~~~~A~~~~~~a~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~  116 (148)
T 2dba_A           41 CGDYGGALAAYTQAL---GLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK-DGGDVKALYRRSQALEKLGRLD  116 (148)
T ss_dssp             TTCHHHHHHHHHHHH---TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TSCCHHHHHHHHHHHHHHTCHH
T ss_pred             hCCHHHHHHHHHHHH---HHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh-CccCHHHHHHHHHHHHHcCCHH
Confidence            499999999999988   45676    577888888999999999999999999987 3667889999999999999999


Q ss_pred             hHHHHHhccCCCCCChhHHHHH
Q 012365          414 SASKLLSKMPKDDPHVRFVIQA  435 (465)
Q Consensus       414 ~A~~~~~~m~~~~~~~~~~l~~  435 (465)
                      +|...+++.++.+|........
T Consensus       117 ~A~~~~~~al~~~p~~~~~~~~  138 (148)
T 2dba_A          117 QAVLDLQRCVSLEPKNKVFQEA  138 (148)
T ss_dssp             HHHHHHHHHHHHCSSCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCcHHHHHH
Confidence            9999999999888866544443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.15  E-value=2.5e-05  Score=57.97  Aligned_cols=89  Identities=11%  Similarity=0.110  Sum_probs=45.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012365           53 LHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDV  132 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  132 (465)
                      ...+.+.|++++|...++...+.. +.+...|..+..++...|++++|...|++..... +.+...+..+..++...|++
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            334445555555555555555443 2344555555555555555555555555554443 23444555555555555555


Q ss_pred             HHHHHHHHHHH
Q 012365          133 QGALMVLKEME  143 (465)
Q Consensus       133 ~~a~~~~~~m~  143 (465)
                      ++|...|++..
T Consensus       102 ~~A~~~~~~al  112 (121)
T 1hxi_A          102 NAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555544

>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=98.14  E-value=2.1e-05  Score=70.27  Aligned_cols=143  Identities=11%  Similarity=-0.046  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccch-hHHHHHHHHHHH
Q 012365          252 PRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDD-EMAMEYHFSEIF  330 (465)
Q Consensus       252 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~  330 (465)
                      ...+..+...+.+.|++++|...|++..+........           ..+.+..+-        +. ...+..+-..++
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~-----------~~~~~~~~~--------~~~~~~~~nla~~~~  207 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSF-----------SNEEAQKAQ--------ALRLASHLNLAMCHL  207 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCC-----------CSHHHHHHH--------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccC-----------ChHHHHHHH--------HHHHHHHHHHHHHHH
Confidence            4456666677777777777777777665433221000           001111000        11 122333333222


Q ss_pred             HhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc
Q 012365          331 CQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLAS  409 (465)
Q Consensus       331 ~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  409 (465)
                      .      .|++++|+..+++.. .  +.| +...|..+..+|...|++++|...|++..+. .|.+...+..+..++.+.
T Consensus       208 ~------~g~~~~A~~~~~~al-~--~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l-~P~~~~a~~~l~~~~~~~  277 (336)
T 1p5q_A          208 K------LQAFSAAIESCNKAL-E--LDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL-YPNNKAAKTQLAVCQQRI  277 (336)
T ss_dssp             H------TTCHHHHHHHHHHHH-H--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHH
T ss_pred             H------cCCHHHHHHHHHHHH-H--hCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHH
Confidence            2      399999999999988 3  334 6778889999999999999999999999987 367788999999999999


Q ss_pred             CChhhH-HHHHhccC
Q 012365          410 GNRKSA-SKLLSKMP  423 (465)
Q Consensus       410 g~~~~A-~~~~~~m~  423 (465)
                      |++++| ..++++|.
T Consensus       278 ~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          278 RRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999998 55666665

>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=98.13  E-value=1.1e-05  Score=75.92  Aligned_cols=121  Identities=8%  Similarity=-0.086  Sum_probs=89.6

Q ss_pred             hHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHH
Q 012365          290 RLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLL  368 (465)
Q Consensus       290 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll  368 (465)
                      .+...+.+.|++++|++.|++..+..+.+...+..+-..++.      .|++++|++.+++.. +  +.| +...|..+.
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~------~g~~~~A~~~~~~al-~--l~p~~~~~~~~lg   81 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLR------TECYGYALGDATRAI-E--LDKKYIKGYYRRA   81 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH------TTCHHHHHHHHHHHH-H--SCTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHH------hcCHHHHHHHHHHHH-H--hCCCCHHHHHHHH
Confidence            344455688999999999999888544444445444444333      399999999999998 3  345 567888899


Q ss_pred             HHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHH--HHhcCChhhHHHHHh
Q 012365          369 GACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKA--FLASGNRKSASKLLS  420 (465)
Q Consensus       369 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~--~~~~g~~~~A~~~~~  420 (465)
                      .+|...|++++|.+.|++..+.. |.+...+..+..+  +.+.|++++|.+.++
T Consensus        82 ~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           82 ASNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999999999873 5566677777766  888999999999999

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.12  E-value=2.6e-05  Score=57.90  Aligned_cols=96  Identities=11%  Similarity=-0.064  Sum_probs=83.5

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHh
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNV   92 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~   92 (465)
                      .+..+...+.+.|++++|+..|++..+.... +...+..+..++...|++++|...|++..+.. +.+...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3455667888999999999999999886433 78888889999999999999999999999876 457889999999999


Q ss_pred             ccCCHHHHHHHHHHHHHc
Q 012365           93 KIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~  110 (465)
                      ..|++++|...|++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999998864

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.11  E-value=1.3e-05  Score=75.47  Aligned_cols=122  Identities=7%  Similarity=-0.036  Sum_probs=97.7

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      +...+.+.|++++|++.|++..+... -+...|..+..++.+.|++++|.+.+++..+.. +.+..++..+..+|...|+
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            34456778999999999999988643 368899999999999999999999999999875 5678899999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHH
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAG--YFRKKDVQGALMVLKE  141 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~~  141 (465)
                      +++|.+.|++..+.. +.+...+..+..+  +.+.|++++|++.+++
T Consensus        90 ~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           90 FRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            999999999988764 3345566666655  8888999999999883

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.11  E-value=3.5e-06  Score=62.31  Aligned_cols=91  Identities=11%  Similarity=0.063  Sum_probs=73.8

Q ss_pred             CCchhhhHHhHHHHHhhcCC-CC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhH
Q 012365          338 PPDVQIGLDLLQFIKDELGL-PP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSA  415 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~-~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  415 (465)
                      .|++++|+..|++.. ..+. .| +...+..+..++...|++++|...|++..+. .|.+..++..+..+|...|++++|
T Consensus         3 ~g~~~~A~~~~~~al-~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAI-ASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ-FPNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHH-SSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHH-HcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCchHHHHHHHHHHHHcCCHHHH
Confidence            488999999999998 3321 24 4567788889999999999999999999987 377788999999999999999999


Q ss_pred             HHHHhccCCCCCChh
Q 012365          416 SKLLSKMPKDDPHVR  430 (465)
Q Consensus       416 ~~~~~~m~~~~~~~~  430 (465)
                      ...+++.+...|...
T Consensus        81 ~~~~~~al~~~p~~~   95 (117)
T 3k9i_A           81 VELLLKIIAETSDDE   95 (117)
T ss_dssp             HHHHHHHHHHHCCCH
T ss_pred             HHHHHHHHHhCCCcH
Confidence            999999988766543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.10  E-value=0.00011  Score=68.09  Aligned_cols=201  Identities=12%  Similarity=0.023  Sum_probs=138.2

Q ss_pred             HHHHhcccCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CCCC
Q 012365           18 ITYSCDLLKVHVALDVVEQMVQGELVPS----------------TETINSILHACEESYEFNLVRRIYPMICHHN-LKPN   80 (465)
Q Consensus        18 i~~~~~~g~~~~A~~~~~~m~~~~~~p~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~   80 (465)
                      ...+.+.|++++|++.|..+.+......                ...+..+...|...|++++|.+.+..+.+.- -.++
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            3557789999999999999987532211                1247788899999999999999998876521 1122


Q ss_pred             H----HHHHHHHHHHhccCCHHHHHHHHHHHHH----cCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 012365           81 S----ETFRSMISLNVKIKDFDSAYSLLDDLKE----MNLMP-TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS  151 (465)
Q Consensus        81 ~----~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  151 (465)
                      .    .+.+.+-..+...|+++.|..+++....    .+..+ -..++..+...+...|++++|..++++....-...+ 
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~-  169 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD-  169 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS-
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc-
Confidence            2    2334444455567899999999887643    22222 245778899999999999999999988763210000 


Q ss_pred             HHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-----cCCCCC--hHHHHHHHH
Q 012365          152 QTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-----EIPVKS--RSEVKSALV  224 (465)
Q Consensus       152 ~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-----~~~~~~--~~~~~~~l~  224 (465)
                                                .-.....++..++..|...|++++|..++++.     ....++  ....+..+.
T Consensus       170 --------------------------~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g  223 (434)
T 4b4t_Q          170 --------------------------DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSG  223 (434)
T ss_dssp             --------------------------CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             --------------------------cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHH
Confidence                                      00112356777888999999999999998762     122211  123466777


Q ss_pred             HHHHcCCChhHHHHHHHHHHH
Q 012365          225 SALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       225 ~~~~~~g~~~~a~~~~~~m~~  245 (465)
                      ..+...|++++|...|.+..+
T Consensus       224 ~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          224 ILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHH
Confidence            788889999999988877654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.05  E-value=0.0011  Score=61.25  Aligned_cols=96  Identities=6%  Similarity=-0.030  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHh-----cCC-CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc--CCCCC---
Q 012365          183 KYVFMALINAYTTCGEFEKARQVVLDA-----EIP-VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA--GCNLE---  251 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g~~~~a~~~~~~~-----~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~--~~~p~---  251 (465)
                      ..++..+...|...|++++|..++++.     ... ......++..++..|...|++++|..++++....  .+..+   
T Consensus       135 ~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  214 (434)
T 4b4t_Q          135 HSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQT  214 (434)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHH
Confidence            345556666667777777777666651     111 1222234666666666677777776666655432  11111   


Q ss_pred             -HHHHHHHHHHHHccCcHHHHHHHHHHH
Q 012365          252 -PRAVIALIEHLNSEGELNRLIQLLEEV  278 (465)
Q Consensus       252 -~~~~~~ll~~~~~~g~~~~a~~~~~~~  278 (465)
                       ...+..+...+...|++++|...+.+.
T Consensus       215 ~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          215 VAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             HHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence             122333334445555555555554443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.03  E-value=0.00022  Score=53.24  Aligned_cols=92  Identities=7%  Similarity=-0.055  Sum_probs=56.5

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---HHHHHHHHHH
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPST---ETINSILHACEESYEFNLVRRIYPMICHHNLKPN---SETFRSMISL   90 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~   90 (465)
                      +...+.+.|++++|.+.|+...+.... +.   ..+..+..++...|++++|...++...+.. +.+   ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHH
Confidence            444556667777777777776654322 22   355556666666777777777777666543 222   4556666666


Q ss_pred             HhccCCHHHHHHHHHHHHHc
Q 012365           91 NVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~  110 (465)
                      +...|++++|...|++....
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66677777777777666654

>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=98.02  E-value=5.5e-05  Score=61.77  Aligned_cols=88  Identities=14%  Similarity=-0.065  Sum_probs=57.7

Q ss_pred             CCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHH-
Q 012365          338 PPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSAS-  416 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~-  416 (465)
                      .|++++|+..+++.. .. ...+...+..+..++...|++++|...|++..+. .|.+...+..+..++...|+.+++. 
T Consensus       101 ~~~~~~A~~~~~~al-~~-~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~~~~~~~~~  177 (198)
T 2fbn_A          101 NKDYPKAIDHASKVL-KI-DKNNVKALYKLGVANMYFGFLEEAKENLYKAASL-NPNNLDIRNSYELCVNKLKEARKKDK  177 (198)
T ss_dssp             TTCHHHHHHHHHHHH-HH-STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHHHHHC---
T ss_pred             hcCHHHHHHHHHHHH-Hh-CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH-CCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            388888888888887 32 1235667778888888899999999999988876 3667778888888888888887777 


Q ss_pred             HHHhccCCCCCC
Q 012365          417 KLLSKMPKDDPH  428 (465)
Q Consensus       417 ~~~~~m~~~~~~  428 (465)
                      ..+..|...+..
T Consensus       178 ~~~~~~f~~~~~  189 (198)
T 2fbn_A          178 LTFGGMFDKGPL  189 (198)
T ss_dssp             ------------
T ss_pred             HHHHHHhcccch
Confidence            666666655443

>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=98.02  E-value=7.6e-05  Score=69.78  Aligned_cols=123  Identities=12%  Similarity=-0.029  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPS--------------TETINSILHACEESYEFNLVRRIYPMICHHNL   77 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   77 (465)
                      ..|..+-..+.+.|++++|+..|++..+......              ...|..+..++.+.|++++|...++...+.. 
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  347 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-  347 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            3566666677777777777777777765322211              4566666666777777777777777766654 


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 012365           78 KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGAL  136 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  136 (465)
                      +.+...|..+..+|...|++++|...|++..+.. +.+...+..+..++.+.++.+++.
T Consensus       348 p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          348 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            3456666667777777777777777777766543 334555666666666666666554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.00  E-value=4.1e-05  Score=59.79  Aligned_cols=134  Identities=10%  Similarity=-0.013  Sum_probs=100.9

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCC-C
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELV-PS----TETINSILHACEESYEFNLVRRIYPMICHH----NLKP-N   80 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~   80 (465)
                      ..++..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|.+.++...+.    +.++ .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            456788888899999999999999988653111 12    146777888889999999999999987653    1111 1


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           81 SETFRSMISLNVKIKDFDSAYSLLDDLKEM----NLM-PTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ..++..+...+...|++++|...+++....    +.+ ....++..+...+...|++++|.+.+++..+
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            456778888899999999999999887533    111 1245677888899999999999999988764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.00  E-value=1.4e-05  Score=58.98  Aligned_cols=86  Identities=8%  Similarity=-0.050  Sum_probs=53.5

Q ss_pred             ccCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHH
Q 012365           24 LLKVHVALDVVEQMVQGE--LVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAY  101 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  101 (465)
                      .|++++|+..|++..+.+  -+-+...+..+..++...|++++|...+++..+.. +-+..++..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            466677777777776653  12234556666666777777777777777776654 345666666777777777777777


Q ss_pred             HHHHHHHHc
Q 012365          102 SLLDDLKEM  110 (465)
Q Consensus       102 ~~~~~m~~~  110 (465)
                      ..|++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            777766544

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.99  E-value=0.00088  Score=58.81  Aligned_cols=226  Identities=10%  Similarity=-0.043  Sum_probs=143.9

Q ss_pred             hcCCH-HHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCC----------hhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365          195 TCGEF-EKARQVVLDA-EIPVKSRSEVKSALVSALASHGR----------TSDAIIVYEEIKEAGCNLEPRAVIALIEHL  262 (465)
Q Consensus       195 ~~g~~-~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  262 (465)
                      +.|.+ ++|+++++.+ ...|... .+|+.--..+...+.          +++++.+++.+.....+ +..+|+.--..+
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~~y-taWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL  118 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPDFA-TLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLL  118 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTTCH-HHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhH-HHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            44444 4678888774 3444443 346543333332222          57888888888887632 566666555556


Q ss_pred             HccC--cHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCC-hhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhh----
Q 012365          263 NSEG--ELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQ-LSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIA----  334 (465)
Q Consensus       263 ~~~g--~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----  334 (465)
                      .+.+  .+++++.+++.+.+..+. ..+++.-.......+. ++++++.++.+.+..+.+...|+.....+.....    
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~~  198 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  198 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC--
T ss_pred             hccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhcccc
Confidence            6666  478888988888765432 3345444444455666 5899999999998777787777665443333211    


Q ss_pred             ----cCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhh-----------hhhhHHHHHHHHHHHcCCCCChhH
Q 012365          335 ----TTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNA-----------RDLKRAHLIWKEYENAGLPYNVLS  398 (465)
Q Consensus       335 ----~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~-----------g~~~~A~~~~~~m~~~g~~p~~~~  398 (465)
                          ....+.++++++.+....   ...| |...|+-+-..+.+.           +.++++++.++++.+.  .||. .
T Consensus       199 ~~~~~~~~~~~~eEle~~~~ai---~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~  272 (331)
T 3dss_A          199 GPQGRLPENVLLKELELVQNAF---FTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-K  272 (331)
T ss_dssp             ----CCCHHHHHHHHHHHHHHH---HHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-H
T ss_pred             ccccccchHHHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-c
Confidence                111156888999998888   3445 566666554444444           6788999999999986  4554 3


Q ss_pred             HHHHHHH-----HHhcCChhhHHHHHhccCCCCCC
Q 012365          399 YLWMYKA-----FLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       399 ~~~l~~~-----~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      |..+..+     ....|..+++...++++.+.||.
T Consensus       273 w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~  307 (331)
T 3dss_A          273 WCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM  307 (331)
T ss_dssp             HHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGG
T ss_pred             hHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcc
Confidence            4332222     22457788999999999988883

>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=97.99  E-value=9e-05  Score=67.03  Aligned_cols=123  Identities=8%  Similarity=-0.010  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhC---------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQG---------------ELVPSTETINSILHACEESYEFNLVRRIYPMICHHN   76 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~---------------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   76 (465)
                      ..|..+-..+.+.|++++|++.|++..+.               --+.+...|..+..++.+.|++++|.+.+++..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            34667777788888888888888887651               011134556666666777777777777777777654


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 012365           77 LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGAL  136 (465)
Q Consensus        77 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~  136 (465)
                       +.+...+..+..+|...|++++|...|++..+.. +.+...+..+...+...++.+++.
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence             3456667777777777777777777777766553 334555555555555555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.92  E-value=0.00022  Score=53.26  Aligned_cols=94  Identities=7%  Similarity=0.033  Sum_probs=78.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH---HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC---HHHHHHHH
Q 012365           50 NSILHACEESYEFNLVRRIYPMICHHNLKPNS---ETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT---ASMYNAIM  123 (465)
Q Consensus        50 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~li  123 (465)
                      ..+...+...|++++|...|+.+.+.. +.+.   ..+..+..++.+.|++++|...|++..... +.+   ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHH
Confidence            345667788999999999999998854 2233   577888899999999999999999998764 333   67788889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC
Q 012365          124 AGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       124 ~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      .++...|++++|...|++..+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999998864

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.85  E-value=0.0002  Score=56.11  Aligned_cols=64  Identities=11%  Similarity=0.018  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365           81 SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      ..+|..+..+|.+.|++++|...+++....+ +.+...|..+..+|...|++++|...|++..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            3566666667777777777777777766654 445666777777777777777777777766653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.84  E-value=0.00025  Score=55.63  Aligned_cols=100  Identities=7%  Similarity=-0.028  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhC--------C---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQG--------E---------LVPSTETINSILHACEESYEFNLVRRIYPMIC   73 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~--------~---------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   73 (465)
                      ...+...-..+.+.|++++|+..|....+.        .         -+.+...|..+..++.+.|++++|...++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456778888999999999999999998764        1         01134678888889999999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcC
Q 012365           74 HHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMN  111 (465)
Q Consensus        74 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  111 (465)
                      +.. +.+...|..+..+|...|++++|...|++.....
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            875 5678999999999999999999999999988764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.83  E-value=6.6e-05  Score=67.11  Aligned_cols=95  Identities=9%  Similarity=-0.028  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHH------------------HHHHHHHHHHhcCCHHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTE------------------TINSILHACEESYEFNLVRRIYPMI   72 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~------------------~~~~ll~~~~~~~~~~~a~~~~~~~   72 (465)
                      ...|..+-..+.+.|++++|+..|++..+.  .|+..                  .|..+..++.+.|++++|...++..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            345666777778888888888888887764  23332                  3333444444444444444444444


Q ss_pred             hhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 012365           73 CHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLK  108 (465)
Q Consensus        73 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  108 (465)
                      .+.. +.+...|..+..+|...|++++|...|++..
T Consensus       257 l~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al  291 (338)
T 2if4_A          257 LTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQ  291 (338)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTT
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4332 2234444444444444444444444444443

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.81  E-value=0.00092  Score=50.68  Aligned_cols=113  Identities=9%  Similarity=0.006  Sum_probs=95.1

Q ss_pred             ccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc----cCCHHH
Q 012365           24 LLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVK----IKDFDS   99 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~   99 (465)
                      .+++++|++.|++..+.|. |+..    |-..+...+.+++|.+.|++..+.|   ++..+..|-..|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            4678999999999999883 3433    6666667788899999999999876   67888888888887    899999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCC
Q 012365          100 AYSLLDDLKEMNLMPTASMYNAIMAGYFR----KKDVQGALMVLKEMEQANV  147 (465)
Q Consensus       100 a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~  147 (465)
                      |..+|++..+.|   +...+..|...|..    .++.++|.+.|++..+.|.
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999998865   67888889888988    8999999999999988764

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.81  E-value=9.9e-05  Score=57.51  Aligned_cols=86  Identities=10%  Similarity=-0.077  Sum_probs=61.0

Q ss_pred             CchhhhHHhHHHHHhhc---CCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CCCC-ChhHHHHHHHHHHhc
Q 012365          339 PDVQIGLDLLQFIKDEL---GLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENA----GLPY-NVLSYLWMYKAFLAS  409 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~---~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l~~~~~~~  409 (465)
                      |++++|...+++.....   +..+ ....+..+...+...|++++|...+++..+.    +.++ ...++..+...|...
T Consensus        63 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~  142 (164)
T 3ro3_A           63 GEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTAL  142 (164)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHc
Confidence            77777777776655211   1111 1346677888899999999999999988754    2111 134678888999999


Q ss_pred             CChhhHHHHHhccCC
Q 012365          410 GNRKSASKLLSKMPK  424 (465)
Q Consensus       410 g~~~~A~~~~~~m~~  424 (465)
                      |++++|.+.+++..+
T Consensus       143 g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          143 GNHDQAMHFAEKHLE  157 (164)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            999999999987653

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.78  E-value=2.9e-05  Score=72.65  Aligned_cols=91  Identities=13%  Similarity=-0.031  Sum_probs=69.4

Q ss_pred             CchhhhHHhHHHHHhhcCCCCc-------------HHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 012365          339 PDVQIGLDLLQFIKDELGLPPS-------------RKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKA  405 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p~-------------~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  405 (465)
                      |++++|+..|++......-.++             ...|..+..+|.+.|++++|...+++..+.. |.+...|..+..+
T Consensus       282 g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a  360 (457)
T 1kt0_A          282 GKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEA  360 (457)
T ss_dssp             TCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHH
Confidence            8888888888887721222111             4677788888889999999999999998873 6678888899999


Q ss_pred             HHhcCChhhHHHHHhccCCCCCChh
Q 012365          406 FLASGNRKSASKLLSKMPKDDPHVR  430 (465)
Q Consensus       406 ~~~~g~~~~A~~~~~~m~~~~~~~~  430 (465)
                      |...|++++|...|++.++.+|...
T Consensus       361 ~~~~g~~~~A~~~~~~al~l~P~~~  385 (457)
T 1kt0_A          361 QLLMNEFESAKGDFEKVLEVNPQNK  385 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC----
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCCH
Confidence            9999999999999999988887543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.75  E-value=0.00015  Score=67.91  Aligned_cols=124  Identities=4%  Similarity=-0.021  Sum_probs=90.2

Q ss_pred             HhcccCHHHHHHHHHHHHhC---CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh-----CCC-CCC-HHHHHH
Q 012365           21 SCDLLKVHVALDVVEQMVQG---ELVP----STETINSILHACEESYEFNLVRRIYPMICH-----HNL-KPN-SETFRS   86 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~---~~~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~   86 (465)
                      +...|++++|+.++++.++.   -..|    ...+++.|..+|...|++++|..++++..+     .|- .|+ ..+++.
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            55789999999999887542   1222    246788888899999999999998888764     221 222 457888


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHc---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           87 MISLNVKIKDFDSAYSLLDDLKEM---NLMPT----ASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        87 li~~~~~~g~~~~a~~~~~~m~~~---~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      |...|...|++++|+.++++..+.   -+-|+    ..+.+.+-.++...+.+++|+.+|..+++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999988876432   11122    33455666777788889999999988875

>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=97.70  E-value=0.00052  Score=62.03  Aligned_cols=73  Identities=15%  Similarity=0.014  Sum_probs=33.3

Q ss_pred             CchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhH
Q 012365          339 PDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSA  415 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  415 (465)
                      |++++|+..+++..   ...| +...|..+..+|...|++++|...|++..+. .|.+...+..+..++.+.++.+++
T Consensus       287 g~~~~A~~~~~~al---~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l-~P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          287 SDWQGAVDSCLEAL---EIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI-APEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             TCHHHHHHHHHHHH---TTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHH---HhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHHHHHH
Confidence            44555555554444   2223 2334444444455555555555555555443 133444444444444444444444

>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=97.70  E-value=0.00072  Score=51.92  Aligned_cols=95  Identities=9%  Similarity=-0.029  Sum_probs=65.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCC------CCH-----HHHHHHHHHHhccCCHHHHHHHHHHHHHc-------
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHNLK------PNS-----ETFRSMISLNVKIKDFDSAYSLLDDLKEM-------  110 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------~~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------  110 (465)
                      +......+...|++++|...|+...+..-.      .+.     ..|+.+..++.+.|++++|...+++....       
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            334444455566666666666665553211      022     37778888888888888888888877765       


Q ss_pred             CCCCCHHHH----HHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365          111 NLMPTASMY----NAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       111 ~~~~~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      + +-+...|    .....++...|++++|+..|++..+
T Consensus        94 ~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           94 N-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             T-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             C-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3 3345677    8888899999999999999998764

>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=97.64  E-value=0.00079  Score=51.73  Aligned_cols=98  Identities=9%  Similarity=-0.117  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCC------CH-----HHHHHHHHHHHhcCCHHHHHHHHHHHhhC-----
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVP------ST-----ETINSILHACEESYEFNLVRRIYPMICHH-----   75 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p------~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----   75 (465)
                      ..+...-..+.+.|++++|++.|++..+.....      +.     ..|..+..++.+.|++++|+..++..++.     
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            445666777888999999999999998743221      22     38888999999999999999999999885     


Q ss_pred             --CCCCCHHHH----HHHHHHHhccCCHHHHHHHHHHHHHc
Q 012365           76 --NLKPNSETF----RSMISLNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        76 --~~~~~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~~  110 (465)
                        . +-+...|    .....++...|++++|...|++..+.
T Consensus        92 e~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           92 ELN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             CTT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence              4 3346678    88999999999999999999988653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.64  E-value=0.00031  Score=65.64  Aligned_cols=130  Identities=9%  Similarity=0.034  Sum_probs=84.7

Q ss_pred             HhccCCHHHHHHHHHHHHHcC---CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCC
Q 012365           91 NVKIKDFDSAYSLLDDLKEMN---LMP----TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSN  163 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~---~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  163 (465)
                      +...|++++|+.++++..+..   +.|    ...+++.|...|...|++++|..++++..+.                  
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i------------------  380 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDG------------------  380 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH------------------
Confidence            457799999999988765431   112    2467899999999999999999999886531                  


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh--------cCCCCChHHHHHHHHHHHHcCCChhH
Q 012365          164 EEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA--------EIPVKSRSEVKSALVSALASHGRTSD  235 (465)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~g~~~~  235 (465)
                             ++...-...+-...+++.|...|...|++++|+.++++.        +...+....+.+.+-.++...+.+++
T Consensus       381 -------~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~  453 (490)
T 3n71_A          381 -------YMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQ  453 (490)
T ss_dssp             -------HHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -------HHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHH
Confidence                   111111111112456777788888888888888887651        11222222235566666767777777


Q ss_pred             HHHHHHHHHH
Q 012365          236 AIIVYEEIKE  245 (465)
Q Consensus       236 a~~~~~~m~~  245 (465)
                      |..++..+++
T Consensus       454 ae~~~~~~~~  463 (490)
T 3n71_A          454 NEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777777755

>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=97.61  E-value=0.00014  Score=55.73  Aligned_cols=93  Identities=11%  Similarity=0.034  Sum_probs=74.4

Q ss_pred             CchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhh----------hHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 012365          339 PDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDL----------KRAHLIWKEYENAGLPYNVLSYLWMYKAFL  407 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~----------~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  407 (465)
                      +.+++|++.++...   ...| +...|..+..++...+++          ++|+..|++..+.. |.+..+|..+..+|.
T Consensus        16 ~~feeA~~~~~~Ai---~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           16 LLFEQIRQDAENTY---KSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHH---HHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHH---HHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            56788888888887   3445 667777777788887765          59999999999973 667789999999999


Q ss_pred             hcC-----------ChhhHHHHHhccCCCCCChhHHHHH
Q 012365          408 ASG-----------NRKSASKLLSKMPKDDPHVRFVIQA  435 (465)
Q Consensus       408 ~~g-----------~~~~A~~~~~~m~~~~~~~~~~l~~  435 (465)
                      ..|           ++++|.+.|++.++.+|.......+
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~a  130 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKS  130 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            875           8999999999999988876444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.58  E-value=0.00036  Score=50.92  Aligned_cols=81  Identities=11%  Similarity=0.050  Sum_probs=68.7

Q ss_pred             hhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhc
Q 012365          343 IGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSK  421 (465)
Q Consensus       343 ~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  421 (465)
                      .|+..|++..   ...| +...+..+...+...|++++|...|++..+.. |.+...|..+..+|...|++++|...+++
T Consensus         3 ~a~~~~~~al---~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            3 AITERLEAML---AQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CHHHHHHHHH---TTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHH---HhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4667777776   3445 56788889999999999999999999999873 66788999999999999999999999999


Q ss_pred             cCCCCC
Q 012365          422 MPKDDP  427 (465)
Q Consensus       422 m~~~~~  427 (465)
                      ..+..+
T Consensus        79 al~~~~   84 (115)
T 2kat_A           79 GLAAAQ   84 (115)
T ss_dssp             HHHHHH
T ss_pred             HHHhcc
Confidence            887554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.57  E-value=0.00041  Score=50.03  Aligned_cols=69  Identities=12%  Similarity=0.016  Sum_probs=50.7

Q ss_pred             cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          360 SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       360 ~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      +...+..+...+...|++++|...|++..+. .|.+...|..+..+|.+.|++++|.+.+++.++.+|..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~   71 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA-QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTA   71 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSST
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCc
Confidence            4456666777777778888888888877776 35567777777777888888888888888777766654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.57  E-value=0.00042  Score=49.95  Aligned_cols=91  Identities=7%  Similarity=-0.094  Sum_probs=53.7

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC------HHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPN------SET   83 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~   83 (465)
                      +...|..+...+.+.|++++|++.|++..+... .+...+..+..++...|++++|.+.++...+.. +.+      ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT-STAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-SSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCccHHHHHHHH
Confidence            455666666677777777777777777666432 255666666666677777777777777766543 222      334


Q ss_pred             HHHHHHHHhccCCHHHHHH
Q 012365           84 FRSMISLNVKIKDFDSAYS  102 (465)
Q Consensus        84 ~~~li~~~~~~g~~~~a~~  102 (465)
                      +..+..++...|+.+.|..
T Consensus        81 ~~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHHhHhhhHh
Confidence            4444444444444444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.56  E-value=0.00069  Score=49.38  Aligned_cols=77  Identities=10%  Similarity=0.026  Sum_probs=41.8

Q ss_pred             HHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365           65 VRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus        65 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                      +.+.|+...+.. +.+...+..+...|...|++++|...|++..... +.+...|..+..++...|++++|...|++..
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344455444433 3345555555555555666666666665555443 3345555555556666666666666665554

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.53  E-value=0.0012  Score=45.39  Aligned_cols=62  Identities=15%  Similarity=0.168  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      .+..+...+...|++++|...++...+.. +.+...+..+..++.+.|++++|...|++....
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34444444445555555555555544432 233444455555555555555555555554443

>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=97.49  E-value=0.0023  Score=61.30  Aligned_cols=171  Identities=7%  Similarity=-0.071  Sum_probs=110.0

Q ss_pred             ChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCc----------HHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcC
Q 012365          232 RTSDAIIVYEEIKEAGCNLEPR-AVIALIEHLNSEGE----------LNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFK  299 (465)
Q Consensus       232 ~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  299 (465)
                      ..++|++.++++...+  |+.. .|+.--.++.+.|+          ++++++.++.+.+..+. ...|..-.....+.+
T Consensus        44 ~~eeal~~~~~~l~~n--P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcc
Confidence            3446677777777665  4433 33332333333333          67777777776654432 234444344444556


Q ss_pred             --ChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCC-chhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhh-
Q 012365          300 --QLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPP-DVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNA-  374 (465)
Q Consensus       300 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~-  374 (465)
                        +++++++.++++.+..+.+...|+.--..+...      | .++++++.++++.   ...| |...|+.....+.+. 
T Consensus       122 ~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l------~~~~~~el~~~~~~I---~~~p~n~saW~~r~~ll~~l~  192 (567)
T 1dce_A          122 EPNWARELELCARFLEADERNFHCWDYRRFVAAQA------AVAPAEELAFTDSLI---TRNFSNYSSWHYRSCLLPQLH  192 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT------CCCHHHHHHHHHTTT---TTTCCCHHHHHHHHHHHHHHS
T ss_pred             cccHHHHHHHHHHHHhhccccccHHHHHHHHHHHc------CCChHHHHHHHHHHH---HHCCCCccHHHHHHHHHHhhc
Confidence              568888888888887777777776543322222      5 6788888888887   3444 566676655555442 


Q ss_pred             -------------hhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhh
Q 012365          375 -------------RDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKS  414 (465)
Q Consensus       375 -------------g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  414 (465)
                                   +.++++.+.+++.... .|-|...|..+...+.+.++.++
T Consensus       193 ~~~~~~~~~~~~~~~~~eel~~~~~ai~~-~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          193 PQPDSGPQGRLPENVLLKELELVQNAFFT-DPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCCCSSSCCSSCHHHHHHHHHHHHHHHHH-CSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccccccccHHHHHHHHHHHHHHHhh-CCCCccHHHHHHHHHhcCCCccc
Confidence                         7789999999999987 37788899998888888888666

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.48  E-value=0.00028  Score=62.97  Aligned_cols=92  Identities=12%  Similarity=0.021  Sum_probs=72.7

Q ss_pred             CCCchhhhHHhHHHHHhhcCCCCcHH------------------HHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhH
Q 012365          337 DPPDVQIGLDLLQFIKDELGLPPSRK------------------CLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLS  398 (465)
Q Consensus       337 ~~~~~~~A~~~~~~m~~~~~~~p~~~------------------~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  398 (465)
                      ..|++++|+..|++..   ...|+..                  .|..+..++.+.|++++|...+++..+.. +.+...
T Consensus       191 ~~g~~~~A~~~y~~Al---~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a  266 (338)
T 2if4_A          191 KEEKLEEAMQQYEMAI---AYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPKA  266 (338)
T ss_dssp             SSSCCHHHHHHHHHHH---HHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHH
T ss_pred             hcCCHHHHHHHHHHHH---HHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            3588899998888877   3445543                  77888889999999999999999999873 668889


Q ss_pred             HHHHHHHHHhcCChhhHHHHHhccCCCCCChhHH
Q 012365          399 YLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFV  432 (465)
Q Consensus       399 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  432 (465)
                      |..+..+|...|++++|...|++.++.+|.....
T Consensus       267 ~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a  300 (338)
T 2if4_A          267 LFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAI  300 (338)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHTTC--------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHH
Confidence            9999999999999999999999999988865433

>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=97.47  E-value=0.0078  Score=57.63  Aligned_cols=118  Identities=8%  Similarity=-0.040  Sum_probs=92.4

Q ss_pred             cCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc
Q 012365           25 LKVHVALDVVEQMVQGELVPSTETINSILHACEESYE----------FNLVRRIYPMICHHNLKPNSETFRSMISLNVKI   94 (465)
Q Consensus        25 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~   94 (465)
                      ...++|++.++.+.+.... +...|+.--.++...|+          ++++.+.++.+.+.. +-+..+|+.-..++.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3456889999999886544 56677766666666666          888999999988876 56788888888888888


Q ss_pred             C--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHC
Q 012365           95 K--DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK-DVQGALMVLKEMEQA  145 (465)
Q Consensus        95 g--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~  145 (465)
                      +  +++++.+.++++.+.+ +.+..+|+.-...+.+.| .++++++.++++.+.
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~  173 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR  173 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence            8  6699999999998876 578888888887778888 788888888887754

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.44  E-value=0.0014  Score=45.08  Aligned_cols=83  Identities=11%  Similarity=0.066  Sum_probs=67.8

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      +...|..+...+.+.|++++|+..|++..+... .+...+..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            356788888899999999999999999987643 367888889999999999999999999998865 456777777666


Q ss_pred             HHhcc
Q 012365           90 LNVKI   94 (465)
Q Consensus        90 ~~~~~   94 (465)
                      ++.+.
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            65543

>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=97.36  E-value=0.00086  Score=51.41  Aligned_cols=87  Identities=9%  Similarity=0.049  Sum_probs=51.9

Q ss_pred             hcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH----------HHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           22 CDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFN----------LVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        22 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~----------~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      .+.+.+++|++.++...+.... +...|..+..++...++++          +|+..|++.++.. +-+..+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            3456677888888877776433 6777777777777666543          6666666665554 33455566666655


Q ss_pred             hccC-----------CHHHHHHHHHHHHHc
Q 012365           92 VKIK-----------DFDSAYSLLDDLKEM  110 (465)
Q Consensus        92 ~~~g-----------~~~~a~~~~~~m~~~  110 (465)
                      ...|           ++++|.+.|++..+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            5543           455555555544443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.31  E-value=0.00087  Score=47.45  Aligned_cols=67  Identities=13%  Similarity=0.064  Sum_probs=59.0

Q ss_pred             cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCC
Q 012365          360 SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDP  427 (465)
Q Consensus       360 ~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  427 (465)
                      +...+..+..++...|++++|...|++..+.. |.+...|..+..+|...|++++|.+.+++.++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~   72 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAR   72 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhh
Confidence            56678888899999999999999999999874 66788999999999999999999999999876443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.16  E-value=0.0031  Score=44.54  Aligned_cols=63  Identities=16%  Similarity=0.128  Sum_probs=36.7

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365           80 NSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                      +...+..+..+|...|++++|...|++..+.+ +.+...|..+..+|...|++++|.+.|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44555555566666666666666666655543 3345556666666666666666666665554

>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=97.15  E-value=0.022  Score=42.87  Aligned_cols=80  Identities=15%  Similarity=0.118  Sum_probs=64.2

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHH
Q 012365           59 SYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR----KKDVQG  134 (465)
Q Consensus        59 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~  134 (465)
                      .+++++|.+.|+...+.| .|+..    |-..|..-+.+++|.+.|++..+.|   +...+..|...|..    .++.++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            357889999999999888 44444    6677777788888999999988865   67788888888887    789999


Q ss_pred             HHHHHHHHHHCC
Q 012365          135 ALMVLKEMEQAN  146 (465)
Q Consensus       135 a~~~~~~m~~~~  146 (465)
                      |++.|++..+.|
T Consensus        80 A~~~~~~Aa~~g   91 (138)
T 1klx_A           80 AAQYYSKACGLN   91 (138)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCC
Confidence            999998887654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.03  E-value=0.00092  Score=47.05  Aligned_cols=60  Identities=18%  Similarity=0.217  Sum_probs=36.9

Q ss_pred             HHhHhhhhhhHHHHHHHHHHHcCCCCChh-HHHHHHHHHHhcCChhhHHHHHhccCCCCCCh
Q 012365          369 GACVNARDLKRAHLIWKEYENAGLPYNVL-SYLWMYKAFLASGNRKSASKLLSKMPKDDPHV  429 (465)
Q Consensus       369 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  429 (465)
                      ..+...|++++|...+++..+. .|.+.. .+..+..+|...|++++|.+.|++.++.+|..
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~   68 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQT-EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDS   68 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH-CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH-CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCc
Confidence            3445566666666666666654 244455 66666666666666666666666666655544

>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=97.01  E-value=0.02  Score=50.56  Aligned_cols=75  Identities=8%  Similarity=-0.017  Sum_probs=65.2

Q ss_pred             CCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHH
Q 012365          358 PPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQ  434 (465)
Q Consensus       358 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~  434 (465)
                      ..++.+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++....+|..++..-
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~t~~~  348 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGANTLYW  348 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcChHHH
Confidence            5577788888777777899999999999999975  88888888899999999999999999999999998765443

>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=97.00  E-value=0.02  Score=50.60  Aligned_cols=149  Identities=11%  Similarity=-0.010  Sum_probs=102.1

Q ss_pred             CCCCCHHHHHHHHHHHhc--c---cCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cC--CHHHH---HHHHHHH
Q 012365            6 EITPSSASYKKLITYSCD--L---LKVHVALDVVEQMVQGELVPSTETINSILHACEE---SY--EFNLV---RRIYPMI   72 (465)
Q Consensus         6 ~~~p~~~~y~~li~~~~~--~---g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~---~~--~~~~a---~~~~~~~   72 (465)
                      +.+.|...|...+++...  .   .+..+|..+|++..+..+. ....|..+.-++.-   .+  .....   ...++..
T Consensus       189 ~~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          189 ILPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPE-FTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             HSCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            355677888888877643  2   3468999999999886432 34555544444321   11  11111   1122221


Q ss_pred             hh-CCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 012365           73 CH-HNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDS  151 (465)
Q Consensus        73 ~~-~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  151 (465)
                      .. ...+.++.+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|++....  .|..
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~  343 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGA  343 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCc
Confidence            11 1225678888888877888899999999999999885  88888888889999999999999999988864  5777


Q ss_pred             HHHHHHHH
Q 012365          152 QTFSYLIH  159 (465)
Q Consensus       152 ~~~~~ll~  159 (465)
                      .||...-.
T Consensus       344 ~t~~~~~~  351 (372)
T 3ly7_A          344 NTLYWIEN  351 (372)
T ss_dssp             HHHHHHHH
T ss_pred             ChHHHHhC
Confidence            77655444

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.95  E-value=0.0036  Score=43.39  Aligned_cols=69  Identities=10%  Similarity=0.015  Sum_probs=57.8

Q ss_pred             CcHHHHHHHHHHhHhhhh---hhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          359 PSRKCLDFLLGACVNARD---LKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       359 p~~~~~~~ll~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      +++..+..+..++...++   .++|..++++..+.. |.++..+..+...+.+.|++++|...|+++++.+|.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            466677777777655544   789999999999974 778889999999999999999999999999987774

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.85  E-value=0.0025  Score=48.27  Aligned_cols=89  Identities=13%  Similarity=0.075  Sum_probs=69.7

Q ss_pred             CchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhh---hhhHHHHHHHHHHHcCCCC--ChhHHHHHHHHHHhcCChh
Q 012365          339 PDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNAR---DLKRAHLIWKEYENAGLPY--NVLSYLWMYKAFLASGNRK  413 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g---~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~  413 (465)
                      ..+..+.+-|.+.. ..+. ++..+.-.+.+++++.+   +++++..++++..+.+ .|  +...+-.|.-+|.+.|+++
T Consensus        12 ~~l~~~~~~y~~e~-~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~   88 (152)
T 1pc2_A           12 EDLLKFEKKFQSEK-AAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   88 (152)
T ss_dssp             HHHHHHHHHHHHHH-HTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHH
T ss_pred             HHHHHHHHHHHHHH-ccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHH
Confidence            34455566666655 3333 67777778888888877   7889999999999874 34  4567777888999999999


Q ss_pred             hHHHHHhccCCCCCChh
Q 012365          414 SASKLLSKMPKDDPHVR  430 (465)
Q Consensus       414 ~A~~~~~~m~~~~~~~~  430 (465)
                      +|.++++.+++.+|.+.
T Consensus        89 ~A~~y~~~lL~ieP~n~  105 (152)
T 1pc2_A           89 KALKYVRGLLQTEPQNN  105 (152)
T ss_dssp             HHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHhcCCCCH
Confidence            99999999999999774

>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=96.80  E-value=0.0021  Score=59.03  Aligned_cols=87  Identities=11%  Similarity=0.082  Sum_probs=67.6

Q ss_pred             CCchhhhHHhHHHHHhh--cCCC---Cc-HHHHHHHHHHhHhhhhhhHHHHHHHHHHHc-----C--CCCChhHHHHHHH
Q 012365          338 PPDVQIGLDLLQFIKDE--LGLP---PS-RKCLDFLLGACVNARDLKRAHLIWKEYENA-----G--LPYNVLSYLWMYK  404 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~--~~~~---p~-~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~-----g--~~p~~~~~~~l~~  404 (465)
                      .|++++|+.++++....  .-+.   |+ ..+++.|..+|..+|++++|..++++..+.     |  .|....+++.|..
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            47888888888876621  1222   32 367889999999999999999999998742     2  1223348999999


Q ss_pred             HHHhcCChhhHHHHHhccCC
Q 012365          405 AFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       405 ~~~~~g~~~~A~~~~~~m~~  424 (465)
                      .|...|++++|..++++.++
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999998775

>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=96.58  E-value=0.0068  Score=55.64  Aligned_cols=62  Identities=13%  Similarity=0.137  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHc-----C-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365           82 ETFRSMISLNVKIKDFDSAYSLLDDLKEM-----N-LMP-TASMYNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus        82 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~-~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                      .+++.|..+|...|++++|+.++++..+.     | -.| ...+++.|...|...|++++|+.++++..
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            45556666666666666666665554321     1 011 13346666666666666666666666554

>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=96.44  E-value=0.016  Score=53.25  Aligned_cols=92  Identities=10%  Similarity=0.053  Sum_probs=62.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCC---CCC----CHHHHHHHHHHHhccCCHHHHHHHHHHHHHc-----C-CCC-CHHH
Q 012365           53 LHACEESYEFNLVRRIYPMICHHN---LKP----NSETFRSMISLNVKIKDFDSAYSLLDDLKEM-----N-LMP-TASM  118 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~-~~~-~~~~  118 (465)
                      +..+...|++++|+.++++..+..   +.|    ...+++.|..+|...|++++|+.++++....     | -.| ...+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            344556778888888888776521   122    2457778888888888888888888766432     2 112 2456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365          119 YNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       119 ~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ++.|...|...|++++|+.++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            77888888888888888888887653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.40  E-value=0.021  Score=39.78  Aligned_cols=52  Identities=10%  Similarity=0.056  Sum_probs=21.6

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHHHH
Q 012365           57 EESYEFNLVRRIYPMICHHNLKPNSE-TFRSMISLNVKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        57 ~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~  109 (465)
                      ...|++++|.+.++...+.. +.+.. .+..+..+|...|++++|...|++..+
T Consensus        11 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A           11 INQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33444444444444444332 22333 444444444444444444444444433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.39  E-value=0.013  Score=41.68  Aligned_cols=78  Identities=15%  Similarity=-0.008  Sum_probs=59.8

Q ss_pred             cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcC------CCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHH
Q 012365          360 SRKCLDFLLGACVNARDLKRAHLIWKEYENAG------LPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVI  433 (465)
Q Consensus       360 ~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g------~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l  433 (465)
                      +..-+-.+...+.+.|++..|...|++..+.-      -.+....+..|..+|.+.|++++|..++++.++.+|.....+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            33444567777888999999999998887641      134556888999999999999999999999998888776665


Q ss_pred             HHHH
Q 012365          434 QACK  437 (465)
Q Consensus       434 ~~~~  437 (465)
                      ....
T Consensus        84 ~n~~   87 (104)
T 2v5f_A           84 GNLK   87 (104)
T ss_dssp             HHHH
T ss_pred             hhHH
Confidence            5443

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.36  E-value=0.018  Score=52.84  Aligned_cols=92  Identities=12%  Similarity=0.033  Sum_probs=60.8

Q ss_pred             HHHHhcccCHHHHHHHHHHHHhCC---CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh-----CC-CCCC-HHH
Q 012365           18 ITYSCDLLKVHVALDVVEQMVQGE---LVP----STETINSILHACEESYEFNLVRRIYPMICH-----HN-LKPN-SET   83 (465)
Q Consensus        18 i~~~~~~g~~~~A~~~~~~m~~~~---~~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~-~~~~-~~~   83 (465)
                      +..+.+.|++++|++++++..+..   ..|    ...+++.+..+|...|++++|+.++++..+     .| ..|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            445556778888888887776421   122    235677777777778888888888777664     22 1222 346


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHH
Q 012365           84 FRSMISLNVKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        84 ~~~li~~~~~~g~~~~a~~~~~~m~~  109 (465)
                      ++.|...|...|++++|+.++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            77777778888888888877777665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.84  E-value=0.091  Score=36.18  Aligned_cols=65  Identities=11%  Similarity=0.040  Sum_probs=34.0

Q ss_pred             CCHHHHHHHHHHHhccCC---HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           79 PNSETFRSMISLNVKIKD---FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        79 ~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .|+..+..+..++...++   .++|..++++..+.+ +-++.....+...+.+.|++++|+..|+++.+
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344444444444433322   455555555555543 34455555555555566666666666666554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.81  E-value=0.34  Score=48.68  Aligned_cols=152  Identities=16%  Similarity=0.265  Sum_probs=92.8

Q ss_pred             HHhcccCHHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHH
Q 012365           20 YSCDLLKVHVALD-VVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFD   98 (465)
Q Consensus        20 ~~~~~g~~~~A~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~   98 (465)
                      .....+++++|.+ ++..     + |+......++..+.+.|.++.|.++.+         +..   .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~---------~~~---~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISP---------DQD---QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCC---------CHH---HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCC---------Ccc---hheehhhhcCCHH
Confidence            3345889999977 5522     1 112334677788888999999887653         111   1133456789999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcC
Q 012365           99 SAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAG  178 (465)
Q Consensus        99 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~  178 (465)
                      .|.++.+.+      .+...|..+...+.+.|+++.|.+.|..+.+      ......+.....+.+.+.++.+.....|
T Consensus       670 ~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d------~~~l~~l~~~~~~~~~~~~~~~~a~~~~  737 (814)
T 3mkq_A          670 LARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD------LESLFLLHSSFNNKEGLVTLAKDAETTG  737 (814)
T ss_dssp             HHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC------HHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC------hhhhHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            999986433      4678999999999999999999999998753      2222222222333333333333333333


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 012365          179 GQITKYVFMALINAYTTCGEFEKARQVVL  207 (465)
Q Consensus       179 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  207 (465)
                      -      ++....+|.+.|++++|.+++.
T Consensus       738 ~------~~~A~~~~~~~g~~~~a~~~~~  760 (814)
T 3mkq_A          738 K------FNLAFNAYWIAGDIQGAKDLLI  760 (814)
T ss_dssp             C------HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             c------hHHHHHHHHHcCCHHHHHHHHH
Confidence            1      2333344555555555555554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.52  E-value=0.057  Score=39.27  Aligned_cols=88  Identities=14%  Similarity=0.025  Sum_probs=63.1

Q ss_pred             chhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhh---HHHHHHHHHHHcCCCC--ChhHHHHHHHHHHhcCChhh
Q 012365          340 DVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLK---RAHLIWKEYENAGLPY--NVLSYLWMYKAFLASGNRKS  414 (465)
Q Consensus       340 ~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~---~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~  414 (465)
                      .+..+.+-|.+.. ..+. |+..+--.+.+++.+..+..   ++..+++++.+.+ .|  .....-.|.-++.+.|++++
T Consensus        16 ~l~~~~~~y~~e~-~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           16 DLLKFEKKFQSEK-AAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHH-HHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHh-ccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            3444555555554 3333 66766667777877766544   5889999988764 23  33455667779999999999


Q ss_pred             HHHHHhccCCCCCChh
Q 012365          415 ASKLLSKMPKDDPHVR  430 (465)
Q Consensus       415 A~~~~~~m~~~~~~~~  430 (465)
                      |.++++.+++..|.+.
T Consensus        93 A~~~~~~lL~~eP~n~  108 (126)
T 1nzn_A           93 ALKYVRGLLQTEPQNN  108 (126)
T ss_dssp             HHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHhCCCCH
Confidence            9999999999999774

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.48  E-value=0.46  Score=47.73  Aligned_cols=24  Identities=13%  Similarity=-0.085  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHH
Q 012365          253 RAVIALIEHLNSEGELNRLIQLLE  276 (465)
Q Consensus       253 ~~~~~ll~~~~~~g~~~~a~~~~~  276 (465)
                      ..|..+...+.+.++++.|.+.|.
T Consensus       682 ~~W~~la~~al~~~~~~~A~~~y~  705 (814)
T 3mkq_A          682 MKWRALGDASLQRFNFKLAIEAFT  705 (814)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHH
Confidence            333344444444444444443333

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.47  E-value=0.15  Score=35.85  Aligned_cols=66  Identities=6%  Similarity=-0.055  Sum_probs=32.3

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGE------LVPSTETINSILHACEESYEFNLVRRIYPMICHH   75 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   75 (465)
                      +...+-.+...+.+.|++..|...|+...+.-      -.+....+..+..++.+.|+++.|...++.+.+.
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            33344445555555566666665555544310      1123344445555555555555555555555443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.46  E-value=0.082  Score=40.01  Aligned_cols=84  Identities=8%  Similarity=-0.014  Sum_probs=52.0

Q ss_pred             cCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCCC--CHHHHHHHHHHHhccCCHHH
Q 012365           25 LKVHVALDVVEQMVQGELVPSTETINSILHACEESY---EFNLVRRIYPMICHHNLKP--NSETFRSMISLNVKIKDFDS   99 (465)
Q Consensus        25 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~   99 (465)
                      .....+.+-|.+..+.|. ++..+...+..++++.+   +.+++..+++...+.. .|  +...+-.|.-+|.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHH
Confidence            345556666666655554 46666666666777766   5557777777776654 23  23444445555677777777


Q ss_pred             HHHHHHHHHHc
Q 012365          100 AYSLLDDLKEM  110 (465)
Q Consensus       100 a~~~~~~m~~~  110 (465)
                      |.+.++.+.+.
T Consensus        90 A~~y~~~lL~i  100 (152)
T 1pc2_A           90 ALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            77777777664

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.06  E-value=0.39  Score=35.97  Aligned_cols=62  Identities=13%  Similarity=0.101  Sum_probs=38.5

Q ss_pred             hhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHH
Q 012365          375 RDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACK  437 (465)
Q Consensus       375 g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~  437 (465)
                      +|+++|+++|+.+++.+-.. ...|.....--.+.|+...|.+++.+....++.+.-++....
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~  135 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIAL  135 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHH
Confidence            66777777777776543333 556666666666677777777777777666666555544433

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.90  E-value=0.77  Score=33.64  Aligned_cols=131  Identities=15%  Similarity=0.063  Sum_probs=91.4

Q ss_pred             HHHHHHH--HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC---------------
Q 012365           14 YKKLITY--SCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHN---------------   76 (465)
Q Consensus        14 y~~li~~--~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------------   76 (465)
                      ...|+.+  +.-.|.+++..++..+.....   +..-||-++-.....-+-+-..++++.+-+.-               
T Consensus         8 ~kkLmeAK~~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~   84 (172)
T 1wy6_A            8 IRKLMDAKKFLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECG   84 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHH
Confidence            3444544  334688999999999887643   44556655555555555555555555543210               


Q ss_pred             --CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 012365           77 --LKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK  148 (465)
Q Consensus        77 --~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  148 (465)
                        ...+....+..++.+...|.-+.-.+++..+... .+|++...-.+..+|.+.|+..+|.+++.+.-+.|++
T Consensus        85 ~~~n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           85 VINNTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHTTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHhcchHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence              1124556677888888889999999998886443 3788899999999999999999999999999988863

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.77  E-value=1.1  Score=34.81  Aligned_cols=45  Identities=13%  Similarity=0.124  Sum_probs=22.3

Q ss_pred             cCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHc
Q 012365          229 SHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVH  279 (465)
Q Consensus       229 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  279 (465)
                      ..|+++.|.++.+++      -+...|..|-......|+++-|.+.|....
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~   61 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH   61 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC
Confidence            345555555544433      234455555555555555555555555443

>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=94.72  E-value=0.17  Score=37.00  Aligned_cols=76  Identities=7%  Similarity=0.013  Sum_probs=55.8

Q ss_pred             CCCCcHHHHHHHHHHhHhh---hhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhH
Q 012365          356 GLPPSRKCLDFLLGACVNA---RDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRF  431 (465)
Q Consensus       356 ~~~p~~~~~~~ll~~~~~~---g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  431 (465)
                      +-.|+..+--.+.+++.+.   .+..++..+++++.+.+-.-....+-.|.-++.+.|++++|.++.+.+++..|.+.-
T Consensus        35 ~~~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           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  113 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHH
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHH
Confidence            4445555555555666554   466789999999988651123446677778999999999999999999999998743

>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=94.69  E-value=0.15  Score=43.18  Aligned_cols=86  Identities=16%  Similarity=0.142  Sum_probs=68.7

Q ss_pred             chhhhHHhHHHHHhhcCCCCc---HHHHHHHHHHhHh-----hhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc-C
Q 012365          340 DVQIGLDLLQFIKDELGLPPS---RKCLDFLLGACVN-----ARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLAS-G  410 (465)
Q Consensus       340 ~~~~A~~~~~~m~~~~~~~p~---~~~~~~ll~~~~~-----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~-g  410 (465)
                      ....|...+++..   .+.|+   ...|..+...|..     -|+.++|.+.|++..+.+-.-+..++..+...|++. |
T Consensus       178 ~l~~A~a~lerAl---eLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          178 TVHAAVMMLERAC---DLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHH---HHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTT
T ss_pred             hHHHHHHHHHHHH---HhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcC
Confidence            4556667777776   56676   5678888888888     499999999999999963112488999999999995 9


Q ss_pred             ChhhHHHHHhccCCCCCC
Q 012365          411 NRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       411 ~~~~A~~~~~~m~~~~~~  428 (465)
                      +.++|.+++++.+..++.
T Consensus       255 d~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGG
T ss_pred             CHHHHHHHHHHHHcCCCC
Confidence            999999999999987765

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.23  E-value=1.1  Score=32.75  Aligned_cols=137  Identities=15%  Similarity=0.173  Sum_probs=72.0

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHH
Q 012365           94 IKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQ  173 (465)
Q Consensus        94 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~  173 (465)
                      .|..++..++..+....   .+..-||-+|.-....-+-+-..++++..-..   -|       +..|++...+..-+- 
T Consensus        20 dG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FD-------is~C~NlKrVi~C~~-   85 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD-------LDKCQNLKSVVECGV-   85 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC-------GGGCSCTHHHHHHHH-
T ss_pred             hhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cC-------cHhhhcHHHHHHHHH-
Confidence            45566666666665542   34444555555555555555555555544321   11       122333333222221 


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC
Q 012365          174 LKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGC  248 (465)
Q Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  248 (465)
                        ..+  .+...+...++.+...|+-++-.+++.++.....+..+..-.+..+|.+.|+..+|.+++.+..++|+
T Consensus        86 --~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           86 --INN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             --HTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             --Hhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence              111  23444555666777777777777777663223332333355667777777777777777777777775

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.22  E-value=0.4  Score=35.55  Aligned_cols=73  Identities=5%  Similarity=0.006  Sum_probs=55.0

Q ss_pred             CCcHHHHHHHHHHhHhh---hhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChh
Q 012365          358 PPSRKCLDFLLGACVNA---RDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVR  430 (465)
Q Consensus       358 ~p~~~~~~~ll~~~~~~---g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  430 (465)
                      .|+..+--.+.+++.+.   .+..++..+++++.+.+-.-.....-.|.-++.+.|++++|.++.+.+++..|.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~  111 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNK  111 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcH
Confidence            56666655666666665   46678999999998854222334556677799999999999999999999999874

>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=93.91  E-value=0.62  Score=39.50  Aligned_cols=63  Identities=5%  Similarity=-0.043  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHhc-----CCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHc
Q 012365           48 TINSILHACEES-----YEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI-KDFDSAYSLLDDLKEM  110 (465)
Q Consensus        48 ~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~  110 (465)
                      .|..+...|...     |+.++|.+.|++..+.+-.-+..++......+++. |+.+.+.+.+++....
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a  269 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAI  269 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcC
Confidence            444444444442     55555555555555443111244444444444442 5555555555555443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.71  E-value=0.68  Score=33.62  Aligned_cols=91  Identities=7%  Similarity=-0.046  Sum_probs=51.8

Q ss_pred             HHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHhhCCCCC--CHHHHHHHHHHHh
Q 012365           18 ITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNL---VRRIYPMICHHNLKP--NSETFRSMISLNV   92 (465)
Q Consensus        18 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~   92 (465)
                      +..-.....+..+.+-|......|. |+..+--.+..++.+.++...   +..+++.+.+.+ .|  .....-.|.-++.
T Consensus         8 l~~~~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~y   85 (126)
T 1nzn_A            8 LNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNY   85 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHH
T ss_pred             HhccCCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHH
Confidence            3333344455556666665555443 455555556666666655544   666676666653 22  2233334445566


Q ss_pred             ccCCHHHHHHHHHHHHHc
Q 012365           93 KIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~  110 (465)
                      +.|+++.|.+.++.+.+.
T Consensus        86 klg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           86 RLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHh
Confidence            777777777777776654

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=93.32  E-value=1.6  Score=39.39  Aligned_cols=72  Identities=8%  Similarity=0.176  Sum_probs=58.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HCCCCCCHHHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME-----QANVKPDSQTFS  155 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~~~~p~~~~~~  155 (465)
                      +...++..+...|++++|...+..+.... +-+...|..+|.++.+.|+..+|++.|+...     +.|+.|+..+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            34456777888899999998888887665 6688899999999999999999999998875     358999887654

>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=93.06  E-value=1.3  Score=33.20  Aligned_cols=30  Identities=7%  Similarity=-0.006  Sum_probs=17.5

Q ss_pred             CHHHHHHHHHHHhcccCH------HHHHHHHHHHHh
Q 012365           10 SSASYKKLITYSCDLLKV------HVALDVVEQMVQ   39 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~------~~A~~~~~~m~~   39 (465)
                      |..+|=..+..+-+.|++      ++.+++|++...
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia   47 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE   47 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH
Confidence            445555566666555666      566666665544

>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=92.86  E-value=7  Score=37.55  Aligned_cols=130  Identities=8%  Similarity=0.012  Sum_probs=70.0

Q ss_pred             cCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhh
Q 012365          298 FKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDL  377 (465)
Q Consensus       298 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~  377 (465)
                      ..+.+.|...+.........+......+- ..+.. .....+...++...+.... ...  ++.....-.+....+.|++
T Consensus       227 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~-~~ia~-~~~~~~~~~~~~~~~~~~~-~~~--~~~~~~e~~~r~Alr~~d~  301 (618)
T 1qsa_A          227 RQDAENARLMIPSLAQAQQLNEDQIQELR-DIVAW-RLMGNDVTDEQAKWRDDAI-MRS--QSTSLIERRVRMALGTGDR  301 (618)
T ss_dssp             HHCHHHHHHHHHHHHHHTTCCHHHHHHHH-HHHHH-TSCSTTCCHHHHHHHHHHH-HTC--CCHHHHHHHHHHHHHHTCH
T ss_pred             hcCHHHHHHHHHhhhhccCCCHHHHHHHH-HHHHH-HHHHcCCChHHHHHHHhcc-ccC--CChHHHHHHHHHHHHCCCH
Confidence            34677888888777653222222222221 11221 1111232455556666544 222  3333333344444466888


Q ss_pred             hHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHH
Q 012365          378 KRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQ  434 (465)
Q Consensus       378 ~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~  434 (465)
                      +.|...|+.|.... .....-.--+..++...|+.++|..+|+++... .++..++.
T Consensus       302 ~~a~~~~~~l~~~~-~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~-~~fYg~lA  356 (618)
T 1qsa_A          302 RGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQQ-RGFYPMVA  356 (618)
T ss_dssp             HHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS-CSHHHHHH
T ss_pred             HHHHHHHHHccccc-cccHhHHHHHHHHHHHcCCHHHHHHHHHHHhcC-CChHHHHH
Confidence            88888887776531 223444556667777888888888888887653 35554443

>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=92.79  E-value=0.58  Score=42.24  Aligned_cols=71  Identities=11%  Similarity=0.043  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCC---hhHHHHHHHHHH-----HcCCCCCHHHHHHH
Q 012365          118 MYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSN---EEDIIKYYEQLK-----SAGGQITKYVFMAL  189 (465)
Q Consensus       118 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~---~~~~~~~~~~~~-----~~~~~~~~~~~~~l  189 (465)
                      ....++..+...|+++++...+..+.... +-+...+..+|.++..   ..++.+.|+.+.     +.|+.|...+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            45567788888999999998888887542 4477788888888554   445555555544     35899988776543

>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=92.25  E-value=1.7  Score=29.83  Aligned_cols=45  Identities=20%  Similarity=0.332  Sum_probs=21.7

Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 012365           64 LVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLK  108 (465)
Q Consensus        64 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  108 (465)
                      +..+-++.+....+.|++.+..+.+.+|-|.+++..|.++|+-++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444444444444555555555555555555555555554443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.01  E-value=1.5  Score=43.11  Aligned_cols=53  Identities=13%  Similarity=0.097  Sum_probs=47.5

Q ss_pred             hHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          371 CVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       371 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      |...|+++.|+++-++.+.. .|-+-.+|..|..+|...|+++.|+-.++-++.
T Consensus       347 Ll~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNScPm  399 (754)
T 4gns_B          347 LLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSMPR  399 (754)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSCC
T ss_pred             HhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcCCC
Confidence            55679999999999999987 477788999999999999999999999999863

>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=91.40  E-value=0.99  Score=30.98  Aligned_cols=59  Identities=19%  Similarity=0.174  Sum_probs=43.8

Q ss_pred             hHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHH
Q 012365          344 GLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYK  404 (465)
Q Consensus       344 A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  404 (465)
                      ..+-++.+. ...+-|++....+.+++|.+.+++..|.++|+-+..+ ..+...+|..+++
T Consensus        29 ~rrglN~l~-~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           29 LRKGMNTLV-GYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHT-TSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHh-ccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            333344444 5678899999999999999999999999999988865 3444556777765

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=91.36  E-value=4.1  Score=31.61  Aligned_cols=101  Identities=10%  Similarity=0.142  Sum_probs=63.0

Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK  169 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  169 (465)
                      .....|+++.|.++.+++      .+...|..|.......|+++-|.+.|....      |......+-...++.+...+
T Consensus        14 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           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH------SFDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC------CHHHHHHHHHHhCCHHHHHH
Confidence            345568888888877655      256778888888888888888888887754      33333333333444444444


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                      +-+.....|      -++.....+...|+++++.++|.+
T Consensus        82 la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           82 MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            433333333      145555666777888888887763

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=90.46  E-value=7.1e-05  Score=67.42  Aligned_cols=223  Identities=12%  Similarity=0.094  Sum_probs=130.8

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      +..|..|-.+..+.|++.+|++.|-+.      -|+..|..++.++.+.|.++.-...+....+..  .++.+=+.|+-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHH
Confidence            456777888888888888887766321      155578889999999999999998887766553  344455588899


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHH
Q 012365           91 NVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKY  170 (465)
Q Consensus        91 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~  170 (465)
                      |++.++..+.++++.       .||..-...+..-|...|.++.|.-+|..+..         |..|-.++.+.++....
T Consensus       126 yAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN---------~akLAstLV~L~~yq~A  189 (624)
T 3lvg_A          126 LAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAA  189 (624)
T ss_dssp             HHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC---------CTTTSSSSSSCSGGGSS
T ss_pred             HHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCcc---------HHHHHHHHHHHHHHHHH
Confidence            999998777655542       46766677778888888888877766655432         12222223334443333


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCC
Q 012365          171 YEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNL  250 (465)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  250 (465)
                      .+..++.+   ++.||-.+-.+|...+.+.-|.-.--.+-..+...    ..++..|-..|.+++.+.+++.-... -+.
T Consensus       190 VdaArKAn---s~ktWKeV~~ACvd~~EfrLAqicGLniIvhadeL----~elv~~YE~~G~f~ELIsLlEaglgl-ErA  261 (624)
T 3lvg_A          190 VDGARKAN---STRTWKEVCFACVDGKEFRLAQMCGLHIVVHADEL----EELINYYQDRGYFEELITMLEAALGL-ERA  261 (624)
T ss_dssp             TTTTTTCC---SSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCSSCC----SGGGSSSSTTCCCTTSTTTHHHHTTS-TTC
T ss_pred             HHHHHhcC---ChhHHHHHHHHHhCchHHHHHHHhcchhcccHHHH----HHHHHHHHhCCCHHHHHHHHHHHhCC-Cch
Confidence            33333322   44556666666666665554433322211222111    22444555666666666655554421 123


Q ss_pred             CHHHHHHHHHHHHcc
Q 012365          251 EPRAVIALIEHLNSE  265 (465)
Q Consensus       251 ~~~~~~~ll~~~~~~  265 (465)
                      ..-.|+-|.-.|++-
T Consensus       262 HmGmFTELaILYsKY  276 (624)
T 3lvg_A          262 HMGMFTELAILYSKF  276 (624)
T ss_dssp             CHHHHHHHHHHHHSS
T ss_pred             hHHHHHHHHHHHHhc
Confidence            344555555555543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=90.28  E-value=17  Score=36.76  Aligned_cols=25  Identities=20%  Similarity=0.297  Sum_probs=17.4

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHH
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMV   38 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~   38 (465)
                      |-.+++...+.++.+.+.++|..+.
T Consensus       233 y~~a~~~ai~LnD~~li~~if~~l~  257 (963)
T 4ady_A          233 YLTLNKVVVNLNDAGLALQLFKKLK  257 (963)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4445566666678888888888765

>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=89.80  E-value=2.5  Score=30.86  Aligned_cols=76  Identities=20%  Similarity=0.248  Sum_probs=51.9

Q ss_pred             hHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChh
Q 012365          319 EMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVL  397 (465)
Q Consensus       319 ~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  397 (465)
                      .++..+.+.-+++........+..+++.+++... +.+-.-....+-.|.-++.+.|+++.|+++.+.+.+.  .|+-.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~-~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~--eP~N~  112 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIY-KEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNK  112 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHH-HHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CTTCH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHH-hcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--CCCCH
Confidence            3333444444444444445568889999999988 5442123455666777899999999999999999985  55443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.72  E-value=2.2  Score=41.96  Aligned_cols=129  Identities=9%  Similarity=0.137  Sum_probs=78.3

Q ss_pred             HHHHHHHHhcccC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhC------CCC-CCHH--
Q 012365           14 YKKLITYSCDLLK-VHVALDVVEQMVQGELVPSTETINSILHACEESY-EFNLVRRIYPMICHH------NLK-PNSE--   82 (465)
Q Consensus        14 y~~li~~~~~~g~-~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~------~~~-~~~~--   82 (465)
                      -..++..+...|+ ++.|+.+|+++.+.....+......++..+...+ +--+|.+++.+..+.      ..+ .+..  
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            3445555555666 6889999999988643322222222333322222 222334444333211      111 1211  


Q ss_pred             --------HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365           83 --------TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus        83 --------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                              ..+.=...+...|+++.|+.+-++....- |-+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    11222344667899999999999987663 4457899999999999999999999998873

>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=89.11  E-value=4  Score=29.79  Aligned_cols=80  Identities=15%  Similarity=0.233  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHH-hcC-CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 012365           46 TETINSILHACE-ESY-EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIM  123 (465)
Q Consensus        46 ~~~~~~ll~~~~-~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  123 (465)
                      ..-|..--..+. +.. |.-+..+-++.+....+.|++.+..+.+.+|-+.+|+..|.++|+-.+..- .+....|..++
T Consensus        51 ~EeFdaRy~~~F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~l  129 (152)
T 2y69_E           51 DEEFDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             HHHHHHHHHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHH
Confidence            334443333333 333 556677788888888888999999999999999999999999998887543 34455687777


Q ss_pred             HHH
Q 012365          124 AGY  126 (465)
Q Consensus       124 ~~~  126 (465)
                      .-.
T Consensus       130 qEl  132 (152)
T 2y69_E          130 QEL  132 (152)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.71  E-value=4.4  Score=30.02  Aligned_cols=74  Identities=20%  Similarity=0.264  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCCh
Q 012365          320 MAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNV  396 (465)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~  396 (465)
                      .+..+.+.-+++........+..+++.+++... +.+-.-.....-.|.-++.+.|+++.|+++.+.+.+.  .|+-
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~-~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~--eP~n  110 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIY-KEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNN  110 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHH-HHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT--CCCC
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH-hcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCc
Confidence            333444444444444445678889999999988 5332223444555667899999999999999999995  5544

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=86.58  E-value=15  Score=31.85  Aligned_cols=111  Identities=13%  Similarity=0.051  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHH----HHHHHcCCCCCHHHHHHHH
Q 012365          184 YVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVY----EEIKEAGCNLEPRAVIALI  259 (465)
Q Consensus       184 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~----~~m~~~~~~p~~~~~~~ll  259 (465)
                      .+|.++..=|.+.+++++|.+++..              -...+.+.|+...+-++.    +-+.+.++++|..+...++
T Consensus        36 Q~~RTi~~Ry~~~k~y~eAidLL~~--------------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~  101 (336)
T 3lpz_A           36 QETRLVAARYSKQGNWAAAVDILAS--------------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLL  101 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH--------------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHH--------------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            3566677778888899998888742              223344556665555443    4455667778877777777


Q ss_pred             HHHHccCcHH-HHHHHHHHHcC----CC----CCccchhhHhhHhhhcCChhHHHHHH
Q 012365          260 EHLNSEGELN-RLIQLLEEVHD----PD----YWMDGCCRLILHCVRFKQLSSATDLL  308 (465)
Q Consensus       260 ~~~~~~g~~~-~a~~~~~~~~~----~~----~~~~~~~~~~~~~~~~~~~~~a~~~~  308 (465)
                      ..+.....-+ .-..+++.+.+    .|    -.|+....+...|.+.+++.+|...|
T Consensus       102 ~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          102 GCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             HHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            7665544311 11222222221    11    12333345666677777777777665

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=86.55  E-value=9.2  Score=29.22  Aligned_cols=72  Identities=13%  Similarity=0.235  Sum_probs=51.2

Q ss_pred             HHHHHHHHhHhhhhhhHHHHHHHHHHHc--CC----------------------CCChhHHHHHHHHHHhcCChhhHHHH
Q 012365          363 CLDFLLGACVNARDLKRAHLIWKEYENA--GL----------------------PYNVLSYLWMYKAFLASGNRKSASKL  418 (465)
Q Consensus       363 ~~~~ll~~~~~~g~~~~A~~~~~~m~~~--g~----------------------~p~~~~~~~l~~~~~~~g~~~~A~~~  418 (465)
                      ++..+.+++...|++.+|...|++..+.  .+                      .++...---+..+|.+.|++++|+.+
T Consensus        65 ~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~  144 (167)
T 3ffl_A           65 LLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAI  144 (167)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHH
Confidence            5566778888999999999999986422  11                      11112334467789999999999999


Q ss_pred             HhccCC--CCCChhHHHH
Q 012365          419 LSKMPK--DDPHVRFVIQ  434 (465)
Q Consensus       419 ~~~m~~--~~~~~~~~l~  434 (465)
                      ++.++.  +.|..+.+|+
T Consensus       145 Le~Ip~k~Rt~kvnm~La  162 (167)
T 3ffl_A          145 LDGIPSRQRTPKINMLLA  162 (167)
T ss_dssp             HHTSCGGGCCHHHHHHHH
T ss_pred             HhcCCchhcCHHHHHHHH
Confidence            999875  4455566664

>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=85.73  E-value=8.5  Score=28.10  Aligned_cols=72  Identities=18%  Similarity=0.291  Sum_probs=55.8

Q ss_pred             HHHhccC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh
Q 012365           89 SLNVKIK-DFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNC  161 (465)
Q Consensus        89 ~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  161 (465)
                      ..+.+.. |.=+..+-++.+...++.|++....+.+++|-+.+++.-|.++|+-.+.. +.+....|..++.-.
T Consensus        60 ~~F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqEl  132 (152)
T 2y69_E           60 TYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQEL  132 (152)
T ss_dssp             HHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHH
T ss_pred             HHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHHH
Confidence            3333444 45567777888888899999999999999999999999999999998853 234455688777753

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=84.97  E-value=3.4  Score=34.87  Aligned_cols=85  Identities=14%  Similarity=0.110  Sum_probs=45.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHhcCCC--CChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHH--HHHHHHHHHcc
Q 012365          190 INAYTTCGEFEKARQVVLDAEIPV--KSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRA--VIALIEHLNSE  265 (465)
Q Consensus       190 ~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~~~  265 (465)
                      +...+..|+.+-...+++......  .+... .+. +...+..+......++++.+.+.|..++...  -.+.+...++.
T Consensus       152 L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~g-~t~-l~~a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~  229 (285)
T 1wdy_A          152 LMDAAEKGHVEVLKILLDEMGADVNACDNMG-RNA-LIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEK  229 (285)
T ss_dssp             HHHHHHHTCHHHHHHHHHTSCCCTTCCCTTS-CCH-HHHHHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHhcCCCCCccCCCC-CCH-HHHHHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHc
Confidence            444556777777777776322211  11110 222 3333455666666777778888876554321  12334445566


Q ss_pred             CcHHHHHHHHH
Q 012365          266 GELNRLIQLLE  276 (465)
Q Consensus       266 g~~~~a~~~~~  276 (465)
                      |+.+-+..+++
T Consensus       230 ~~~~~v~~Ll~  240 (285)
T 1wdy_A          230 KHLGLVQRLLE  240 (285)
T ss_dssp             TCHHHHHHHHH
T ss_pred             CCHHHHHHHHh
Confidence            77776666655

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=84.55  E-value=22  Score=37.26  Aligned_cols=99  Identities=11%  Similarity=-0.023  Sum_probs=48.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCC-----------------------CChHHHHHHHHHHHHcCCChhHHHH
Q 012365          182 TKYVFMALINAYTTCGEFEKARQVVLDAEIPV-----------------------KSRSEVKSALVSALASHGRTSDAII  238 (465)
Q Consensus       182 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----------------------~~~~~~~~~l~~~~~~~g~~~~a~~  238 (465)
                      +....-.+..++...|++++|.+.|++.....                       .....-|..++..+-+.+.++.+.+
T Consensus       841 ~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~  920 (1139)
T 4fhn_B          841 DPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALE  920 (1139)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHH
Confidence            33333444566677777777777776521110                       0000114455555556666666665


Q ss_pred             HHHHHHHcCCCCCH----HHHHHHHHHHHccCcHHHHHHHHHHHcC
Q 012365          239 VYEEIKEAGCNLEP----RAVIALIEHLNSEGELNRLIQLLEEVHD  280 (465)
Q Consensus       239 ~~~~m~~~~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~  280 (465)
                      +-....+..-.-+.    ..|..+.+++...|++++|...+-.+.+
T Consensus       921 fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd  966 (1139)
T 4fhn_B          921 FSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLST  966 (1139)
T ss_dssp             HHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHH
T ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCC
Confidence            55544433211111    1244555555666666666555555443

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=83.95  E-value=30  Score=33.51  Aligned_cols=80  Identities=8%  Similarity=-0.042  Sum_probs=45.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---cCC
Q 012365          122 IMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTT---CGE  198 (465)
Q Consensus       122 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~  198 (465)
                      ....+.-.|+++.|.+.+-..    ...+.+++.+.+.-++-.+.    -+.+......-...-+..||..|.+   ..+
T Consensus       300 Yf~vLlLtgqFE~AI~~L~~~----~~vdAVH~AIaL~~~gLL~~----~~~lls~~~~~~~lN~arLI~~Yt~~F~~td  371 (661)
T 2qx5_A          300 YLQTLLLSGLYGLAIDYTYTF----SEMDAVHLAIGLASLKLFKI----DSSTRLTKKPKRDIRFANILANYTKSFRYSD  371 (661)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTT----CHHHHHHHHHHHHHTTC---------------------CHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHhhHHHHHHHHHhc----CchhHHHHHHHHHHcCCccC----CCcccccCCCcccccHHHHHHHHHHHhhcCC
Confidence            445556689999999987754    35677788888877665543    1111111100012235667777764   578


Q ss_pred             HHHHHHHHHHh
Q 012365          199 FEKARQVVLDA  209 (465)
Q Consensus       199 ~~~a~~~~~~~  209 (465)
                      ...|.+.|--+
T Consensus       372 ~~~Al~Y~~li  382 (661)
T 2qx5_A          372 PRVAVEYLVLI  382 (661)
T ss_dssp             HHHHHHHHHGG
T ss_pred             HHHHHHHHHHH
Confidence            88888887654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=83.63  E-value=0.0024  Score=57.87  Aligned_cols=204  Identities=13%  Similarity=0.067  Sum_probs=116.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012365          183 KYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHL  262 (465)
Q Consensus       183 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  262 (465)
                      +.+|..|..+..+.+++.+|++.|-    +..++.. |..++.+..+.|.+++-.+++...++..-.|  ..=+.|+-+|
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyI----kA~Dps~-y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ay  126 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYI----KADDPSS-YMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFAL  126 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSC----CCSCCCS-SSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHH----hCCChHH-HHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHH
Confidence            4566677777777777777766652    2222221 6667777777777777777766655543222  3334667777


Q ss_pred             HccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchh
Q 012365          263 NSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQ  342 (465)
Q Consensus       263 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  342 (465)
                      ++.+++.+..+++     .+........+..-|...|.++.|.-+|..+..     ..-..+         ....-|++.
T Consensus       127 Ak~~rL~elEefl-----~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN-----~akLAs---------tLV~L~~yq  187 (624)
T 3lvg_A          127 AKTNRLAELEEFI-----NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLAS---------TLVHLGEYQ  187 (624)
T ss_dssp             HTSCSSSTTTSTT-----SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC-----CTTTSS---------SSSSCSGGG
T ss_pred             HhhCcHHHHHHHH-----cCCCcccHHHHHHHHHHccCHHHHHHHHHhCcc-----HHHHHH---------HHHHHHHHH
Confidence            7777654322221     122222334555555566666666665544322     000000         000124444


Q ss_pred             hhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhcc
Q 012365          343 IGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKM  422 (465)
Q Consensus       343 ~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  422 (465)
                      .|.+.       ..-..++.||..+-.+|...+.+..|.-.--.++-.     +.-...++.-|...|.+++-+.+++.-
T Consensus       188 ~AVda-------ArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEag  255 (624)
T 3lvg_A          188 AAVDG-------ARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH-----ADELEELINYYQDRGYFEELITMLEAA  255 (624)
T ss_dssp             SSTTT-------TTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHH
T ss_pred             HHHHH-------HHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            44332       223446778999999999999888876654444422     223445667788999999999999876


Q ss_pred             CC
Q 012365          423 PK  424 (465)
Q Consensus       423 ~~  424 (465)
                      +.
T Consensus       256 lg  257 (624)
T 3lvg_A          256 LG  257 (624)
T ss_dssp             TT
T ss_pred             hC
Confidence            63

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=83.26  E-value=48  Score=34.75  Aligned_cols=183  Identities=10%  Similarity=0.022  Sum_probs=106.2

Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCC----CCCc-------------
Q 012365          223 LVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDP----DYWM-------------  285 (465)
Q Consensus       223 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~-------------  285 (465)
                      ++..+...+.++-+.++..-     ++-++..--.+..++...|++++|...|++....    +...             
T Consensus       818 l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            44455556666655543322     2234444445667889999999999999876421    0000             


Q ss_pred             -------cchhhHhhHhhhcCChhHHHHHHHHHHHcccchhH-----HHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHh
Q 012365          286 -------DGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEM-----AMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKD  353 (465)
Q Consensus       286 -------~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~  353 (465)
                             .-|..++..+.+.+.++.+.++-....+...++..     .|..++...+..      |++++|...+-.+. 
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l------~~ye~Ay~aL~~~p-  965 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAA------GKFDAAHVALMVLS-  965 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHH------CCSGGGGHHHHHHH-
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhh------CCHHHHHHHHHhCC-
Confidence                   12345666677888888888887766653222211     345555655555      99999999998887 


Q ss_pred             hcCCCCcHHHHHHHHHHhHhhhhhhH------------HHHHHHHHHHc--CCCCChhHHHHHHHHHHhcCChhhHHHHH
Q 012365          354 ELGLPPSRKCLDFLLGACVNARDLKR------------AHLIWKEYENA--GLPYNVLSYLWMYKAFLASGNRKSASKLL  419 (465)
Q Consensus       354 ~~~~~p~~~~~~~ll~~~~~~g~~~~------------A~~~~~~m~~~--g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  419 (465)
                      ....+  ...+..|+..+|..|..+.            ..+++..-.+.  .....+.-|..|..-+...|++..|..++
T Consensus       966 d~~~r--~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vm 1043 (1139)
T 4fhn_B          966 TTPLK--KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAII 1043 (1139)
T ss_dssp             HSSSC--HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHH
T ss_pred             CHHHH--HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHH
Confidence            43333  3456667776666654433            33333332221  11122234566666667788887765544

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	465
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.48
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.47
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.11
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.06
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.02
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.0
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.99
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.98
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.93
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.91
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.84
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.83
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.52
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.52
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.47
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.46
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.44
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.38
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.34
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.31
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.22
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.21
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.19
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.16
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.11
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.11
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.01
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.0
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.96
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.89
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.83
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.83
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.79
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.74
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.71
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.69
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.69
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.69
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.68
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.62
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.56
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.5
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.49
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.46
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.32
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.29
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.28
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.84
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.78
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.65
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.56
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.48
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.17
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.19
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.93
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.63
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.97
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.99
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	91.69
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	90.29
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.6
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	85.21

>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=99.92  E-value=1e-20  Score=172.35  Aligned_cols=379  Identities=11%  Similarity=0.010  Sum_probs=251.2

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      +...+.+.|++++|++.|+++.+..+ -+...+..+..++...|++++|...++.+.+.. +-+..++..+..+|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            34556788999999999999987643 367888888889999999999999999988865 4568889999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh--hCChhHHHHHHHHH
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHN--CSNEEDIIKYYEQL  174 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~~~~~~~~~~~  174 (465)
                      +++|...+....... +.+...+..........+....+.........................  ..........+...
T Consensus        83 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHh
Confidence            999999999988765 455666666666666777777777666666554433333333322222  22233333344444


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHH
Q 012365          175 KSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPR  253 (465)
Q Consensus       175 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  253 (465)
                      .... +-+...+..+...+...|++++|...+++ ....+.. ...|..+...+...|++++|...+......+. .+..
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~  238 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNF-LDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAV  238 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCccc-HHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHH
Confidence            3333 33567777788888888999999888876 3333333 33578888888889999999999888887653 3566


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHcCCCC-CccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHh
Q 012365          254 AVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQ  332 (465)
Q Consensus       254 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  332 (465)
                      .+..+...+.+.|++++|...+++..+..+ .++.+..+...+...|++++|.+.++......+.....+..+...+ ..
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~-~~  317 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK-RE  317 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-HT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHH-HH
Confidence            677777888888888888888887765433 2445566666677777777777777766653333333332222221 11


Q ss_pred             hhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCC
Q 012365          333 IATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGN  411 (465)
Q Consensus       333 ~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  411 (465)
                           .|++++|+..|++..   .+.| +..++..+..++...|++++|...|++..+. -|-+..+|..+..+|.+.||
T Consensus       318 -----~~~~~~A~~~~~~al---~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l-~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         318 -----QGNIEEAVRLYRKAL---EVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI-SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             -----TTCHHHHHHHHHHHT---TSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTCC
T ss_pred             -----CCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCC
Confidence                 256666666666655   3334 3344555555666666666666666666554 13344556666666555553

>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=2.3e-20  Score=169.89  Aligned_cols=375  Identities=13%  Similarity=0.035  Sum_probs=286.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 012365           52 ILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKD  131 (465)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  131 (465)
                      +...+.+.|++++|.+.++++.+.. +-++..+..+..+|.+.|++++|...|++..+.. |-+..+|..+...|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            4456778899999999999998864 4568899999999999999999999999998765 5577899999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHh---hCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          132 VQGALMVLKEMEQANVKPDSQTFSYLIHN---CSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       132 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                      +++|.+.+....+..... ..........   .................. .................+....+...+..
T Consensus        83 ~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDF-IDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             cccccccccccccccccc-ccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHH
Confidence            999999999998754222 2222211111   222333333333333333 23444455556667778888888887776


Q ss_pred             hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCC-Cccc
Q 012365          209 AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDY-WMDG  287 (465)
Q Consensus       209 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~  287 (465)
                      .....+.....+..+...+...|++++|...+.+...... -+...+..+...+...|++++|...++.....+. ....
T Consensus       161 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  239 (388)
T d1w3ba_         161 AIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVV  239 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHH
T ss_pred             hhccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHH
Confidence            3333333334578888999999999999999999888762 2467788899999999999999999998876443 3445


Q ss_pred             hhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHH
Q 012365          288 CCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFL  367 (465)
Q Consensus       288 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~l  367 (465)
                      +..+...+.+.|++++|+..|++..+..+.+...+..+...+...      |++++|++.++... . ..+.+...+..+
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~------~~~~~A~~~~~~~~-~-~~~~~~~~~~~l  311 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEK------GSVAEAEDCYNTAL-R-LCPTHADSLNNL  311 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHH------SCHHHHHHHHHHHH-H-HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc------CCHHHHHHHHHhhh-c-cCCccchhhhHH
Confidence            667778888999999999999999885555555555544444444      99999999999887 3 234566788888


Q ss_pred             HHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHhhc
Q 012365          368 LGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQTY  440 (465)
Q Consensus       368 l~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~~~  440 (465)
                      ...+...|++++|...|++..+. .|.+..++..+..+|.+.|++++|.+.|++.++.+|.....+...+..+
T Consensus       312 ~~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~  383 (388)
T d1w3ba_         312 ANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTL  383 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            99999999999999999999986 3667788999999999999999999999999999998766655555543

>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=99.48  E-value=1.5e-11  Score=108.11  Aligned_cols=241  Identities=8%  Similarity=0.044  Sum_probs=140.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 012365           52 ILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKD  131 (465)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  131 (465)
                      ....+.+.|++++|...|+.+.+.. +-+..+|..+..++...|++++|...|++..+.. |-+...|..+...|...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            3445667777777777777777664 4456777777777777777777777777776654 4456677777777777788


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-hc
Q 012365          132 VQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD-AE  210 (465)
Q Consensus       132 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~  210 (465)
                      +++|.+.+++....  .|+.............                ..+.......+..+...+.+.+|.+.|.+ ..
T Consensus       103 ~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         103 QRQACEILRDWLRY--TPAYAHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             HHHHHHHHHHHHHT--STTTGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHh--ccchHHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHH
Confidence            88887777777653  2221110000000000                00000000111222333445556555554 11


Q ss_pred             CCC-CChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC-CCccch
Q 012365          211 IPV-KSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD-YWMDGC  288 (465)
Q Consensus       211 ~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~  288 (465)
                      ..+ .....++..+...+...|++++|+..|++...... -+...+..+..++...|++++|.+.+++..+.. -.+..+
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~  243 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSR  243 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHH
Confidence            121 22223466666777777777777777777766542 235566667777777777777777777665433 224455


Q ss_pred             hhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          289 CRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       289 ~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                      ..+...|.+.|++++|++.|++..+
T Consensus       244 ~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         244 YNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6666667777777777777777665

>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=99.47  E-value=8.2e-12  Score=109.76  Aligned_cols=242  Identities=14%  Similarity=0.009  Sum_probs=171.5

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      ....+.+.|++++|+..|+...+..+. +..+|..+..++...|++++|...+++..+.. +-+...+..+...|...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            455678899999999999999987543 78899999999999999999999999998865 4578899999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHH
Q 012365           97 FDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKS  176 (465)
Q Consensus        97 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~  176 (465)
                      +++|.+.+++.....  |+.......................+.               .+ .......++...+....+
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~-~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILG---------------SL-LSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC---------------CTTH---------------HH-HHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHH---------------HH-HHhhHHHHHHHHHHHHHH
Confidence            999999999987653  332211000000000000000000000               00 000111223333333333


Q ss_pred             cC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHH
Q 012365          177 AG-GQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRA  254 (465)
Q Consensus       177 ~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  254 (465)
                      .. -.++..++..+...+...|++++|...|++. ...+.. ..+|..+...|...|++++|.+.|++..+... -+...
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a  242 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPND-YLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRS  242 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhccccccccccccc-ccchhhhhhcccccccchhHHHHHHHHHHHhh-ccHHH
Confidence            22 2346778888889999999999999999983 333333 44588999999999999999999999988652 24777


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHcC
Q 012365          255 VIALIEHLNSEGELNRLIQLLEEVHD  280 (465)
Q Consensus       255 ~~~ll~~~~~~g~~~~a~~~~~~~~~  280 (465)
                      +..+..+|.+.|++++|...|++..+
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88899999999999999999998765

>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=99.11  E-value=4.1e-07  Score=79.89  Aligned_cols=300  Identities=8%  Similarity=0.023  Sum_probs=180.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHH
Q 012365           53 LHACEESYEFNLVRRIYPMICHHNLKPN----SETFRSMISLNVKIKDFDSAYSLLDDLKEMNL-MPT----ASMYNAIM  123 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li  123 (465)
                      ...+...|++++|.+++++..+..-..+    ..++..+..++...|++++|...|++.....- .++    ..++..+.
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            3446677888888888888776531111    23566677778888888888888887653210 111    23455666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCC--C-CHHHHHHHHHHHHhcCCHH
Q 012365          124 AGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQ--I-TKYVFMALINAYTTCGEFE  200 (465)
Q Consensus       124 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~l~~~~~~~g~~~  200 (465)
                      ..+...|++..+...+.+....                            ....+..  + ....+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~----------------------------~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  150 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQL----------------------------INEQHLEQLPMHEFLVRIRAQLLWAWARLD  150 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH----------------------------HHHTTCTTSTHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH----------------------------hHhcccchhhHHHHHHHHHHHHHHHhcchh
Confidence            7788888888888888775431                            0011101  1 1234445667788889999


Q ss_pred             HHHHHHHHhc-----CCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHc--CCCCC----HHHHHHHHHHHHccCcHH
Q 012365          201 KARQVVLDAE-----IPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEA--GCNLE----PRAVIALIEHLNSEGELN  269 (465)
Q Consensus       201 ~a~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~--~~~p~----~~~~~~ll~~~~~~g~~~  269 (465)
                      .+...+....     .........+......+...+.+..+...+.+....  .....    ...+..+...+...|+.+
T Consensus       151 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (366)
T d1hz4a_         151 EAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKA  230 (366)
T ss_dssp             HHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             hhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHH
Confidence            9998887621     111222223566667788889999988888776543  11111    123445566778889999


Q ss_pred             HHHHHHHHHcCCCCCcc-----chhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhh
Q 012365          270 RLIQLLEEVHDPDYWMD-----GCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIG  344 (465)
Q Consensus       270 ~a~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A  344 (465)
                      +|...++..........     .+..+...+...|++++|...++.....                              
T Consensus       231 ~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~------------------------------  280 (366)
T d1hz4a_         231 AAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNEN------------------------------  280 (366)
T ss_dssp             HHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------------
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH------------------------------
Confidence            99998888766433221     1223444555666666666666655430                              


Q ss_pred             HHhHHHHHhhcCCCCc-HHHHHHHHHHhHhhhhhhHHHHHHHHHHHc----CCCC----ChhHHHHHHHHHHhcCChhhH
Q 012365          345 LDLLQFIKDELGLPPS-RKCLDFLLGACVNARDLKRAHLIWKEYENA----GLPY----NVLSYLWMYKAFLASGNRKSA  415 (465)
Q Consensus       345 ~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~----g~~p----~~~~~~~l~~~~~~~g~~~~A  415 (465)
                            .. ..+..|+ ...+..+..+|...|++++|.+.+++..+.    |...    ....+..++..+...++.+++
T Consensus       281 ------~~-~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~  353 (366)
T d1hz4a_         281 ------AR-SLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPEL  353 (366)
T ss_dssp             ------HH-HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHH
T ss_pred             ------Hh-hcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHH
Confidence                  00 1233343 345666777888889999998888887653    3211    122345555666667776665


Q ss_pred             HH
Q 012365          416 SK  417 (465)
Q Consensus       416 ~~  417 (465)
                      .+
T Consensus       354 e~  355 (366)
T d1hz4a_         354 EQ  355 (366)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=99.06  E-value=2.8e-08  Score=86.03  Aligned_cols=214  Identities=9%  Similarity=0.023  Sum_probs=154.9

Q ss_pred             HHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012365           11 SASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY-EFNLVRRIYPMICHHNLKPNSETFRSMIS   89 (465)
Q Consensus        11 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~   89 (465)
                      ...|+.+-..+.+.+.+++|+++++.+.+..+. +...|+....++...| ++++|...++...+.. +-+..+|+.+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            466777777888899999999999999997544 6778888888888766 5999999999998876 567899999999


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHH
Q 012365           90 LNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIK  169 (465)
Q Consensus        90 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  169 (465)
                      .+.+.|++++|...++++.+.. +.+...|..+...+.+.|++++|++.|+++.+.+  |+                   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~-------------------  178 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VR-------------------  178 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TT-------------------
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--Cc-------------------
Confidence            9999999999999999998876 6779999999999999999999999999998753  32                   


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHh------cCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHH
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTT------CGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGRTSDAIIVYEE  242 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~------~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  242 (465)
                                  +...|+.+...+.+      .+.+++|.+.+.. +...+.... .|+.+...+ .....+++.+.++.
T Consensus       179 ------------n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~-~~~~l~~ll-~~~~~~~~~~~~~~  244 (315)
T d2h6fa1         179 ------------NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNES-AWNYLKGIL-QDRGLSKYPNLLNQ  244 (315)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHH-HHHHHHHHH-TTTCGGGCHHHHHH
T ss_pred             ------------cHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCCchH-HHHHHHHHH-HhcChHHHHHHHHH
Confidence                        22222222222222      2235666666665 344444443 366555544 44456777788877


Q ss_pred             HHHcCCCC-CHHHHHHHHHHH
Q 012365          243 IKEAGCNL-EPRAVIALIEHL  262 (465)
Q Consensus       243 m~~~~~~p-~~~~~~~ll~~~  262 (465)
                      ..+....+ +...+..+...|
T Consensus       245 ~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         245 LLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             HHHHTTTCCCHHHHHHHHHHH
T ss_pred             HHHhCCCcCCHHHHHHHHHHH
Confidence            76654322 344455555444

>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=2.8e-09  Score=89.85  Aligned_cols=32  Identities=22%  Similarity=0.353  Sum_probs=25.0

Q ss_pred             hHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          397 LSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       397 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      .+|..+...|...|++++|.+.|++.+..+|.
T Consensus       210 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  241 (259)
T d1xnfa_         210 ETNFYLGKYYLSLGDLDSATALFKLAVANNVH  241 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            46667778888888888888888888877764

>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=99.00  E-value=1.3e-07  Score=83.25  Aligned_cols=261  Identities=9%  Similarity=-0.040  Sum_probs=144.8

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCC----HHHHHHH
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPS----TETINSILHACEESYEFNLVRRIYPMICHHNL-KPN----SETFRSM   87 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l   87 (465)
                      ....+...|++++|++++++..+.....+    ...+..+..++...|++++|...++...+... .++    ...+..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            34556789999999999999987543222    23566677888999999999999998875211 112    3456667


Q ss_pred             HHHHhccCCHHHHHHHHHHHHH----cCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHH
Q 012365           88 ISLNVKIKDFDSAYSLLDDLKE----MNLMPT---ASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPD----SQTFSY  156 (465)
Q Consensus        88 i~~~~~~g~~~~a~~~~~~m~~----~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~  156 (465)
                      ...+...|++..+...+.....    .+.+..   ...+..+...+...|+++.+...+.......-...    ...+..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            7788899999999998887543    121111   23556677888999999999999988875321111    111111


Q ss_pred             HHHhh---CChhHHHHHHHHHH----HcCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhc-CCC---CChHHHHHHH
Q 012365          157 LIHNC---SNEEDIIKYYEQLK----SAGGQI--TKYVFMALINAYTTCGEFEKARQVVLDAE-IPV---KSRSEVKSAL  223 (465)
Q Consensus       157 ll~~~---~~~~~~~~~~~~~~----~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~---~~~~~~~~~l  223 (465)
                      ....+   .........+....    ..+..+  ....+..+...+...|++++|...++... ..+   ......+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            11111   22222222222111    111111  11233444455566666666666666521 111   1111124445


Q ss_pred             HHHHHcCCChhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHH
Q 012365          224 VSALASHGRTSDAIIVYEEIKEA----GCNLE-PRAVIALIEHLNSEGELNRLIQLLEE  277 (465)
Q Consensus       224 ~~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~  277 (465)
                      ...+...|++++|...+++....    +..|+ ...+..+...+...|++++|.+.+++
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~  316 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLD  316 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55666666666666666655422    22222 12333344444555555555444443

>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=98.99  E-value=1.6e-07  Score=81.07  Aligned_cols=217  Identities=12%  Similarity=0.058  Sum_probs=129.2

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--------------cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHh
Q 012365           27 VHVALDVVEQMVQGELVPSTETINSILHACEE--------------SYEFNLVRRIYPMICHHNLKPNSETFRSMISLNV   92 (465)
Q Consensus        27 ~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~   92 (465)
                      .+++..+|+++... .+.+...|..-+.-+..              .+..+++..+|+...+...+.+...|...+....
T Consensus        32 ~~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            56688888888775 23356666555543322              2345788899999887655667788888888899


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHh--hCChhHHHH
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK-PDSQTFSYLIHN--CSNEEDIIK  169 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~--~~~~~~~~~  169 (465)
                      +.|+++.|..+|+++.+.........|...+....+.|+.+.|.++|+.+.+.+.. +........+..  .+....+..
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhccCHHHHHH
Confidence            99999999999999887542223457889999999999999999999998865421 111111122211  122333444


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh-cCCC-C--ChHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q 012365          170 YYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDA-EIPV-K--SRSEVKSALVSALASHGRTSDAIIVYEEIKE  245 (465)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-~~~~-~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  245 (465)
                      +++.+.+.. +.+...+...++.+.+.|+++.|..+|++. ...+ .  .....|...+..-...|+.+.+.++++++.+
T Consensus       191 i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555544432 223455555555555555555555555541 1111 1  1112344444444445555555555554433

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=1.2e-08  Score=88.31  Aligned_cols=220  Identities=10%  Similarity=0.029  Sum_probs=157.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365          184 YVFMALINAYTTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHG-RTSDAIIVYEEIKEAGCNLEPRAVIALIEH  261 (465)
Q Consensus       184 ~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  261 (465)
                      ..++.+-..+.+.+.+++|+++++. +...|.... .|+....++...| ++++|+..++...+.... +..+|..+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~-a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYT-VWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChH-HHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHH
Confidence            4566666778888899999999988 444454444 4888888888776 489999999998887632 47788888888


Q ss_pred             HHccCcHHHHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCc
Q 012365          262 LNSEGELNRLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPD  340 (465)
Q Consensus       262 ~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  340 (465)
                      +.+.|++++|+..++.+.+..+. ...+..+...+...+++++|++.++.+.+..+.+...|+.....+.........+.
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhh
Confidence            99999999999999988775533 55777788888899999999999999998666666666654333333222233456


Q ss_pred             hhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCC-CCChhHHHHHHHHHHhc
Q 012365          341 VQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGL-PYNVLSYLWMYKAFLAS  409 (465)
Q Consensus       341 ~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~l~~~~~~~  409 (465)
                      +++|++.+.+..   ...| +...|..+...+... ..+++.+.++...+... ..+...+..++..|...
T Consensus       202 ~~~ai~~~~~al---~~~P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~  268 (315)
T d2h6fa1         202 LEREVQYTLEMI---KLVPHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDM  268 (315)
T ss_dssp             HHHHHHHHHHHH---HHSTTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHH
T ss_pred             hHHhHHHHHHHH---HhCCCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHH
Confidence            788999888887   3445 566676666655444 45778888888876422 22344666777776543

>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=98.93  E-value=1.9e-07  Score=78.23  Aligned_cols=218  Identities=13%  Similarity=0.064  Sum_probs=138.2

Q ss_pred             ccCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHH
Q 012365           24 LLKVHVALDVVEQMVQGELVP---STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSA  100 (465)
Q Consensus        24 ~g~~~~A~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  100 (465)
                      ..+.+.++.-+++........   ...+|..+..++.+.|++++|.+.|++..+.. +-++.+|+.+..+|.+.|++++|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHh
Confidence            345667777777777643221   23466667788889999999999999998865 55788999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChh--H-HHHHHHHHHHc
Q 012365          101 YSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEE--D-IIKYYEQLKSA  177 (465)
Q Consensus       101 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--~-~~~~~~~~~~~  177 (465)
                      ...|++..... |-+..+|..+...+...|++++|.+.|+...+.. +.+......+..+..+.+  . ...+.......
T Consensus        91 ~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_          91 YEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             hhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            99999988765 4567788888899999999999999999887643 223332222222222222  2 22233333333


Q ss_pred             CCCCCHHHHHHHHHHHHhcCC----HHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcC
Q 012365          178 GGQITKYVFMALINAYTTCGE----FEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAG  247 (465)
Q Consensus       178 ~~~~~~~~~~~l~~~~~~~g~----~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  247 (465)
                      ...+  ..++ ++..+.....    .+.+...+.......+....+|..+...|...|++++|.+.|+......
T Consensus       169 ~~~~--~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         169 DKEQ--WGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             CCCS--THHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             chhh--hhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            2222  1222 2222222222    2222222211000111122247778899999999999999999988765

>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=98.91  E-value=3.8e-09  Score=92.77  Aligned_cols=230  Identities=7%  Similarity=-0.044  Sum_probs=145.0

Q ss_pred             HhcCCHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHcCCC--hhHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHccCcHH
Q 012365          194 TTCGEFEKARQVVLD-AEIPVKSRSEVKSALVSALASHGR--TSDAIIVYEEIKEAGCNLEPRAVI-ALIEHLNSEGELN  269 (465)
Q Consensus       194 ~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~m~~~~~~p~~~~~~-~ll~~~~~~g~~~  269 (465)
                      ...|++++|+..++. ....++... .|..+..++...++  +++|...+..+.+... ++...+. .....+...+..+
T Consensus        84 ~~~~~~~~al~~~~~~l~~~pk~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRVNPKSYG-TWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCcHH-HHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccH
Confidence            344556677777766 333444433 36666666665554  6778888888777652 2344433 3345666778888


Q ss_pred             HHHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhH
Q 012365          270 RLIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLL  348 (465)
Q Consensus       270 ~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~  348 (465)
                      +|+..++.+...++. ...+..+...+.+.|++++|...+.......+....    ....+...      +..+++...+
T Consensus       162 ~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~~l------~~~~~a~~~~  231 (334)
T d1dcea1         162 EELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELE----LVQNAFFT------DPNDQSAWFY  231 (334)
T ss_dssp             HHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHH----HHHHHHHH------CSSCSHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHH----HHHHHHHh------cchhHHHHHH
Confidence            888888877765543 445566666777777777776665544442111111    11111111      5556677777


Q ss_pred             HHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCC
Q 012365          349 QFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPH  428 (465)
Q Consensus       349 ~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  428 (465)
                      .... . .-.++...+..+...+...|+..+|...+.+..+.. |.+..+|..++.+|.+.|++++|.+.+++..+.+|.
T Consensus       232 ~~~l-~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~  308 (334)
T d1dcea1         232 HRWL-L-GRAEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM  308 (334)
T ss_dssp             HHHH-H-SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGG
T ss_pred             HHHH-H-hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcc
Confidence            6665 2 222344455666677778899999999888887653 556678888888999999999999999999998886


Q ss_pred             hhHHHHHHHh
Q 012365          429 VRFVIQACKQ  438 (465)
Q Consensus       429 ~~~~l~~~~~  438 (465)
                      ....+...+.
T Consensus       309 ~~~y~~~L~~  318 (334)
T d1dcea1         309 RAAYLDDLRS  318 (334)
T ss_dssp             GHHHHHHHHH
T ss_pred             cHHHHHHHHH
Confidence            5444444433

>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=98.84  E-value=8.7e-07  Score=76.26  Aligned_cols=217  Identities=13%  Similarity=0.033  Sum_probs=141.7

Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc--------------cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012365           63 NLVRRIYPMICHHNLKPNSETFRSMISLNVK--------------IKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFR  128 (465)
Q Consensus        63 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--------------~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  128 (465)
                      +++..+|+++...- +.++..|...+..+-+              .+..++|..+|++..+...+.+...|...+.....
T Consensus        33 ~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            44556677766542 4456666555544322              23457788888887765445566778888888888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012365          129 KKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLD  208 (465)
Q Consensus       129 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  208 (465)
                      .|+++.|..+|+++.+..  |.                              ....+|..++....+.|+++.|.++|++
T Consensus       112 ~~~~~~a~~i~~~~l~~~--~~------------------------------~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIE--DI------------------------------DPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSS--SS------------------------------CTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHh--cC------------------------------ChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            888888888888877532  21                              1233566666777777888888888877


Q ss_pred             hcCCCCChHHHHHHHHH-HHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCC-CCcc
Q 012365          209 AEIPVKSRSEVKSALVS-ALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPD-YWMD  286 (465)
Q Consensus       209 ~~~~~~~~~~~~~~l~~-~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~  286 (465)
                      .....+.....|..... -+...|+.+.|..+|+.+.... +.++..+...+..+.+.|+++.|..+|++..... .+++
T Consensus       160 al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         160 AREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            43332222223433333 2344678888888888888764 2346677788888888888888888888875543 3333


Q ss_pred             ----chhhHhhHhhhcCChhHHHHHHHHHHH
Q 012365          287 ----GCCRLILHCVRFKQLSSATDLLKQLKD  313 (465)
Q Consensus       287 ----~~~~~~~~~~~~~~~~~a~~~~~~~~~  313 (465)
                          .+...+..-...|+.+.+.++++++.+
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                233344444577899999998888877

>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=98.83  E-value=7.3e-08  Score=84.34  Aligned_cols=102  Identities=9%  Similarity=-0.086  Sum_probs=62.9

Q ss_pred             hcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhh
Q 012365          297 RFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNAR  375 (465)
Q Consensus       297 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g  375 (465)
                      ..+..+++...+.......++....+..+.......      ++.++|...+.+..   ...| +...|..+..++...|
T Consensus       220 ~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~---~~~p~~~~~~~~l~~~~~~~~  290 (334)
T d1dcea1         220 FTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVL------QSELESCKELQELE---PENKWCLLTIILLMRALDPLL  290 (334)
T ss_dssp             HHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHH------HHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCTGG
T ss_pred             HhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHH------hhHHHHHHHHHHHH---hhCchHHHHHHHHHHHHHHCC
Confidence            344555556555555553333333333322222222      67777777777666   4555 4456777888899999


Q ss_pred             hhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 012365          376 DLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLA  408 (465)
Q Consensus       376 ~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  408 (465)
                      +.++|.+.+++..+.. |.+...|..|...+.-
T Consensus       291 ~~~eA~~~~~~ai~ld-P~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         291 YEKETLQYFSTLKAVD-PMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             GHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHC-cccHHHHHHHHHHHhH
Confidence            9999999999999862 3345566767665553

>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=98.52  E-value=3.1e-07  Score=66.12  Aligned_cols=96  Identities=11%  Similarity=-0.038  Sum_probs=84.3

Q ss_pred             CCchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHH
Q 012365          338 PPDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSAS  416 (465)
Q Consensus       338 ~~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  416 (465)
                      .|++++|+..|++..   ...| +...|..+..++...|++++|...+++..+.+ |.++..|..+..+|...|++++|.
T Consensus        16 ~g~~~eAi~~~~~al---~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A~   91 (117)
T d1elwa_          16 VGNIDDALQCYSEAI---KLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEAK   91 (117)
T ss_dssp             TTCHHHHHHHHHHHH---HHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCCHHHHHHHHHHHH---hcCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHHH
Confidence            399999999999988   3345 66788999999999999999999999999884 889999999999999999999999


Q ss_pred             HHHhccCCCCCChhHHHHHHH
Q 012365          417 KLLSKMPKDDPHVRFVIQACK  437 (465)
Q Consensus       417 ~~~~~m~~~~~~~~~~l~~~~  437 (465)
                      ..+++..+.+|....+.....
T Consensus        92 ~~~~~a~~~~p~~~~~~~~l~  112 (117)
T d1elwa_          92 RTYEEGLKHEANNPQLKEGLQ  112 (117)
T ss_dssp             HHHHHHHTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHH
Confidence            999999999998766665544

>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=4e-06  Score=66.19  Aligned_cols=132  Identities=14%  Similarity=0.061  Sum_probs=106.4

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLN   91 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~   91 (465)
                      ..|+. -..+...|+++.|++.|+.+    .+|+..+|..+..++...|++++|.+.|++.++.. +.+...|..+..+|
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~   80 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   80 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHH
Confidence            34554 44567789999999999864    45788899999999999999999999999999976 56789999999999


Q ss_pred             hccCCHHHHHHHHHHHHHcC------------CC--CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 012365           92 VKIKDFDSAYSLLDDLKEMN------------LM--PT-ASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKP  149 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~~~------------~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  149 (465)
                      .+.|++++|...|++.....            ..  ++ ..++..+..++.+.|++++|.+.|....+....|
T Consensus        81 ~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          81 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            99999999999999876431            00  01 2456677788999999999999999888654443

>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=98.47  E-value=2.6e-06  Score=61.06  Aligned_cols=88  Identities=11%  Similarity=-0.002  Sum_probs=44.6

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 012365           55 ACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQG  134 (465)
Q Consensus        55 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  134 (465)
                      .+...|++++|...|.+..+.. +.+...|..+..+|...|++++|...+++....+ +.+...|..+..++...|++++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHH
Confidence            3444555555555555554443 3344455555555555555555555555554443 3444555555555555555555


Q ss_pred             HHHHHHHHHH
Q 012365          135 ALMVLKEMEQ  144 (465)
Q Consensus       135 a~~~~~~m~~  144 (465)
                      |+..|++..+
T Consensus        90 A~~~~~~a~~   99 (117)
T d1elwa_          90 AKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            5555555543

>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=98.46  E-value=3.2e-06  Score=71.90  Aligned_cols=211  Identities=11%  Similarity=-0.064  Sum_probs=113.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHh-----cCC-CCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC---CCC--HHH
Q 012365          186 FMALINAYTTCGEFEKARQVVLDA-----EIP-VKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGC---NLE--PRA  254 (465)
Q Consensus       186 ~~~l~~~~~~~g~~~~a~~~~~~~-----~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~---~p~--~~~  254 (465)
                      |.-..+.|...|++++|.+.|.+.     ... +.....+|..+...|.+.|++++|.+.+++..+.-.   .+.  ..+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            445566777888888888887652     111 122223477778888888888888887776544210   111  223


Q ss_pred             HHHHHHHHH-ccCcHHHHHHHHHHHcCC----CCC---ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHH
Q 012365          255 VIALIEHLN-SEGELNRLIQLLEEVHDP----DYW---MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHF  326 (465)
Q Consensus       255 ~~~ll~~~~-~~g~~~~a~~~~~~~~~~----~~~---~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  326 (465)
                      +..+...|. ..|++++|...+++..+.    +..   ...+..+...+...                            
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~----------------------------  171 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALD----------------------------  171 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT----------------------------
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHc----------------------------
Confidence            334444443 346666666666554321    000   00122222333333                            


Q ss_pred             HHHHHhhhcCCCCchhhhHHhHHHHHhhcCCC----CcH-HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCC-CCC---hh
Q 012365          327 SEIFCQIATTDPPDVQIGLDLLQFIKDELGLP----PSR-KCLDFLLGACVNARDLKRAHLIWKEYENAGL-PYN---VL  397 (465)
Q Consensus       327 ~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~----p~~-~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~-~p~---~~  397 (465)
                                  |++++|+..|++........    ... ..+...+..+...|+++.|...+++..+... -++   ..
T Consensus       172 ------------g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~  239 (290)
T d1qqea_         172 ------------GQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESN  239 (290)
T ss_dssp             ------------TCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HH
T ss_pred             ------------ChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHH
Confidence                        56666666666555111111    111 1223334455677888999888888876521 011   22


Q ss_pred             HHHHHHHHHHh--cCChhhHHHHHhccCCCCCChhHHHHHH
Q 012365          398 SYLWMYKAFLA--SGNRKSASKLLSKMPKDDPHVRFVIQAC  436 (465)
Q Consensus       398 ~~~~l~~~~~~--~g~~~~A~~~~~~m~~~~~~~~~~l~~~  436 (465)
                      ....++.++..  .+.+++|...|+++.+.++....+|.-+
T Consensus       240 ~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~~~~~~L~~~  280 (290)
T d1qqea_         240 FLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILNKI  280 (290)
T ss_dssp             HHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            45566666655  3468899999999888876545555433

>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=98.44  E-value=5.4e-06  Score=63.21  Aligned_cols=92  Identities=8%  Similarity=-0.033  Sum_probs=57.4

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      .-..|.+.|++++|+..|++..+.... +...|..+..++...|++++|.+.|+..++.. +-+..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            334555666666666666666665422 55666666666666666666666666666654 4455666666666666666


Q ss_pred             HHHHHHHHHHHHHc
Q 012365           97 FDSAYSLLDDLKEM  110 (465)
Q Consensus        97 ~~~a~~~~~~m~~~  110 (465)
                      +++|...|++....
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            66666666666554

>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=98.38  E-value=1e-06  Score=70.44  Aligned_cols=99  Identities=8%  Similarity=-0.075  Sum_probs=63.3

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      +|+...+...-..+.+.|++++|+..|++..+..+ -+...|..+..+|.+.|++++|...|+...+.. +-+..+|..+
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~l   78 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   78 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHH
Confidence            35666666666666677777777777766665432 256666666666666677777777776666543 3345666666


Q ss_pred             HHHHhccCCHHHHHHHHHHHH
Q 012365           88 ISLNVKIKDFDSAYSLLDDLK  108 (465)
Q Consensus        88 i~~~~~~g~~~~a~~~~~~m~  108 (465)
                      ..+|.+.|++++|...|++..
T Consensus        79 g~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHH
Confidence            666666666666666666554

>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=98.34  E-value=4.4e-06  Score=66.53  Aligned_cols=99  Identities=9%  Similarity=0.011  Sum_probs=89.5

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 012365           44 PSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIM  123 (465)
Q Consensus        44 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  123 (465)
                      |+...+......+.+.|++++|...|+...+.. +.+...|..+..+|.+.|++++|...|++..+.. |-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            677888888899999999999999999998876 6789999999999999999999999999998764 44688999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 012365          124 AGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus       124 ~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .+|.+.|++++|+..|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998764

>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=98.31  E-value=1.8e-05  Score=67.09  Aligned_cols=206  Identities=8%  Similarity=-0.035  Sum_probs=124.1

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CC-CCCHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQG----ELVP-STETINSILHACEESYEFNLVRRIYPMICHH----NL-KPNSE   82 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~   82 (465)
                      .|......|...|++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|.+.++...+.    |. .....
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            4777777788888899999888887542    2221 2356777888888889999988888876542    21 11134


Q ss_pred             HHHHHHHHHh-ccCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 012365           83 TFRSMISLNV-KIKDFDSAYSLLDDLKEM----NLMP-TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSY  156 (465)
Q Consensus        83 ~~~~li~~~~-~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  156 (465)
                      ++..+...|- ..|++++|...+++..+.    +.++ -..+|..+...+...|++++|++.|++............+. 
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~-  197 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS-  197 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG-
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhh-
Confidence            5556666663 458889888888776432    2111 13457777888888899999999888876542111100000 


Q ss_pred             HHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcC-CCCCh----HHHHHHHHHHHHc--
Q 012365          157 LIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEI-PVKSR----SEVKSALVSALAS--  229 (465)
Q Consensus       157 ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~----~~~~~~l~~~~~~--  229 (465)
                                               -...+...+..+...|+++.|...+++... .+...    ......++.++-.  
T Consensus       198 -------------------------~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d  252 (290)
T d1qqea_         198 -------------------------LKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGD  252 (290)
T ss_dssp             -------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTC
T ss_pred             -------------------------HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcC
Confidence                                     011223344456678888999888886322 22111    1123455666554  


Q ss_pred             CCChhHHHHHHHHHH
Q 012365          230 HGRTSDAIIVYEEIK  244 (465)
Q Consensus       230 ~g~~~~a~~~~~~m~  244 (465)
                      .+.+++|+..|+.+.
T Consensus       253 ~e~~~eai~~y~~~~  267 (290)
T d1qqea_         253 SEQLSEHCKEFDNFM  267 (290)
T ss_dssp             TTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHHh
Confidence            234677777665443

>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=98.22  E-value=4.8e-05  Score=59.70  Aligned_cols=85  Identities=13%  Similarity=0.108  Sum_probs=60.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 012365           54 HACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQ  133 (465)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  133 (465)
                      ..+...|+++.|.+.|+.+    .+|+..+|..+..+|...|++++|.+.|++..+.+ +.+...|..+..++.+.|+++
T Consensus        13 ~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHH
Confidence            3455677777777777653    24666777777777777788888887777777665 556777777777777777777


Q ss_pred             HHHHHHHHHH
Q 012365          134 GALMVLKEME  143 (465)
Q Consensus       134 ~a~~~~~~m~  143 (465)
                      +|++.|++..
T Consensus        88 ~A~~~~~kAl   97 (192)
T d1hh8a_          88 LAIKDLKEAL   97 (192)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777777654

>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=98.21  E-value=9.3e-06  Score=57.54  Aligned_cols=88  Identities=11%  Similarity=0.122  Sum_probs=54.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012365           53 LHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDV  132 (465)
Q Consensus        53 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  132 (465)
                      ...+.+.|++++|...|++..+.. +-++.+|..+..++.+.|++++|...|++..+.. |.+...|..+...|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            344555666666666666666554 3356666666666666666666666666665554 44566666666666666666


Q ss_pred             HHHHHHHHHH
Q 012365          133 QGALMVLKEM  142 (465)
Q Consensus       133 ~~a~~~~~~m  142 (465)
                      ++|++.|++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666666653

>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=98.19  E-value=2e-05  Score=59.88  Aligned_cols=93  Identities=10%  Similarity=0.056  Sum_probs=83.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 012365           51 SILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK  130 (465)
Q Consensus        51 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  130 (465)
                      .....+.+.|++++|...|++..+.. +-+...|..+..+|...|++++|...|++..+.. +.+..+|..+..++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcC
Confidence            34556789999999999999999986 6689999999999999999999999999998876 567789999999999999


Q ss_pred             CHHHHHHHHHHHHHC
Q 012365          131 DVQGALMVLKEMEQA  145 (465)
Q Consensus       131 ~~~~a~~~~~~m~~~  145 (465)
                      ++++|...|++....
T Consensus        93 ~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          93 KFRAALRDYETVVKV  107 (159)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc
Confidence            999999999999874

>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=98.16  E-value=1.1e-05  Score=57.21  Aligned_cols=90  Identities=12%  Similarity=-0.044  Sum_probs=80.3

Q ss_pred             HHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC
Q 012365           17 LITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD   96 (465)
Q Consensus        17 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~   96 (465)
                      +...+.+.|++++|+..|++..+.... +...|..+..++.+.|++++|...|+...+.. +.+..++..+..+|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            456678899999999999999887543 78999999999999999999999999999876 5679999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 012365           97 FDSAYSLLDDLK  108 (465)
Q Consensus        97 ~~~a~~~~~~m~  108 (465)
                      +++|.+.|++..
T Consensus       100 ~~~A~~~l~~~l  111 (112)
T d1hxia_         100 ANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998753

>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=98.11  E-value=1.5e-05  Score=57.21  Aligned_cols=94  Identities=7%  Similarity=-0.001  Sum_probs=51.2

Q ss_pred             HHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCCCC-HHHHHHHHHHH
Q 012365           16 KLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESY---EFNLVRRIYPMICHHNLKPN-SETFRSMISLN   91 (465)
Q Consensus        16 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~   91 (465)
                      .++..+...+++++|.+.|+.....+. .+..++..+..++.+.+   ++++|..+++.+.+.+..|+ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            455555566666666666666665432 25555555555555433   33346666666555432222 22455555666


Q ss_pred             hccCCHHHHHHHHHHHHHc
Q 012365           92 VKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        92 ~~~g~~~~a~~~~~~m~~~  110 (465)
                      .+.|++++|.+.|++..+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            6666666666666666554

>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=98.11  E-value=1.3e-05  Score=57.61  Aligned_cols=100  Identities=13%  Similarity=0.133  Sum_probs=81.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCC---HHHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 012365           50 NSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKD---FDSAYSLLDDLKEMNLMPT-ASMYNAIMAG  125 (465)
Q Consensus        50 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~~~-~~~~~~li~~  125 (465)
                      ..+++.+...+++++|++.|+...+.+ +.++.++..+..++.+.++   +++|..+|++....+-.|+ ..+|..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            467888889999999999999999987 6788999999999987654   4569999999887542222 2367889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 012365          126 YFRKKDVQGALMVLKEMEQANVKPDSQ  152 (465)
Q Consensus       126 ~~~~g~~~~a~~~~~~m~~~~~~p~~~  152 (465)
                      |.+.|++++|.+.|++..+.  .|+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~--~P~~~  106 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT--EPQNN  106 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHhhhHHHHHHHHHHHHh--CcCCH
Confidence            99999999999999999874  46543

>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=98.01  E-value=0.00014  Score=55.69  Aligned_cols=61  Identities=11%  Similarity=0.096  Sum_probs=31.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           83 TFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        83 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      +|+.+..+|.+.|++++|...++.....+ |.++..|..+..+|...|++++|...|++..+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34444455555555555555555554443 33455555555555555555555555555544

>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=98.00  E-value=0.0026  Score=52.34  Aligned_cols=96  Identities=10%  Similarity=0.034  Sum_probs=51.3

Q ss_pred             CHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 012365           10 SSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEE----SYEFNLVRRIYPMICHHNLKPNSETFR   85 (465)
Q Consensus        10 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   85 (465)
                      |+..+..|-..+.+.|++++|++.|++..+.|   +...+..|...+..    ..+...+...+....+.+   ++....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            34455555556666677777777777766655   34444445555543    446666666666665554   223333


Q ss_pred             HHHHHHh----ccCCHHHHHHHHHHHHHcC
Q 012365           86 SMISLNV----KIKDFDSAYSLLDDLKEMN  111 (465)
Q Consensus        86 ~li~~~~----~~g~~~~a~~~~~~m~~~~  111 (465)
                      .+...+.    ...+.+.|...++.....|
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g  104 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLK  104 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhh
Confidence            3332222    1344555666665555543

>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=97.96  E-value=3.2e-05  Score=59.43  Aligned_cols=74  Identities=12%  Similarity=-0.076  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHH
Q 012365          362 KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQAC  436 (465)
Q Consensus       362 ~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~  436 (465)
                      .+|+.+..+|.+.|++++|...++..++.. |.++.+|..+..+|...|++++|...|++.++.+|....+....
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l  136 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQL  136 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            356778888999999999999999999974 77888999999999999999999999999999888665444433

>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=97.89  E-value=4e-05  Score=57.69  Aligned_cols=76  Identities=16%  Similarity=0.011  Sum_probs=65.9

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHHh
Q 012365          362 KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACKQ  438 (465)
Q Consensus       362 ~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~~  438 (465)
                      .+|..+..+|.+.|++++|++.+++..+.. |.++.+|..++.+|...|++++|...|++.++.+|....+......
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~  143 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYEL  143 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            466778888999999999999999999874 7788999999999999999999999999999999876655544433

>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=97.83  E-value=0.00062  Score=50.82  Aligned_cols=107  Identities=7%  Similarity=-0.060  Sum_probs=56.9

Q ss_pred             HHHHHHHHHhcccCHHHHHHHHHHHHhCCC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012365           13 SYKKLITYSCDLLKVHVALDVVEQMVQGEL----VPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMI   88 (465)
Q Consensus        13 ~y~~li~~~~~~g~~~~A~~~~~~m~~~~~----~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li   88 (465)
                      .+..-...+.+.|++.+|+..|......-.    .++.......                 .       .....+|+.+.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~-----------------~-------~~~~~~~~Nla   74 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKK-----------------K-------NIEISCNLNLA   74 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHH-----------------H-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhh-----------------h-------hHHHHHHhhHH
Confidence            344445567778888888888887765211    1111100000                 0       00112445555


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           89 SLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        89 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      .+|.+.|++++|...++.....+ |.+..+|..+..++...|++++|...|++..+
T Consensus        75 ~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          75 TCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            55666666666666666655543 44555666666666666666666666666554

>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=97.83  E-value=0.00028  Score=54.32  Aligned_cols=127  Identities=8%  Similarity=0.116  Sum_probs=85.7

Q ss_pred             CHHHHHHHH---HHHhcccCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHH
Q 012365           10 SSASYKKLI---TYSCDLLKVHVALDVVEQMVQG--ELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETF   84 (465)
Q Consensus        10 ~~~~y~~li---~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   84 (465)
                      |...|..+.   ......|++++|.+.|......  |....            ......-+...-..+..    .....+
T Consensus         7 D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~------------~~~~~~w~~~~r~~l~~----~~~~a~   70 (179)
T d2ff4a2           7 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLD------------DLRDFQFVEPFATALVE----DKVLAH   70 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTG------------GGTTSTTHHHHHHHHHH----HHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccc------------cCcchHHHHHHHHHHHH----HHHHHH
Confidence            344444444   4566778888888888888763  21100            00000001111111111    123567


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HCCCCCCHHH
Q 012365           85 RSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEME-----QANVKPDSQT  153 (465)
Q Consensus        85 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~~~~p~~~~  153 (465)
                      ..+...+.+.|++++|...+++..... +-+...|..++.++.+.|+..+|++.|+++.     +.|+.|...+
T Consensus        71 ~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          71 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            788899999999999999999998876 6789999999999999999999999999974     3578887654

>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=97.79  E-value=0.00026  Score=54.09  Aligned_cols=63  Identities=16%  Similarity=0.164  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012365           81 SETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQ  144 (465)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  144 (465)
                      ...|..+..++.+.|++++|...+++..+.. +.+...|..+..++...|++++|++.|++..+
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            3445555566666666666666666665544 44555666666666666666666666666655

>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=97.74  E-value=0.00044  Score=53.14  Aligned_cols=72  Identities=8%  Similarity=0.030  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH-----HcCCCCCHHH
Q 012365           46 TETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLK-----EMNLMPTASM  118 (465)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~~~~~~~~~  118 (465)
                      ...+..+..++...|++++|...++.+.+.. +-+...|..++.+|.+.|+.++|.+.|+++.     +.|+.|+..+
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            3467778888999999999999999999876 6789999999999999999999999999874     4688888765

>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=97.71  E-value=0.00033  Score=50.54  Aligned_cols=95  Identities=11%  Similarity=0.078  Sum_probs=51.7

Q ss_pred             HHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CCCC----HHHHHHH
Q 012365           14 YKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHN--LKPN----SETFRSM   87 (465)
Q Consensus        14 y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~l   87 (465)
                      +..+-..+.+.|++++|++.|.+..+... .+...+..+..++...|++++|.+.++.+++..  ....    ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            33444556666666666666666665432 255566666666666666666666666655421  0000    1244445


Q ss_pred             HHHHhccCCHHHHHHHHHHHHH
Q 012365           88 ISLNVKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        88 i~~~~~~g~~~~a~~~~~~m~~  109 (465)
                      ...+...+++++|...|++...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            5555555666666666655443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.69  E-value=0.00038  Score=53.05  Aligned_cols=69  Identities=14%  Similarity=0.015  Sum_probs=54.3

Q ss_pred             HHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHH
Q 012365          363 CLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFV  432 (465)
Q Consensus       363 ~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  432 (465)
                      .|..+..+|.+.|++++|...+++..+.. |.+..+|..+..+|...|++++|...|+++++.+|.....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~  134 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAA  134 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHH
Confidence            45556677788888888888888888763 7777788888888888888888888888888877765443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.69  E-value=0.00045  Score=52.62  Aligned_cols=98  Identities=14%  Similarity=0.012  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHhcccCHHHHHHHHHHHHh---CCCCCCH-----------HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 012365           12 ASYKKLITYSCDLLKVHVALDVVEQMVQ---GELVPST-----------ETINSILHACEESYEFNLVRRIYPMICHHNL   77 (465)
Q Consensus        12 ~~y~~li~~~~~~g~~~~A~~~~~~m~~---~~~~p~~-----------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   77 (465)
                      ..+......+.+.|++.+|+..|.....   ....++.           ..|+.+..++.+.|++++|...++...+.. 
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-   94 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-   94 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-
Confidence            3455566678888999999998887653   1111111           122333334444455555555555444433 


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHc
Q 012365           78 KPNSETFRSMISLNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      +.+..+|..+..++...|++++|...|++..+.
T Consensus        95 p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          95 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            334444444444455555555555555444443

>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=97.69  E-value=0.00022  Score=51.51  Aligned_cols=96  Identities=13%  Similarity=0.193  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC-------HHHHH
Q 012365           48 TINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPT-------ASMYN  120 (465)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-------~~~~~  120 (465)
                      .+..+...+...|++++|...|.+.++.+ +.+..++..+..+|.+.|++++|...+++..+.. +.+       ..+|.
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~-~~~~~~~~~~a~~~~   83 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34556778899999999999999999876 5678999999999999999999999999987542 111       23567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365          121 AIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       121 ~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      .+...+...+++++|++.|++....
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            7778888899999999999887653

>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=97.68  E-value=7.7e-05  Score=57.18  Aligned_cols=76  Identities=13%  Similarity=0.032  Sum_probs=63.2

Q ss_pred             cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHH
Q 012365          360 SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQAC  436 (465)
Q Consensus       360 ~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~  436 (465)
                      ....|..+..++.+.|++++|+..+++..+.. |.++.+|..+..+|.+.|++++|...|++.++.+|....+...+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l  151 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAEL  151 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            34466777888999999999999999999874 77888999999999999999999999999998888665444333

>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=97.62  E-value=0.014  Score=49.27  Aligned_cols=147  Identities=13%  Similarity=0.089  Sum_probs=91.2

Q ss_pred             CCCHHHHHHHHHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 012365            8 TPSSASYKKLITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSM   87 (465)
Q Consensus         8 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   87 (465)
                      .||..--..+.+.|.+.|.++.|..+|..+.         -|..++..+.+.+++..|.++....      -+..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHH
Confidence            3555556667777888999999999997553         3566778888888888887776543      267788888


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHH
Q 012365           88 ISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDI  167 (465)
Q Consensus        88 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  167 (465)
                      ...+.+......+     .+.......+......++..|-..|.+++...+++..... -.++...++.++..+++.+. 
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-  148 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-  148 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-
Confidence            8888877665443     2223333456666678888999999999999999876532 24566677777777777654 


Q ss_pred             HHHHHHHHH
Q 012365          168 IKYYEQLKS  176 (465)
Q Consensus       168 ~~~~~~~~~  176 (465)
                      .++.+.++.
T Consensus       149 ~kl~e~l~~  157 (336)
T d1b89a_         149 QKMREHLEL  157 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            345555554

>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=97.56  E-value=7.8e-05  Score=61.51  Aligned_cols=124  Identities=6%  Similarity=-0.082  Sum_probs=85.5

Q ss_pred             HHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHH
Q 012365           20 YSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDS   99 (465)
Q Consensus        20 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~   99 (465)
                      -..+.|++++|++.+++..+..+. |...+..+...++..|++++|.+.++...+.. +-+...+..+...+...+..++
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHH
Confidence            345789999999999999997644 88999999999999999999999999998874 3345555555554433333332


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 012365          100 AYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQA  145 (465)
Q Consensus       100 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  145 (465)
                      +..-...-...+-+++...+......+...|+.++|.+.++++.+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            2221111111111223344445566788899999999999998764

>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=97.50  E-value=0.017  Score=47.12  Aligned_cols=226  Identities=11%  Similarity=0.057  Sum_probs=148.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 012365           45 STETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVK----IKDFDSAYSLLDDLKEMNLMPTASMYN  120 (465)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~  120 (465)
                      |+..+..|...+...+++++|.+.|++..+.|   +...+-.|-..|..    ..+...|...+......+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45567777778888999999999999999887   56666667666665    678999999999888765   445555


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHh-hCChhH---HHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365          121 AIMAGYFR----KKDVQGALMVLKEMEQANVKPDSQTFSYLIHN-CSNEED---IIKYYEQLKSAGGQITKYVFMALINA  192 (465)
Q Consensus       121 ~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~~~---~~~~~~~~~~~~~~~~~~~~~~l~~~  192 (465)
                      .+...+..    ..+.+.|...++...+.|.............. ......   +...+.....   ..+...+..|...
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~L~~~  151 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACD---LNDGDGCTILGSL  151 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH---TTCHHHHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhc---ccccchhhhhhhh
Confidence            55554443    56788999999998887643332222211111 111122   2233333333   3466677777777


Q ss_pred             HHh----cCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHc----CCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 012365          193 YTT----CGEFEKARQVVLDAEIPVKSRSEVKSALVSALAS----HGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNS  264 (465)
Q Consensus       193 ~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  264 (465)
                      +..    ..+...+...++.......+.  .+..+...|..    ..++++|..+|....+.|   ++..+..|-..|.+
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~a~~~g~~~--A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~  226 (265)
T d1ouva_         152 YDAGRGTPKDLKKALASYDKACDLKDSP--GCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYN  226 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTTCHH--HHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHT
T ss_pred             hccCCCcccccccchhhhhccccccccc--cccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHc
Confidence            765    456778888877633222222  24445555554    568999999999998887   45666666666654


Q ss_pred             ----cCcHHHHHHHHHHHcCCCCC
Q 012365          265 ----EGELNRLIQLLEEVHDPDYW  284 (465)
Q Consensus       265 ----~g~~~~a~~~~~~~~~~~~~  284 (465)
                          ..+.++|.+.|++..+.|..
T Consensus       227 G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         227 GEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             TSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             CCCCccCHHHHHHHHHHHHHCcCH
Confidence                34788999999988776653

>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=97.49  E-value=0.021  Score=48.07  Aligned_cols=293  Identities=11%  Similarity=0.078  Sum_probs=143.4

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012365           79 PNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLI  158 (465)
Q Consensus        79 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  158 (465)
                      ||..-...+...|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.+.      -+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            3444444555666677777777777765442         556666667777777776666543      1344555555


Q ss_pred             HhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHH
Q 012365          159 HNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAII  238 (465)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  238 (465)
                      ..|.+..+..-  ..+.......++.....++..|-..|.+++...+++..-...+.....++-++..|++.+ .++..+
T Consensus        77 ~~l~~~~e~~l--a~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e  153 (336)
T d1b89a_          77 FACVDGKEFRL--AQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMRE  153 (336)
T ss_dssp             HHHHHTTCHHH--HHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHH
T ss_pred             HHHHhCcHHHH--HHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHH
Confidence            55443322211  122233344566666778888889999999999998733333334445788888888764 344333


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHHHHHcccch
Q 012365          239 VYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDD  318 (465)
Q Consensus       239 ~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  318 (465)
                         .+...+-..|..   .++..|.+.+.++++.-++..+....   ++...++.   ...+..++..+.+-..+.  .+
T Consensus       154 ---~l~~~s~~y~~~---k~~~~c~~~~l~~elv~Ly~~~~~~~---~A~~~~i~---~~~~~~~~~~f~e~~~k~--~N  219 (336)
T d1b89a_         154 ---HLELFWSRVNIP---KVLRAAEQAHLWAELVFLYDKYEEYD---NAIITMMN---HPTDAWKEGQFKDIITKV--AN  219 (336)
T ss_dssp             ---HHHHHSTTSCHH---HHHHHHHTTTCHHHHHHHHHHTTCHH---HHHHHHHH---STTTTCCHHHHHHHHHHC--SS
T ss_pred             ---HHHhccccCCHH---HHHHHHHHcCChHHHHHHHHhcCCHH---HHHHHHHH---cchhhhhHHHHHHHHHcc--CC
Confidence               343322222222   34556666666666655555543311   00000000   111111111111111221  12


Q ss_pred             hHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhH
Q 012365          319 EMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLS  398 (465)
Q Consensus       319 ~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  398 (465)
                      ...+...+..++..       +.+-...++..+.  ..+.|     .-++..+.+.+++.....+++...+.|   +..+
T Consensus       220 ~e~~~~~i~~yL~~-------~p~~i~~lL~~v~--~~~d~-----~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~v  282 (336)
T d1b89a_         220 VELYYRAIQFYLEF-------KPLLLNDLLMVLS--PRLDH-----TRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSV  282 (336)
T ss_dssp             THHHHHHHHHHHHH-------CGGGHHHHHHHHG--GGCCH-----HHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHH
T ss_pred             hHHHHHHHHHHHHc-------CHHHHHHHHHHhc--cCCCH-----HHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHH
Confidence            22233333332221       1222222333332  11211     235556677788888888888876654   4568


Q ss_pred             HHHHHHHHHhcCChhhHHHHHh
Q 012365          399 YLWMYKAFLASGNRKSASKLLS  420 (465)
Q Consensus       399 ~~~l~~~~~~~g~~~~A~~~~~  420 (465)
                      .++|...|...++++.-++.++
T Consensus       283 n~al~~lyie~~d~~~l~~~i~  304 (336)
T d1b89a_         283 NESLNNLFITEEDYQALRTSID  304 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhCcchhHHHHHHHH
Confidence            8999999999998766555443

>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=97.46  E-value=0.00061  Score=50.29  Aligned_cols=73  Identities=5%  Similarity=-0.092  Sum_probs=47.5

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012365           21 SCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEES----------YEFNLVRRIYPMICHHNLKPNSETFRSMISL   90 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~   90 (465)
                      |-+.+.+++|+..|+...+..+ .+...+..+..++...          +.+++|...|+...+.. +.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P-~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCC-cchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            3456678888888888887653 3677777777776643          33456667777666654 4456666666666


Q ss_pred             HhccC
Q 012365           91 NVKIK   95 (465)
Q Consensus        91 ~~~~g   95 (465)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            65443

>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=97.32  E-value=3.7e-05  Score=70.49  Aligned_cols=67  Identities=9%  Similarity=-0.076  Sum_probs=35.3

Q ss_pred             CchhhhHHhHHHHHhhcCCCC-cHHHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc
Q 012365          339 PDVQIGLDLLQFIKDELGLPP-SRKCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLAS  409 (465)
Q Consensus       339 ~~~~~A~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  409 (465)
                      +++++|...|++..   .+.| +...|+.|...+...|+..+|...|.+..... +|-..++..|...|.+.
T Consensus       166 ~~~~~A~~~y~~A~---~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         166 NQTSQAESYYRHAA---QLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             TCHHHHHHHHHHHH---HHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHH---HHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            55555555555555   2333 23455555555555555555555555555542 44555555555554443

>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=97.29  E-value=0.0004  Score=46.95  Aligned_cols=74  Identities=16%  Similarity=0.011  Sum_probs=58.2

Q ss_pred             HHHHHHHhHhhhhhhHHHHHHHHHHHcC-----CCC-ChhHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHHHHHH
Q 012365          364 LDFLLGACVNARDLKRAHLIWKEYENAG-----LPY-NVLSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVIQACK  437 (465)
Q Consensus       364 ~~~ll~~~~~~g~~~~A~~~~~~m~~~g-----~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l~~~~  437 (465)
                      +--+...+.+.|+++.|...|++..+..     ..+ ...++..|..+|.+.|++++|.+.++++++.+|.....+....
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~   87 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            3356677889999999999999887541     111 2457889999999999999999999999999998766665543

>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=97.28  E-value=0.001  Score=49.08  Aligned_cols=102  Identities=9%  Similarity=0.075  Sum_probs=77.2

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhcc----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012365           56 CEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKI----------KDFDSAYSLLDDLKEMNLMPTASMYNAIMAG  125 (465)
Q Consensus        56 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  125 (465)
                      |-+.+.+++|.+.|+...+.. |.+..++..+..++...          +.+++|...|++..+.+ |.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            445677999999999999886 67788888888887744          45578999999988776 6678899999888


Q ss_pred             HHhcCC-----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHhh
Q 012365          126 YFRKKD-----------VQGALMVLKEMEQANVKPDSQTFSYLIHNC  161 (465)
Q Consensus       126 ~~~~g~-----------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  161 (465)
                      |...|+           +++|.+.|++..+  +.|+..+|...+..+
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~  129 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT  129 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH
Confidence            876553           5777777777775  357766666555544

>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=96.84  E-value=0.0005  Score=56.49  Aligned_cols=24  Identities=13%  Similarity=0.178  Sum_probs=13.0

Q ss_pred             HHHHHHHhcCChhhHHHHHhccCC
Q 012365          401 WMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       401 ~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                      .....+.+.|+.++|.++++++.+
T Consensus       104 ~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1         104 VSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHh
Confidence            334445555666666666655543

>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=96.78  E-value=0.017  Score=42.74  Aligned_cols=25  Identities=8%  Similarity=-0.150  Sum_probs=14.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 012365          119 YNAIMAGYFRKKDVQGALMVLKEME  143 (465)
Q Consensus       119 ~~~li~~~~~~g~~~~a~~~~~~m~  143 (465)
                      |+.+..+|...|++++|++.|++..
T Consensus       103 ~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1         103 VYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555666666666666665544

>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=96.65  E-value=0.023  Score=41.93  Aligned_cols=99  Identities=11%  Similarity=-0.023  Sum_probs=72.3

Q ss_pred             HHHHHHH--HHHHhcccCHHHHHHHHHHHHhCCC-CCC----------HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC--
Q 012365           11 SASYKKL--ITYSCDLLKVHVALDVVEQMVQGEL-VPS----------TETINSILHACEESYEFNLVRRIYPMICHH--   75 (465)
Q Consensus        11 ~~~y~~l--i~~~~~~g~~~~A~~~~~~m~~~~~-~p~----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--   75 (465)
                      ..+|..+  ...+.+.|++++|++.|++..+... .|+          ...|+.+..++...|++++|.+.++...+.  
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            4567776  4455567999999999999876211 111          356888888899999999999999887752  


Q ss_pred             ---CCCCC-----HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 012365           76 ---NLKPN-----SETFRSMISLNVKIKDFDSAYSLLDDLKE  109 (465)
Q Consensus        76 ---~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  109 (465)
                         ...++     ...++.+..+|...|++++|...|++..+
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               11222     22566778889999999999999888775

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.56  E-value=0.005  Score=55.86  Aligned_cols=135  Identities=9%  Similarity=-0.145  Sum_probs=68.3

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHcCCCCCccchhhHhhHhhhcCChhHHHHHHHH
Q 012365          231 GRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNRLIQLLEEVHDPDYWMDGCCRLILHCVRFKQLSSATDLLKQ  310 (465)
Q Consensus       231 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  310 (465)
                      +.++.++..+....+.. .++...+..+-..+.+.|+.+.|...++....... ...+..+...+...+++++|...|.+
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~LG~l~~~~~~~~~A~~~y~~  177 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYIC-QHCLVHLGDIARYRNQTSQAESYYRH  177 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHHHH-HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCH-HHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            44445544444333222 12344566667777888888888776655432111 12455667777889999999999999


Q ss_pred             HHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCCcHHHHHHHHHHhHhhh
Q 012365          311 LKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPPSRKCLDFLLGACVNAR  375 (465)
Q Consensus       311 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~g  375 (465)
                      ..+..+.+..+++.+-..+...      |+..+|+..|.+.. .. ..|-+..+..|...+.+..
T Consensus       178 A~~l~P~~~~~~~~Lg~~~~~~------~~~~~A~~~y~ral-~~-~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         178 AAQLVPSNGQPYNQLAILASSK------GDHLTTIFYYCRSI-AV-KFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHCTTBSHHHHHHHHHHHHT------TCHHHHHHHHHHHH-SS-SBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHCCCchHHHHHHHHHHHHc------CCHHHHHHHHHHHH-hC-CCCCHHHHHHHHHHHHHhh
Confidence            9986666666666555444333      99999999999888 32 2456777788877765543

>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=96.48  E-value=0.021  Score=38.01  Aligned_cols=62  Identities=10%  Similarity=-0.001  Sum_probs=31.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCC-----CCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHc
Q 012365           49 INSILHACEESYEFNLVRRIYPMICHHN-----LKPN-SETFRSMISLNVKIKDFDSAYSLLDDLKEM  110 (465)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  110 (465)
                      +-.+...+.+.|++++|...|++..+..     ..++ ..+++.+..++.+.|++++|...+++..+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3344455555555555555555544310     0111 345555555555556666666665555544

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.17  E-value=0.11  Score=36.74  Aligned_cols=112  Identities=10%  Similarity=0.040  Sum_probs=79.7

Q ss_pred             cCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc----cCCHHHH
Q 012365           25 LKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVK----IKDFDSA  100 (465)
Q Consensus        25 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a  100 (465)
                      .|+++|++.|++..+.|..   .....|..  ....+.++|.+.++...+.|   ++..+..|-..|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            4788999999998887743   22333322  34568899999999988877   45555555555543    4678999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCC
Q 012365          101 YSLLDDLKEMNLMPTASMYNAIMAGYFR----KKDVQGALMVLKEMEQANV  147 (465)
Q Consensus       101 ~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~  147 (465)
                      .++|++..+.|   ++.....|...|..    ..+.++|.++|+...+.|.
T Consensus        79 ~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            99999988876   45556666666655    4678899999998887764

>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=95.19  E-value=0.022  Score=39.54  Aligned_cols=74  Identities=7%  Similarity=-0.007  Sum_probs=54.1

Q ss_pred             CcHHHHHHHHHHhHh---hhhhhHHHHHHHHHHHcCCCCCh-hHHHHHHHHHHhcCChhhHHHHHhccCCCCCChhHHH
Q 012365          359 PSRKCLDFLLGACVN---ARDLKRAHLIWKEYENAGLPYNV-LSYLWMYKAFLASGNRKSASKLLSKMPKDDPHVRFVI  433 (465)
Q Consensus       359 p~~~~~~~ll~~~~~---~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l  433 (465)
                      |+..|--...+++.+   ..+++++..+++++.+.+ +.+. ..+-.|.-+|.+.|++++|.++++++++.+|.+.-..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~  110 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  110 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHH
Confidence            444444445555553   467788999999998753 4444 4677788899999999999999999999998775443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.93  E-value=0.32  Score=33.25  Aligned_cols=124  Identities=15%  Similarity=0.074  Sum_probs=91.1

Q ss_pred             HhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-C----------------CCCCHHH
Q 012365           21 SCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMICHH-N----------------LKPNSET   83 (465)
Q Consensus        21 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~----------------~~~~~~~   83 (465)
                      +.-.|.+++..++..+.....   +..-||-++-.....-+-+-..++++.+-+. .                ...+...
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~   88 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEH   88 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHH
Confidence            344688999999999887642   4556666666666666666666666665431 0                0123455


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 012365           84 FRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVK  148 (465)
Q Consensus        84 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  148 (465)
                      .+..++.+...|+-+.-.++++.+.+.+ +|++...-.+..+|.+.|...++.+++.+.-+.|++
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            6777888888899999999998877655 788888899999999999999999999999888863

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=94.63  E-value=1.3  Score=38.73  Aligned_cols=340  Identities=7%  Similarity=-0.020  Sum_probs=185.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 012365           51 SILHACEESYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKK  130 (465)
Q Consensus        51 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  130 (465)
                      ..+..+.+.++++.....+     ...+.+...-.....+....|+.+.|...+..+=..| .......+.+...+.+.|
T Consensus        77 ~~l~~L~~~~~w~~~~~~~-----~~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~~~~~~  150 (450)
T d1qsaa1          77 RFVNELARREDWRGLLAFS-----PEKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSVWRASG  150 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHC-----CSCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHhccCHHHHHHhc-----cCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCCchHHHHHHHHHHhcC
Confidence            3456677778877655433     1224566666667777777888877777766554433 223334444555444444


Q ss_pred             CHHHH--HHHHHHHHHCC-----------CCCC-HHHHHHHHHhhCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-
Q 012365          131 DVQGA--LMVLKEMEQAN-----------VKPD-SQTFSYLIHNCSNEEDIIKYYEQLKSAGGQITKYVFMALINAYTT-  195 (465)
Q Consensus       131 ~~~~a--~~~~~~m~~~~-----------~~p~-~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  195 (465)
                      .+...  .+-+..+...|           +.++ .......+....+...+...   ....  ..+......+..++.+ 
T Consensus       151 ~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~~~~---~~~~--~~~~~~~~~~~~~l~rl  225 (450)
T d1qsaa1         151 KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLTF---ARTT--GATDFTRQMAAVAFASV  225 (450)
T ss_dssp             CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHHH---HHHS--CCCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChHhHHHH---HhcC--CCChhhhHHHHHHHHHH
Confidence            33221  11222222221           1111 11222222222222222221   1111  2333333333344333 


Q ss_pred             -cCCHHHHHHHHHHhcCCC-CChHHH---HHHHHHHHHcCCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHH
Q 012365          196 -CGEFEKARQVVLDAEIPV-KSRSEV---KSALVSALASHGRTSDAIIVYEEIKEAGCNLEPRAVIALIEHLNSEGELNR  270 (465)
Q Consensus       196 -~g~~~~a~~~~~~~~~~~-~~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  270 (465)
                       ..+.+.|..++....... ......   ...+...+...+..+.+...+......+  .+.......+......+++..
T Consensus       226 a~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~  303 (450)
T d1qsaa1         226 ARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRG  303 (450)
T ss_dssp             HHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHH
T ss_pred             hccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHH
Confidence             356778888887632211 111111   2223333445677788888888777665  455555555666677889999


Q ss_pred             HHHHHHHHcCCCCC-ccchhhHhhHhhhcCChhHHHHHHHHHHHcccchhHHHHHHHHHHHHhhhcCCCCchhhhHHhHH
Q 012365          271 LIQLLEEVHDPDYW-MDGCCRLILHCVRFKQLSSATDLLKQLKDKFKDDEMAMEYHFSEIFCQIATTDPPDVQIGLDLLQ  349 (465)
Q Consensus       271 a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~  349 (465)
                      +...+..+...... .........+....|+.+.|...|.....   ..  +++..+..--..  ..-.-....      
T Consensus       304 ~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~---~~--~fYG~LAa~~Lg--~~~~~~~~~------  370 (450)
T d1qsaa1         304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ---QR--GFYPMVAAQRIG--EEYELKIDK------  370 (450)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SC--SHHHHHHHHHTT--CCCCCCCCC------
T ss_pred             HHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc---CC--ChHHHHHHHHcC--CCCCCCcCC------
Confidence            99999988654332 22446777888899999999999999875   22  466665532211  100000000      


Q ss_pred             HHHhhcCCCCc-HH---HHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChhhHHHHHhccCC
Q 012365          350 FIKDELGLPPS-RK---CLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVLSYLWMYKAFLASGNRKSASKLLSKMPK  424 (465)
Q Consensus       350 ~m~~~~~~~p~-~~---~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  424 (465)
                           ....+. ..   .-..-+..+...|....|...|..+.+.   .+......+.....+.|.++.|+....+...
T Consensus       371 -----~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~aI~a~~~~~~  441 (450)
T d1qsaa1         371 -----APQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDLSVQATIAGKL  441 (450)
T ss_dssp             -----CCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC
T ss_pred             -----CCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhHHHHHHHHHHc
Confidence                 000000 00   0112345567889999999999988764   2555666777888899999999988777654

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.97  E-value=0.13  Score=35.55  Aligned_cols=73  Identities=21%  Similarity=0.270  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHHhhhcCCCCchhhhHHhHHHHHhhcCCCC-cH-HHHHHHHHHhHhhhhhhHHHHHHHHHHHcCCCCChh
Q 012365          320 MAMEYHFSEIFCQIATTDPPDVQIGLDLLQFIKDELGLPP-SR-KCLDFLLGACVNARDLKRAHLIWKEYENAGLPYNVL  397 (465)
Q Consensus       320 ~~~~~~l~~~~~~~~~~~~~~~~~A~~~~~~m~~~~~~~p-~~-~~~~~ll~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  397 (465)
                      ++..+-+.-+++........++++|+.++++.. +.  .| +. ..+-.|.-+|.+.|++++|++.++.+.+.  .|+-.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~-~~--~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i--eP~n~  107 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIY-KE--AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNK  107 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHH-HH--CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHH-hc--CchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc--CCCcH
Confidence            334444555555544445678899999999988 43  34 33 46666777899999999999999999996  45544

>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=92.99  E-value=0.59  Score=30.21  Aligned_cols=47  Identities=23%  Similarity=0.365  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 012365           27 VHVALDVVEQMVQGELVPSTETINSILHACEESYEFNLVRRIYPMIC   73 (465)
Q Consensus        27 ~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   73 (465)
                      .-++.+-++.+-.....|++....+.+++|.+.+++..|.++++.++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444444455555555555555555555555555555444

>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=91.69  E-value=1.3  Score=30.24  Aligned_cols=138  Identities=15%  Similarity=0.160  Sum_probs=73.4

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhhCChhHHHHHHH
Q 012365           93 KIKDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEEDIIKYYE  172 (465)
Q Consensus        93 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~  172 (465)
                      -.|.+++..+++.+....   .+..-||-+|.-....-+-+-.+++++..-..   -|       +..|.+...+..-+-
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FD-------ls~C~Nlk~vv~C~~   80 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD-------LDKCQNLKSVVECGV   80 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC-------GGGCSCTHHHHHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cC-------chhhhcHHHHHHHHH
Confidence            345666666666665542   34445555555555555555555555554321   11       122333332222111


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCChHHHHHHHHHHHHcCCChhHHHHHHHHHHHcCC
Q 012365          173 QLKSAGGQITKYVFMALINAYTTCGEFEKARQVVLDAEIPVKSRSEVKSALVSALASHGRTSDAIIVYEEIKEAGC  248 (465)
Q Consensus       173 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  248 (465)
                      .+     ..+...++..++.+...|+-+.-.+++.++-....+.++..-.+..+|.+.|...++-+++.+..+.|+
T Consensus        81 ~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          81 IN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             Hh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            11     113344555666777777777777776663334444444456667777777777777777777777764

>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=90.29  E-value=2  Score=29.83  Aligned_cols=83  Identities=8%  Similarity=0.090  Sum_probs=62.5

Q ss_pred             cccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhc----c
Q 012365           23 DLLKVHVALDVVEQMVQGELVPSTETINSILHACEE----SYEFNLVRRIYPMICHHNLKPNSETFRSMISLNVK----I   94 (465)
Q Consensus        23 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~   94 (465)
                      ...+.++|++.|++..+.|   +......|-..+..    ..+.++|.++|+...+.|   ++.....|-..|..    .
T Consensus        35 ~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~  108 (133)
T d1klxa_          35 SQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVV  108 (133)
T ss_dssp             TTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             cccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccC
Confidence            3567899999999998877   45555556655554    467899999999999887   45555566555554    4


Q ss_pred             CCHHHHHHHHHHHHHcC
Q 012365           95 KDFDSAYSLLDDLKEMN  111 (465)
Q Consensus        95 g~~~~a~~~~~~m~~~~  111 (465)
                      .+.++|..+|++..+.|
T Consensus       109 ~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         109 KNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHCC
Confidence            68899999999988876

>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=89.60  E-value=1.7  Score=28.04  Aligned_cols=63  Identities=17%  Similarity=0.312  Sum_probs=44.1

Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012365           61 EFNLVRRIYPMICHHNLKPNSETFRSMISLNVKIKDFDSAYSLLDDLKEMNLMPTASMYNAIMA  124 (465)
Q Consensus        61 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  124 (465)
                      +.-++.+-+..+....+.|++.+..+.+.+|-|.+++..|.++|+..+..- .++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHH
Confidence            455666777777777778888888888888888888888888888776442 233445555543

>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=85.21  E-value=11  Score=32.50  Aligned_cols=162  Identities=10%  Similarity=0.078  Sum_probs=94.9

Q ss_pred             HHHHhcccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHhhCCCCC-CHHHHHHHHHHHhcc
Q 012365           18 ITYSCDLLKVHVALDVVEQMVQGELVPSTETINSILHACEE--SYEFNLVRRIYPMICHHNLKP-NSETFRSMISLNVKI   94 (465)
Q Consensus        18 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~   94 (465)
                      +....+.|+...+.++...+..  . | ...|-..-..-..  .....++..++   .+..-.| ........+..+.+.
T Consensus        13 a~~a~~~~~~~~~~~~~~~L~d--y-p-L~pYl~~~~l~~~~~~~~~~~i~~Fl---~~~p~~P~~~~lr~~~l~~L~~~   85 (450)
T d1qsaa1          13 IKQAWDNRQMDVVEQMMPGLKD--Y-P-LYPYLEYRQITDDLMNQPAVTVTNFV---RANPTLPPARTLQSRFVNELARR   85 (450)
T ss_dssp             HHHHHHTTCHHHHHHHSGGGTT--S-T-THHHHHHHHHHHTGGGCCHHHHHHHH---HHCTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHhhhcC--C-C-CHHHHHHHHHHhccccCCHHHHHHHH---HHCCCChhHHHHHHHHHHHHHhc
Confidence            3345568888888888887743  2 2 2334333222222  23444444444   3332112 222334556677888


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHhhCChhHHHHHHHH
Q 012365           95 KDFDSAYSLLDDLKEMNLMPTASMYNAIMAGYFRKKDVQGALMVLKEMEQAN-VKPDSQTFSYLIHNCSNEEDIIKYYEQ  173 (465)
Q Consensus        95 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~~~~~  173 (465)
                      ++++.....+.     ..+++...-.....+....|+..+|...+..+-..| ..|+.               ...++..
T Consensus        86 ~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~---------------c~~l~~~  145 (450)
T d1qsaa1          86 EDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNA---------------CDKLFSV  145 (450)
T ss_dssp             TCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTH---------------HHHHHHH
T ss_pred             cCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchH---------------HHHHHHH
Confidence            88776554332     224556656677788889999999998888776554 33432               2335555


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 012365          174 LKSAGGQITKYVFMALINAYTTCGEFEKARQVVL  207 (465)
Q Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  207 (465)
                      +.+.| .++...+-.-+......|+...|..+..
T Consensus       146 ~~~~~-~lt~~~~~~R~~~~l~~~~~~~a~~l~~  178 (450)
T d1qsaa1         146 WRASG-KQDPLAYLERIRLAMKAGNTGLVTVLAG  178 (450)
T ss_dssp             HHHTT-CSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHhcC-CCCHHHHHHHHHHHHHcCChhhHHHHHh
Confidence            55554 3455555555666777789999988886